The present invention relates to RNA constructs, and particularly, although not exclusively, to mRNA constructs and saRNA replicons and to nucleic acids and expression vectors encoding such RNA constructs. The invention extends to the use of such RNA constructs in therapy, for example in treating diseases and/or in vaccine delivery. The invention extends to pharmaceutical compositions comprising such RNA constructs, and methods and uses thereof.
Messenger RNA (mRNA) is a promising tool for biotherapeutics. However, while mRNA therapeutics have been shown to be highly effective in small animals, the outcomes do not scale linearly when these formulations are translated in dose-escalation studies in humans. Furthermore, adverse events associated with the induction of interferon responses have been rate-limiting with respect to the increased doses of RNA likely to be effective in humans. The reason for this inconsistency is unclear, but the inventors hypothesize that inherent differences in human innate sensing pose a barrier to the translation of RNA therapeutics from the lab to the clinic.
Furthermore, innate sensing of RNA has been associated with the inhibition of protein expression. To date, the main approach to overcoming the innate recognition of exogenous RNA has been to use modified ribonucleotides that are less detectable by innate sensing mechanisms. However, modified mRNA is not completely undetectable, and still results in some induction of interferon production, protein silencing and reduced tolerability for human use (see
Another approach has been the use of self-amplifying or saRNA vectors, which are typically based on an alphavirus backbone that have the capacity to self-amplify their own RNA by encoding polymerase activity within their non-structural proteins. Prior art methods have involved replacing the structural proteins of these vectors by a gene of interest (GOI), for example encoding an antigen of interest be it a vaccine construct, or encoding a therapeutic protein. Other versions of saRNA have been based on picornaviruses, flaviviruses, and coronaviruses. When saRNA is taken up into the cytoplasm of target cells, this leads to amplification of the RNA by the encoded polymerase machinery and very high expression levels of the GOI. As a consequence, saRNA has been shown to induce immune responses with lower doses of saRNA than mRNA (10- to 100-fold lower) and results in prolonged protein expression for up to 60 days in mice.
However, as shown in
Accordingly, there is a need in the art to produce new means by which RNA therapeutics, be they mRNA- or saRNA-based, can be delivered and expressed in patients, such that they are able to overcome the innate immune system sensing.
The inventors have developed novel RNA constructs (saRNA and mRNA) that advantageously overcome the innate immune system which senses RNA, by expressing viral immune inhibitor proteins that block or reduce the activity of immune system machinery, resulting in improved translation (in the case of mRNA) and increased self-amplification and subsequent translation (in the case of saRNA systems), and therefore greater protein expression levels of the gene of interest, such as an antigen, in a host cell.
Accordingly, in a first aspect of the invention, there is provided an RNA construct encoding: (i) at least one therapeutic biomolecule; and (ii) at least one viral innate inhibitor protein (IIP).
RNA constructs, such as mRNA and saRNA replicons, have been postulated to be potential tools for the delivery and expression of genes of interest for vaccines and therapeutics. However, single stranded mRNA (ssRNA) and double stranded RNA (dsRNA) is detected intracellularly by innate sensing mechanisms that trigger responses, which inhibit protein translation. As a consequence, expression of genes of interest encoded by the RNA construct is significantly impaired and thus the immunogenic or therapeutic potential of RNA constructs, including saRNA and mRNA, is limited. Advantageously, the RNA constructs of the invention overcome this problem because they encode one or more viral innate inhibitor protein (IIP), which reduces or ablates the downstream innate inhibition of transgene expression within the host cell.
The induction of interferon is one downstream consequence of innate recognition, but it will be appreciated that other molecules and pathways can and are induced, as discussed below, and any of these will be inhibited by the one or more viral innate immunity inhibitor protein that is harboured on the RNA construct. Preferably, therefore, the at least one innate inhibitor protein (IIP) is capable of inhibiting the innate immune response to RNA in a subject treated with the RNA construct of the invention. The IIP can therefore be described as an inhibitor of innate immunity. It may also be described as an interferon inhibiting molecule in some embodiments.
One previously published approach to ablating the interferon response with saRNA used interferon inhibiting proteins from the vaccinia virus, E3, K3 and B18. However, in that study, the interferon inhibiting proteins were delivered and formulated as separate mRNA molecules that were combined with the saRNA. This requires the manufacture of both saRNA and mRNA, and necessitated the use of at least 3-6 times as much vaccinia mRNA as the saRNA replicon construct according to the invention to provide any observable enhancement in protein expression.
Advantageously, the presence, in the RNA construct of the first aspect, of one or more viral innate inhibitor protein, enables dual protein expression with the biotherapeutic molecule, i.e. a peptide or protein of interest. As opposed to delivering two different strands of RNA as described in the prior art, one encoding the peptide/protein of interest and one encoding the innate modulatory protein, when using the RNA construct of the invention, only one single strand is delivered to the target cell, thereby ensuring colocalization of the RNA molecule and the viral immune inhibitor protein.
The viral immune inhibitor protein inhibits the innate sensing of RNA in the host cell, thereby enabling higher protein expression and translation, and the viral immune inhibitor protein expression itself is co-expressed and translated from the same RNA molecule as the therapeutic biomolecule.
As described in the examples, the RNA constructs of the invention (also known as “Stealthicons”) encoding luciferase or VEGF-A (as a GOI) have surprisingly been shown to increase luciferase or VEGF-A protein expression levels by up to 12-fold in a human cell line with intact innate sensing systems in vitro. The skilled person would readily appreciate that the luciferase reporter is truly representative of the therapeutic biomolecule described herein (i.e. the GOI), because it proves that the RNA construct is able to express the gene harboured on the RNA molecule of the invention. As such, the luciferase provides robust evidence of the proof of concept that the RNA construct of the invention can be used to express any therapeutically active biomolecule. In addition, VEGF-A (see
The RNA construct of the first aspect may be single-stranded RNA or double-stranded RNA.
The RNA construct may comprise a mRNA molecule or a saRNA molecule.
In one embodiment, the RNA construct comprises mRNA.
In a preferred embodiment, however, the RNA construct comprises self-amplifying RNA (saRNA).
Preferably, the saRNA construct comprises or is derived from a positive stranded RNA virus selected from the group of genus consisting of: alphavirus; picornavirus; flavivirus; rubivirus; pestivirus; hepacivirus; calicivirus and coronavirus.
Preferably, the RNA construct comprises or is derived from an alphavirus. Suitable wild-type alphavirus sequences are well-known. Representative examples of suitable alphaviruses include Aura, Bebaru virus, Cabassou, Chikungunya virus, Eastern equine encephalomyelitis virus, Fort Morgan, Getah virus, Kyzylagach, Mayaro, Mayaro virus, Middleburg, Mucambo virus, Ndumu, Pixuna virus, Ross River virus, Semliki Forest, Sindbis virus, Tonate, Triniti, Una, Venezuelan equine encephalomyelitis, Western equine encephalomyelitis, Whataroa, and Y-62-33. Preferably, therefore, the RNA construct comprises or is derived from any of these alphaviruses.
Preferably, the RNA construct comprises or is derived from a virus selected from the group of species consisting of: Venezuelan Equine Encephalitis Virus (VEEV); enterovirus 71; Encephalomyocarditis virus; Kunjin virus; and Middle East respiratory syndrome virus. In one preferred embodiment, the RNA construct comprises or is derived from Kunjin virus. Preferably, the RNA construct comprises or is derived from VEEV.
Preferably, the RNA construct comprises a nucleotide sequence, which encodes the at least one innate inhibitor protein (IIP), which is capable of reducing, ablating or blocking the innate immune response to RNA. The IIP is, therefore, an inhibitor of innate immunity, and can therefore be described as a viral innate immunity inhibitor protein. The IIP may also be an inhibitor of interferon signalling.
The reduction, ablation or blocking of the innate immune response to RNA in a host cell transformed with that RNA molecule (i.e. non-endogenously produced RNA) may be achieved by the IIP regulating interferon production, inhibiting innate signalling pathways, and/or inhibiting RNA recognition. It will be appreciated that regulation of interferon production could be described as inhibiting innate signalling. Therefore, innate sensing and innate signalling systems include: (a) RNA recognition systems, (b) pathways leading to interferon production and resulting in stimulation of interferon-stimulated genes, and (c) interferon signalling systems.
The IIP may, therefore, fall into any of the following four broad categories:—
It will be appreciated that some IIPs may have multiple actions. For instance, a Category 4 IIP may also be classified as a Category 2 IIP (e.g. IRF3, IRF7) and a Category 3 IIP (e.g. IRF9).
In one embodiment, the reduction, ablation or blocking of the innate immune response to RNA is preferably achieved by the IIP by reducing or preventing the recognition of cytosolic RNA by pattern recognition receptors leading to activation of interferon regulatory factor 3 and 7 (IRF3 and IRF7) and NF-κB transcription factors, directly triggering a range of antiviral genes (e.g. IFIT1-3, Mx1, Mx2 known to suppress RNA expression), proinflammatory genes whose products orchestrate the innate immune response, and direct activation of canonically IFN-stimulated genes (ISGs) upstream of any interferon dependent cascade. These pathways may be enhanced by the induction of type I & III interferons that provide a positive feedback loop further amplifying many antiviral responses.
The at least one IIP may be derived from a herpes simplex virus. The IIP may be derived from a hepatitis virus, optionally a hepatitis C virus. The IIP may be derived from a vaccinia virus. The IIP may be derived from a coronavirus, optionally Middle East Respiratory Syndrome (MERS) virus or Severe Acute Respiratory Syndrome (SARS) virus. The SARS virus may be SARS-Cov or SARS-CoV-2. The IIP may be derived from a Karposi's sarcoma-associated herpesvirus (KSHV). The IIP may be derived from an Ebola virus.
The at least one innate inhibitor protein (IIP) may be selected from a group of viral IIPs consisting of: HPV16 E6; HSV ICP34.5; HCV E2; HCV NS5a; VACV E3L; VACV K3L; MERS ORF8B; KSHV ORF52; EBOV VP35; SARS-2 ORF3b and VACV C6 or an orthologue thereof. It will be appreciated that these IIPs can bring about inhibition of innate signalling systems leading to IFN production.
In one embodiment, the at least one IIP may be HPV16 E6 (human papillomavirus E6; NP_041325.1; Accession Number—NCBI Reference Sequence: NC_001526.4; UniProtKB—P03126 (VE6_HPV16)), or an orthologue thereof. This protein is believed to prevent the establishment of a cellular antiviral state by acting on multiple proteins within the innate signalling cascade including PKR, IRF3 and IRF9. Westrich J A, Warren C J, Pyeon D. (2017). Evasion of host immune defenses by human papillomavirus. Virus Res. 2017 231, 21-33. doi: 10.1016/j.virusres.2016.11.023. Noguchi T, Satoh, S, Noshi T, Hatada E, Fukuda R, Kawai A, Ikeda S, Hijikata M. Shimotohno K (2001), Effects of Mutation in Hepatitis C Virus Nonstructural Protein 5A on Interferon Resistance Mediated by Inhibition of PKR Kinase Activity in Mammalian Cells, Microbiol. Immunol., 45-840. doi: 10.1111/j.1348-0421.2001.tbo1322.x.).
One embodiment of the HPV16 E6 polypeptide sequence is represented herein as SEQ ID No: 1, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 1, or a variant or fragment thereof.
In one embodiment, the HPV16 E6 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 2, as follows:
Accordingly, preferably the HPV16 E6 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 2, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 3, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 3, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 1 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 4, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 4, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 4 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 5, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 5, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be HSV ICP34.5 (Herpes simplex virus ICP34.5; YP_009137073.1; Accession Number—NCBI Reference Sequence: NC_001806.2; UniProtKB—P36313 (ICP34_HHV11)), or an orthologue thereof. HSV ICP34.5 has been shown to sequester TBK1 and interfere with the interaction between TBK1 and IRF3, ultimately leading to the inactivation of IRF3. Zhu H, Zheng C (2020).
The race between host antiviral innate immunity and the immune evasion strategies of Herpes simplex virus 1. Microbiol Mol Biol Rev., 84(4): e00099-20. One embodiment of the HSV ICP34.5 polypeptide sequence is represented herein as SEQ ID No:6, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 6, or a variant or fragment thereof.
In one embodiment, the HSV ICP34.5 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 7, as follows:
Accordingly, preferably the HSV ICP34.5 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 7, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 8, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 8, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 6 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 9, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 9, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 9 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 10, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 10, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be HCV E2 (hepatitis C virus E2; NS1 Protein from polyprotein ADC54662.1; Accession Number—Genomic RNA Translation ADC54662.1; UniProtKB—D3W8R2 (D3W8R2_9HEPC)), or an orthologue thereof. One action of HCV E2 is to inhibit PKR. Taylor D R, Shi S T, Romano P R, Barber G N, Lai M M C (1999). Inhibition of the interferon-inducible protein kinase PKR by HCV E2 protein. Science, 285, 107-110. doi: 10.1126/science.285.5424.107 One embodiment of the HCV E2 polypeptide sequence is represented herein as SEQ ID No:11, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 11, or a variant or fragment thereof.
In one embodiment, the HCV E2 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 12, as follows:
Accordingly, preferably the HCV E2 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 12, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 13, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 13, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 11 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 14, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 14, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 14 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 15, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 15, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be HCV NS5a (hepatitis C virus NS5a; isolate H—Genomic RNA translation: AAA45534.1; UniProtKB—P27958 (POLG_HCV77)), or an orthologue thereof. One embodiment of the HCV NS5a polypeptide sequence is represented herein as SEQ ID No:16, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 16, or a variant or fragment thereof.
In one embodiment, the HCV NS5a polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 17, as follows:
Accordingly, preferably the HCV NS5a polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 17, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 18, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 18, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 16 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 19, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 19, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 19 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 20, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 20, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be VACV E3L (vaccinia virus E3L; AEY72868.1; Accession Number—Genomic DNA Translation: AEY72868.1; UniProtKB—H2DSW3 (H2DSW3_9POXV)), or an orthologue thereof. VACV E3L would inhibit innate sensing systems through inhibition of PKR and IRF3 and 7 Perdiuero B, Esteban M (2009) The interferon system and vaccinia virus evasion mechanisms. J Interferon Cytokine Res, 29, 9, 581-198.
One embodiment of the VACV E3L polypeptide sequence is represented herein as SEQ ID No:21, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 21, or a variant or fragment thereof.
In one embodiment, the VACV E3L polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 22, as follows:
Accordingly, preferably the VACV E3L polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 22, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 23, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 23, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 21 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 24, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 24, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 24 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 25, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 25, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be VACV K3L (vaccinia virus K3L; P20639.1; Accession Number—Genomic DNA Translation: AAA48009.1; UniProtKB—P20639 (K3_VACCC)), or an orthologue thereof. VACV K3L inhibits PKR. Perdiuero B, Esteban M (2009) The interferon system and vaccinia virus evasion mechanisms. J Interferon Cytokine Res, 29, 9, 581-198. One embodiment of the VACV K3L polypeptide sequence is represented herein as SEQ ID No:26, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 26, or a variant or fragment thereof.
In one embodiment, the VACV K3L polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 27, as follows:
Accordingly, preferably the VACV K3L polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 27, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 28, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 28, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 26 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 29, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 29, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 29 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 30, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 30, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be Vaccinia C6 (VACV C6—vaccinia virus C6; Accession Number—Genomic DNA Translation: AAA69602.1; UniProtKB—P17362 (C6_VACCW)), or an orthologue thereof. This protein is believed to prevent the establishment of a cellular antiviral state by blocking virus-induced phosphorylation and activation of interferon regulatory factors 3/IRF3 and 7/IRF7, transcription factors critical for the induction of interferons alpha and beta. This blockage may be produced through the inhibition of host TBK1, by binding host TBK1 adapter proteins TBKBP1 and AZI2, thereby producing a strong inhibition of the phosphorylation and activation of IRF3 and IRF7. It may also act as an inhibitor of the cellular response to type I IFN by interacting with host STAT2. Mechanistically, it may further exert its inhibitory effect after host ISGF3 complex (composed of STAT1. STAT2 and IRF9) binding to the interferon stimulated response element (Smith G L. Vaccinia Virus Protein C6: A Multifunctional Interferon Antagonist. Adv Exp Med Biol. 2018; 1052:1-7. doi: 10.1007/978-981-10-7572-8_1. PMID: 29785476.). One embodiment of the Vaccinia C6 polypeptide sequence is represented herein as SEQ ID No:31, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 31, or a variant or fragment thereof.
In one embodiment, the Vaccinia C6 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 32, as follows:
Accordingly, preferably the Vaccinia C6 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 32, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 33, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 33, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 31 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 34, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 34, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 34 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 35, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 35, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be MERS ORF8b (Middle East Respiratory Syndrome virus ORF8b; Accession Number—GenBank: ANF29170.1; UniProtKB—A0A1W5LGP6 (A0A1W5LGP6_MERS)), or an orthologue thereof. MERS ORF8b is believed to be an antagonist of MDA5-mediated NF-κB activation and IRF3 activation. (Lee J-Y, Bae S, Myoung J (2019) Middle East Respiratory Syndrome Coronavirus-Encoded Accessory Proteins Impair MDA5- and TBK1-Mediated Activation of NF-κB. J Microbiol Biotechnol, 29, 8,1316-1323 doi: 10.4014/jmb.1908.08004. Wong, L-yR, Ye Z W, Lui P-Y, Zheng X, Yuan S, Zhu L, Fung S-Y et al. (2020) Middle East respiratory syndrome coronavirus ORF8b accessory protein suppresses type I IFN expression by impeding HSP70-dependent activation of IRF3 kinase IKK€. J Immunol, 205, 6, 1564-1579).
One embodiment of the MERS ORF8b polypeptide sequence is represented herein as SEQ ID No:36, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 36, or a variant or fragment thereof.
In one embodiment, the MERS ORF8b polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 37, as follows:
Accordingly, preferably the MERS ORF8b polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 37, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 38, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 38, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 36 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 39, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 39, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 39 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 40, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 40, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be KSHV ORF52 (Kaposi's sarcoma-associated herpesvirus ORF52; Accession Number—Genomic DNA Translation: ACY00451.1; UniProtKB—F5HBL8 (F5HBL8_HHV8)), or an orthologue thereof. ORF52 protein of Kaposi's sarcoma-associated herpesvirus (KSHV) is believed to directly inhibit cGAS enzymatic activity and thus prevent generation of the signalling molecule cGAMP by binding to both cGAS and DNA. (Wu J-J, Li W, Shao Y, Avey D et al. (2015) Inhibition of cGAS DNA Sensing by a Herpesvirus Virion Protein. Cell Host Microbe. 18, 3, 333-344. doi: 10.1016/j.chom.2015.07.015.).
One embodiment of the KSHV ORF52 polypeptide sequence is represented herein as SEQ ID No:41, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 41, or a variant or fragment thereof.
In one embodiment, the KSHV ORF52 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 42, as follows:
Accordingly, preferably the KSHV ORF52 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 42, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 43, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 43, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 41 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 44, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 44, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 44 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 45, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 45, or a fragment or variant thereof.
In one embodiment, the at least one IIP may be Ebola VP35 (EBOV VP35; NP_066244.1; Accession Number—NCBI Reference Sequence: NC_002549.1; UniProtKB—Q05127 (VP35_EBOZM)), or an orthologue thereof. Ebola virus VP35 protein is thought to (amongst other effects on innate signalling cascades) bind to the cellular protein PACT, a cellular dsRNA binding protein required for activation of RIG-I, inhibit IRF3 and IRF7 activity (Luthra P, Raman P, Mire C E, Weisand C, Isuda Y et al. (2013) Mutual antagonism between Ebola virus VP35 protein and the RIG-I activator PACT determines infection outcome. Cell Host Microbe., 14(1):74-84. doi: 10.1016/j.chom.2013.06.010. Hartman A L, Bird B H, Towner J S, Anoniadou Z-A, Zaki S R, Nichol S T (2008) Inhibition of IRF-3 activation by VP35 is critical for the high level of virulence of Ebola virus. J Virol. 82, 6, 2699-2704. Audet J, Kobinger G P (2015). Immune evasion in ebolavirus infections. Viral Immunol., 28, 1, 10-18.).
One embodiment of the Ebola VP35 polypeptide sequence is represented herein as SEQ ID No:46, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 46, or a variant or fragment thereof.
In one embodiment, the Ebola VP35 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 47, as follows:
Accordingly, preferably the Ebola VP35 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 47, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 48, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 48, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 46 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 49, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 49, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 49 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 50, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 50, or a fragment or variant thereof.
In another embodiment, the at least one IIP may be derived from SARS-CoV-2 ORF3b (Accession Number—NCBI Reference Sequence: NC_045512.2) or an orthologue thereof. One embodiment of the wild type of SARS-CoV-2 ORF3b polypeptide sequence from which the at least one IIP may be derived is represented herein as SEQ ID No:51. The asterisks represent stop codons in the wild-type sequence, one or more of which may be mutated in the derived IIP. SEQ ID No:51 is as follows:
In one embodiment, the at least one IIP may be an ORF3b*57 variant of the wild type of SARS-CoV-2 ORF3b, or an orthologue thereof. One embodiment of the SARS-CoV-2 ORF3b*57 variant polypeptide sequence is represented herein as SEQ ID No:52, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 52, or a variant or fragment thereof.
In one embodiment, the SARS-CoV-2 ORF3b*57 variant polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 53, as follows:
Accordingly, preferably the SARS-CoV-2 ORF3b*57 variant polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 53, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 54, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 54, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 52 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 55, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 55, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA is sequence of SEQ ID No: 55 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 56, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 56, or a fragment or variant thereof.
In another embodiment, the at least one IIP may be an ORF3b*79 variant of the wild type of SARS-CoV-2 ORF3b, or an orthologue thereof. One embodiment of the SARS-CoV-2 ORF3b*79 variant polypeptide sequence is represented herein as SEQ ID No:57, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 57, or a variant or fragment thereof.
In one embodiment, the SARS-CoV-2 ORF3b*79 variant polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 58, as follows:
Accordingly, preferably the SARS-CoV-2 ORF3b*79 variant polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 58, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 59, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 59, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 57 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 60, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 60, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 60 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 61, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 61, or a fragment or variant thereof.
In yet another embodiment, the at least one IIP may be an ORF3b*57 Ecuador variant of the wild type of SARS-CoV-2 ORF3b, or an orthologue thereof. One embodiment of the SARS-CoV-2 ORF3b*57 Ecuador variant polypeptide sequence is represented herein as SEQ ID No:62, as follows:
Therefore, preferably the RNA construct of the first aspect comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 62, or a variant or fragment thereof.
In one embodiment, the SARS-CoV-2 ORF3b*57 Ecuador variant polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 63, as follows:
Accordingly, preferably the SARS-CoV-2 ORF3b*57 Ecuador variant polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 63, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 64, as follows:
Furthermore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 64, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 62 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 65, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 65, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 65 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 66, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 66, or a fragment or variant thereof.
In other embodiments, the at least one IIP may be a viral inhibitory protein which blocks or inhibits the activity of MDA-5, and selected from a group consisting of:
In other embodiments, the at least one IIP may be an Arenavirus Z protein selected from a group consisting of: LASV; DANV; LCMV; LUJV; CHPV; MACV; GTOV; JUNV; and SABV. These IIPs are believed to interact with the RLR, RIG-I and MDA-5 and inhibit interaction with mitochondrial antiviral signaling (MAVS).
In other embodiments, the at least one IIP may be a 3C protease protein selected from a group consisting of: Cosackieviruses CV-A16 or CV-A6; EV D-68 or 71; and Poliovirus HEV-C. These IIPs are believed to inhibit MDA interaction with MAVS.
In other embodiments, the at least one IIP may be a 2A protease protein selected from a group consisting of: Poliovirus HEV-C; CVB3; and EV71. These IIPs are believed to inhibit the RLR pathway by cleavage of MDA-5 and MAVS.
In other embodiments, the at least one IIP may be a protein degrading or acting on RIG-I and selected from a group consisting of: hMPV G; CVB3 3C protease; Polio Virus 3Cpro; Hepatitis C NS3/4A; DENV NS3; EV71 3Cpro; FMDV Lpro and 3Cpro; Toscana Virus NSS; Influenza A/PR/8/34 NS1; and MERS ORF8b. These IIPs are preferred in the embodiment in which the RNA construct comprises saRNA or mRNA.
In other embodiments, the at least one IIP may be a protein acting on PACT selected from a group consisting of: SARS CoV N protein; and MHV N.
In other embodiments, the at least one IIP may be a protein acting against LGP2 (which enhances MDA2 signalling), including, for example, FMDV Lpro, 3Cpro and 2B.
In other embodiments, the at least one IIP may be a protein that impacts activity of TRAF3, including, for example, MERS CoV M.
In other embodiments, the at least one IIP may be a protein which acts on MAVS selected from a group consisting of: Influenza virus A PB1-F2; Hepatitis A ABC; Hepatitis B X; Hepatitis C NS3/4A; SARS-CoV NSP15; SARS CoV ORF9 (96); Coxsackievirus B3 2Apro and 3Cpro; Rhinovirus 2Apro and 3Cpro; Rotavirus VP3; GB Virus B NS3/4A; EV71 2Apro; HAV 3Cpro; Human metapneumovirus M2-2; and Enterovirus EV71 2A.
In other embodiments, the at least one IIP may be a protein that blocks IRF-3 activity selected from a group consisting of: HCV and NSP1B; Ebola vNS3; HPV16 E6; Hepatitis E methyltransferase; PRV Npro; HSV1 Us3; HSV2 Us1; CSFV Npro; BDV Npro; Bovine RV NS1 and NS2; Hepatitis B virus Orf3; PBoV NP1; Hepatitis E ORF3; and MERS ORF8b.
In other embodiments, the at least one IIP may be a protein that inhibits IRF7 activity selected from a group consisting of: Rotavirus NSP1; KSHV ORF45; EBV BZLF-1; Ebola VP35; and Enterovirus 71 and 68 3CPro.
In other embodiments, the at least one IIP may be a protein that impacts NF-kβ activity selected from a group consisting of: Polio 3C; FMDV Lpro; MERS CoV ORF4b (246aa); MuHV ORF73; Torque Teno virus ORF2; EBV EBNA1; and SV5 and hPIV2 Vproteins.
In other embodiments, the at least one IIP may be a protein that impacts TBK-1 or IKKε activities and selected from a group consisting of: BDV P; HPV E6 and HPV E7; Arenavirus NP1; HCV NS3 protein; DENV1 NS4A; DENV1, 2 and 4 NS2A and NS2B; WNV NS4A; Ebola VP35; Rabies Virus PP; PEDV N protein; and HSV1 ICP27 and VP24.
In other embodiments, the at least one IIP may be a protein that impacts on the activity of NEMO, such as for example, murine CTMV M45.
The following viral IIPs are believed to block or inhibit activation of MDA-5.
The V protein binds to the helicase domain of MDA-5 and blocks its activation by inhibiting dsRNA binding and consequent self-association. (Childs K S, Andresjeva J, Randall R E & Goobourn S (2009) Mechanism of MDA-5 inhibition by paramyxovirus V proteins. J Virol 83, 3, 1465-1473) In one embodiment, the at least one IIP is SV5B, or an orthologue thereof. One embodiment of the polypeptide sequence of Simian Virus (PIV5 Non-structural protein V) is represented herein as SEQ ID No: 95, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 95, or a variant or fragment thereof.
In one embodiment, the SV5B polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 96, as follows:
Accordingly, preferably the SV5B polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 96, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the SV5B polypeptide is provided herein as SEQ ID No: 97, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 97, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 98, or a fragment or variant thereof.
In one embodiment, the at least one IIP is PIV2 Non-structural protein V (P19847), or an orthologue thereof. One embodiment of the polypeptide sequence of PIV2 is represented herein as SEQ ID No: 99, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 99, or a variant or fragment thereof.
In one embodiment, the PIV2 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 100, as follows:
Accordingly, preferably the PIV2 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 100, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the PIV2 polypeptide is provided herein as SEQ ID No: 101, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 101, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 101 is provided herein as SEQ ID No: 102, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 102, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Mumps Non-structural protein V (P30928), or an orthologue thereof. One embodiment of the polypeptide sequence of Mumps V protein is represented herein as SEQ ID No: 103, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 103, or a variant or fragment thereof.
In one embodiment, the Mumps V polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 104, as follows:
Accordingly, preferably the Mumps V polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 104, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Mumps V polypeptide is provided herein as SEQ ID No: 105, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 105, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 105 is provided herein as SEQ ID No: 106, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 106, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Sendai Virus Protein V (strain Fushimi) (P69284), or an orthologue thereof. One embodiment of the polypeptide sequence of Sendai Virus Protein V (SeV V protein) is represented herein as SEQ ID No: 107, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 107, or a variant or fragment thereof.
In one embodiment, the SeV V polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 108, as follows:
Accordingly, preferably the SeV V polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 108, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the SeV V polypeptide is provided herein as SEQ ID No: 109, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 109, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 109 is provided herein as SEQ ID No: 110, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 110, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Measles Non-structural protein V (strain Ichinose-B95a) (POC774), or an orthologue thereof. One embodiment of the polypeptide sequence of Measles V protein is represented herein as SEQ ID No: 111, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 111, or a variant or fragment thereof.
In one embodiment, the Measles V polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 112, as follows:
Accordingly, preferably the Measles V polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 112, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Measles V polypeptide is provided herein as SEQ ID No: 113, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 113, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 113 is provided herein as SEQ ID No: 114, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 114, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Nipah virus Non-structural protein V (NiV V protein) (Q997F2; V_NIPAV), or an orthologue thereof. One embodiment of the polypeptide sequence of NiV V protein is represented herein as SEQ ID No: 115, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 115, or a variant or fragment thereof.
In one embodiment, the NiV V polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 116, as follows:
Accordingly, preferably the NiV V polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 116, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the NiV V polypeptide is provided herein as SEQ ID No: 117, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 117, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 117 is provided herein as SEQ ID No: 118, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 118, or a fragment or variant thereof.
In one embodiment, the at least one IIP is POLG_EMCV (Encephalomyocarditis virus 2C) genome polyprotein (Li L, Fan H, Song Z, Liu X, Bai J, Jiang P (2019) Encephalomyocarditis virus 2C protein antagonizes interferon-B signaling pathway through interaction with MDA5 Antiviral Res, 161, 70-84), or an orthologue thereof. One embodiment of the polypeptide sequence of EMCV is represented herein as SEQ ID No: 119, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 119, or a variant or fragment thereof.
In one embodiment, the EMCV polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 120, as follows:
Accordingly, preferably the EMCV polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 120, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EMCV polypeptide is provided herein as SEQ ID No: 121, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 121, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 121 is provided herein as SEQ ID No: 122, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 122, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Birnavirus VP3 (Avian infectious bursal disease virus (IBDV) (Gumboro disease virus) Capsid Protein VP3), or an orthologue thereof (Ye C, Jia L, Sun Y, Hu B, Wang L, Xingmeng L, Zu J (2014) Inhibition of antiviral innate immunity by birnavirus VP3 protein via blockage of viral double-stranded RNA binding to the host cytoplasmic RNA detector MDA5. J Virol. 88, 18, 11154-11156). One embodiment of the polypeptide sequence of Birnavirus VP3 is represented herein as SEQ ID No: 123, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 123, or a variant or fragment thereof.
In one embodiment, the Birnavirus VP3 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 124, as follows:
Accordingly, preferably the Birnavirus VP3 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 124, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Birnavirus VP3 polypeptide is provided herein as SEQ ID No: 125, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 125, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 125 is provided herein as SEQ ID No: 126, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 126, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Porcine delta coronavirus NS6 protein (A0A0K2D1N4), or an orthologue thereof. Fang P, Fang L, Ren J, Hong Y, Liu X, Zhao Y, Wang D, Peng G, Xiai S (2018) Porcine deltacoronavirus accessory protein NS6 antagonises interferon beta production by interfering with the binding of RIG-I/MDA-5 to double stranded RNA. J Virol., 92, 15, e00712-18. One embodiment of the polypeptide sequence of Porcine delta coronavirus NS6 is represented herein as SEQ ID No: 127, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 127, or a variant or fragment thereof.
In one embodiment, the Porcine delta coronavirus NS6 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 128, as follows:
Accordingly, preferably the Porcine delta coronavirus NS6 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 128, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Porcine delta coronavirus NS6 polypeptide is provided herein as SEQ ID No: 129, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 129, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 129 is provided herein as SEQ ID No: 130, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 130, or a fragment or variant thereof.
In one embodiment, the at least one IIP is LASV Z protein (073557|RING finger protein Z Lassa virus (strain Mouse/Sierra Leone/Josiah/1976), or an orthologue thereof (Xing J, Ly H, Liang Y J (2015) The Z proteins of pathogenic but not nonpathogenic arenaviruses inhibit RIG-I-like receptor-dependent interferon production. J Virol., 89, 5, 2944-2955. One embodiment of the polypeptide sequence of LASV Z is represented herein as SEQ ID No: 131, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 131, or a variant or fragment thereof.
In one embodiment, the LASV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 132, as follows:
Accordingly, preferably the LASV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 132, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the LASV Z polypeptide is provided herein as SEQ ID No: 133, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 133, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 133 is provided herein as SEQ ID No: 134, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 134, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DANV Z protein (B1NX60; RING finger protein Z Dandenong virus), or an orthologue thereof. One embodiment of the polypeptide sequence of DANV Z is represented herein as SEQ ID No: 135, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 135, or a variant or fragment thereof.
In one embodiment, the DANV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 136, as follows:
Accordingly, preferably the DANV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 136, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DANV Z polypeptide is provided herein as SEQ ID No: 137, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 137, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 137 is provided herein as SEQ ID No: 138, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 138, or a fragment or variant thereof.
In one embodiment, the at least one IIP is LCMV Z protein (P18541; RING finger protein Z Lymphocytic choriomeningitis virus (strain Armstong), or an orthologue thereof. One embodiment of the polypeptide sequence of LCMV Z protein is represented herein as SEQ ID No: 139, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 139, or a variant or fragment thereof.
In one embodiment, the LCMV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 140, as follows:
Accordingly, preferably the LCMV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 140, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the LCMV Z polypeptide is provided herein as SEQ ID No: 141, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 141, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 141 is provided herein as SEQ ID No: 142, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 142, or a fragment or variant thereof.
In one embodiment, the at least one IIP is LUJV Z protein (C5ILC3; Multifunctional matrix-like protein Z Lujp mammarenavirus), or an orthologue thereof. One embodiment of the polypeptide sequence of LUJV Z protein is represented herein as SEQ ID No: 143, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 143, or a variant or fragment thereof.
In one embodiment, the LUJV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 144, as follows:
Accordingly, preferably the LUJV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 144, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the LUJV Z polypeptide is provided herein as SEQ ID No: 145, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 145, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 145 is provided herein as SEQ ID No: 146, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 146, or a fragment or variant thereof.
In one embodiment, the at least one IIP is CHPV Z protein (B2C4J2; RING finger protein Z Chapare mammarenavirus (isolate Human/Bolivia/810419/2003), or an orthologue thereof. One embodiment of the polypeptide sequence of CHPV Z protein is represented herein as SEQ ID No: 147, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 147, or a variant or fragment thereof.
In one embodiment, the CHPV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 148, as follows:
Accordingly, preferably the CHPV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 148, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the CHPV Z polypeptide is provided herein as SEQ ID No: 149, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 149, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 149 is provided herein as SEQ ID No: 150, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 150, or a fragment or variant thereof.
In one embodiment, the at least one IIP is MACV Z protein (Q6IUF9; RING finger protein Z Machupo virus), or an orthologue thereof. One embodiment of the polypeptide sequence of MACV Z protein is represented herein as SEQ ID No: 151, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 151, or a variant or fragment thereof.
In one embodiment, the MACV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 152, as follows:
Accordingly, preferably the MACV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 152, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the MACV Z polypeptide is provided herein as SEQ ID No: 153, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 153, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 153 is provided herein as SEQ ID No: 154, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 154, or a fragment or variant thereof.
In one embodiment, the at least one IIP is GTOV Z protein (Q6UY71; RING finger protein Z Guanarito mammarenavirus (isolate Human/Venezuela/NH-95551/1990), or an orthologue thereof. One embodiment of the polypeptide sequence of GTOV Z protein is represented herein as SEQ ID No: 155, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 155, or a variant or fragment thereof.
In one embodiment, the GTOV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 156, as follows:
Accordingly, preferably the GTOV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 156, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the GTOV Z polypeptide is provided herein as SEQ ID No: 157, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 157, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 157 is provided herein as SEQ ID No: 158, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 158, or a fragment or variant thereof.
In one embodiment, the at least one IIP is JUNV Z protein (Q6IVU5; RING finger protein Z OS=Junin mammarenavirus), or an orthologue thereof. One embodiment of the polypeptide sequence of JUNV Z is represented herein as SEQ ID No: 159, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 159, or a variant or fragment thereof.
In one embodiment, the JUNV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 160, as follows:
Accordingly, preferably the JUNV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 160, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the JUNV Z polypeptide is provided herein as SEQ ID No: 161, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 161, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 161 is provided herein as SEQ ID No: 162, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 162, or a fragment or variant thereof.
In one embodiment, the at least one IIP is SABV Z protein (Q6UY62; RING finger protein Z Sabia mammarenavirus (isolate Human/Brasil/SPH114202/1990)), or an orthologue thereof. One embodiment of the polypeptide sequence of SABV Z protein is represented herein as SEQ ID No: 163, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 163, or a variant or fragment thereof.
In one embodiment, the SABV Z polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 164, as follows:
Accordingly, preferably the SABV Z polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 164, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the SABV Z polypeptide is provided herein as SEQ ID No: 165, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 165, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 165 is provided herein as SEQ ID No: 166, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 166, or a fragment or variant thereof.
In other embodiments, the at least one IIP may be a 3C protease protein.
In one embodiment, the at least one IIP is CV-A16 3C protease (Q9QF31; Coxsackievirus A16 (strain Tainan/5079/98 Protease 3C), or an orthologue thereof (Rui Y, Su Jm Wang H, Chang J, Wang S, Zhenf W, Cai Y, Gordy J T, Markham R, Kong W, Zhang W, Yu X-F. (2017) Disruption of MDA5-Mediated Innate Immune Responses by the 3C Proteins of Coxsackievirus A16, Coxsackievirus A6, and Enterovirus D68. J Virol 91, 13, e00546-17). One embodiment of the polypeptide sequence of CV-A16 3C protease is represented herein as SEQ ID No: 167, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 167, or a variant or fragment thereof.
In one embodiment, the CV-A16 3C protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 168, as follows:
Accordingly, preferably the CV-A16 3C protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 168, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the CV-A16 3C protease polypeptide is provided herein as SEQ ID No: 169, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 169, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 169 is provided herein as SEQ ID No: 170, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 170, or a fragment or variant thereof.
In one embodiment, the at least one IIP is CV-A6 3C protease (L7P6C4; Genome polyprotein Coxsackievirus A6 Protease 3C), or an orthologue thereof. One embodiment of the polypeptide sequence of CV-A6 3C protease is represented herein as SEQ ID No: 171, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 171, or a variant or fragment thereof.
In one embodiment, the CV-A6 3C protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 172, as follows:
Accordingly, preferably the CV-A6 3C protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 172, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the CV-A6 3C protease polypeptide is provided herein as SEQ ID No: 173, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 173, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 173 is provided herein as SEQ ID No: 174, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 174, or a fragment or variant thereof.
In one embodiment, the at least one IIP is EV D-68 3C protease (Q68T42; Genome polyprotein Human enterovirus D68; IRF7 cleavage), or an orthologue thereof (Xiang Z, Liu L, Lei X, Zhou Z, He B, Wang J (2015) 3C protease of enterovirus D68 inhibits cellular defense mediated interferon regulatory factor. J Virol., 90, 3, 1613-2161. doi: 10.1128/JVI.02395-15. Print 2016 Feb. 1). One embodiment of the polypeptide sequence of EV D-68 3C protease is represented herein as SEQ ID No: 175, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 175, or a variant or fragment thereof.
In one embodiment, the EV D-68 3C protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 176, as follows:
Accordingly, preferably the EV D-68 3C protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 176, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EV D-68 3C protease polypeptide is provided herein as SEQ ID No: 177, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 177, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 177 is provided herein as SEQ ID No: 178, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 178, or a fragment or variant thereof.
In one embodiment, the at least one IIP is EVD-71 3C protease (Q0JRV3; Genome polyprotein Human enterovirus 71 Protease 3C), or an orthologue thereof. One embodiment of the polypeptide sequence of EVD-71 3C protease protein is represented herein as SEQ ID No: 179, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 179, or a variant or fragment thereof.
In one embodiment, the EVD-71 3C protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 180, as follows:
Accordingly, preferably the EVD-71 3C protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 180, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EVD-71 3C protease polypeptide is provided herein as SEQ ID No: 181, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 181, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 181 is provided herein as SEQ ID No: 182, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 182, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Polio virus HEV-C 3C protease (P03300; Genome polyprotein Poliovirus type 1 (strain Mahoney) Human Enterovirus), or an orthologue thereof. Lei X, Xiao X, Wang J (2016) Innate Immunity Evasion by Enteroviruses: Insights into Virus-Host Interaction. Viruses 8, 22; doi:10.3390/v8010022. One embodiment of the polypeptide sequence of Polio virus HEV-C 3C protease is represented herein as SEQ ID No: 183, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 183, or a variant or fragment thereof.
In one embodiment, the Polio virus HEV-C 3C protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 184, as follows:
Accordingly, preferably the Polio virus HEV-C 3C protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 184, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Polio virus HEV-C 3C protease polypeptide is provided herein as SEQ ID No: 185, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 185, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 185 is provided herein as SEQ ID No: 186, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 186, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Poliovirus HEV-C 2A protease (P03300; Genome polyprotein Poliovirus type 1 (strain Mahoney) Human Enterovirus), or an orthologue thereof. Feng Q, Langeris M A, Lork M, Nguyen M, Hato S V, Lanke K, Endad L, Bhoopathi P, Fisher P B, Lloyd R E, van Kuppeveld F J M (2014) Enterovirus 2Apro targets MDA5 and MAVS in infected cells. J Virol., 88, 6, 3369-3377. One embodiment of the polypeptide sequence of Poliovirus HEV-C 2A protease is represented herein as SEQ ID No: 187, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 187, or a variant or fragment thereof.
In one embodiment, the Poliovirus HEV-C 2A protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 188, as follows:
Accordingly, preferably the Poliovirus HEV-C 2A protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 188, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Poliovirus HEV-C 2A protease polypeptide is provided herein as SEQ ID No: 189, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 189, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 189 is provided herein as SEQ ID No: 190, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 190, or a fragment or variant thereof.
In one embodiment, the at least one IIP is CVB3 2A protease (P03313; Genome polyprotein Coxsackievirus B3 (strain Nancy)), or an orthologue thereof. One embodiment of the polypeptide sequence of CVB3 2A protease is represented herein as SEQ ID No: 191, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 191, or a variant or fragment thereof.
In one embodiment, the CVB3 2A protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 192, as follows:
Accordingly, preferably the CVB3 2A protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 192, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the CVB3 2A protease polypeptide is provided herein as SEQ ID No: 193, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 193, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 193 is provided herein as SEQ ID No: 194, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 194, or a fragment or variant thereof.
In one embodiment, the at least one IIP is EV71 2A protease (B9VUU3; Genome polyprotein Human enterovirus 71), or an orthologue thereof. One embodiment of the polypeptide sequence of EV71 2A protease is represented herein as SEQ ID No: 195, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 195, or a variant or fragment thereof.
In one embodiment, the EV71 2A protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 196, as follows:
Accordingly, preferably the EV71 2A protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 196, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EV71 2A protease polypeptide is provided herein as SEQ ID No: 197, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 197, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 197 is provided herein as SEQ ID No: 198, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 198, or a fragment or variant thereof.
In one embodiment, the at least one IIP is hMPV G protein (Q6WB94; Major surface glycoprotein G Human metapneumovirus (strain CAN97-83)), or an orthologue thereof. Bao X, Liu T, Shan Y, Li K, Garofolo R P, Casola A (2008) Human Metapneumovirus Glycoprotein G Inhibits Innate Immune Responses. PLOS Pathogens, 4, 5, e1000077. One embodiment of the polypeptide sequence of hMPV G protein is represented herein as SEQ ID No: 199, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 199, or a variant or fragment thereof.
In one embodiment, the hMPV G polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 200, as follows:
Accordingly, preferably the hMPV G polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 200, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the hMPV G polypeptide is provided herein as SEQ ID No: 201, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 201, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 201 is provided herein as SEQ ID No: 202, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 202, or a fragment or variant thereof.
The following viral IIPs are believed to cause cleavage of RIG-I.
In one embodiment, the at least one IIP is CVB3 3C protease (P03313; Genome polyprotein Coxsackievirus B3 (strain Nancy)), or an orthologue thereof. Xiao H, Li J, Yang X, Li Z, Wang Y, Rui Y, Liu R, Zhang W (2021) Ectopic Expression of TRIM25 Restores RIG-I Expression and IFN Production Reduced by Multiple Enteroviruses 3Cpro. Virol Sin: 1-12.doi: 10.1007/s12250-021-00410-x. One embodiment of the polypeptide sequence of CVB3 3C protease is represented herein as SEQ ID No: 203, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 203, or a variant or fragment thereof.
In one embodiment, the CVB3 3C protease polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 204, as follows:
Accordingly, preferably the CVB3 3C protease polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 204, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the CVB3 3C protease polypeptide is provided herein as SEQ ID No: 205, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 205, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 205 is provided herein as SEQ ID No: 206, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 206, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Hepatitis C NS3/4A (039929; Genome polyprotein Hepatitis C virus genotype 4a (isolate ED43)), or an orthologue thereof. One embodiment of the polypeptide sequence of Hepatitis C NS3/4A is represented herein as SEQ ID No: 207, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 207, or a variant or fragment thereof.
In one embodiment, the Hepatitis C NS3/4A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 208, as follows:
Accordingly, preferably the Hepatitis C NS3/4A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 208, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Hepatitis C NS3/4A polypeptide is provided herein as SEQ ID No: 209, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 209, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 209 is provided herein as SEQ ID No: 210, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 210, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV NS3 protein (P17763; Genome polyprotein Dengue virus type 1 (strain Nauru/West Pac/1974)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV NS3 protein is represented herein as SEQ ID No: 211, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 211, or a variant or fragment thereof.
In one embodiment, the DENV NS3 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 212, as follows:
Accordingly, preferably the DENV NS3 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 212, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV NS3 polypeptide is provided herein as SEQ ID No: 213, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 213, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 213 is provided herein as SEQ ID No: 214, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 214, or a fragment or variant thereof.
In one embodiment, the at least one IIP is EV71 3Cpro (B9VUU3; Genome polyprotein Human enterovirus 71), or an orthologue thereof. Lei X, Xiao X, Xue Q, Jin Q, He B, Wang J J. (2013) Cleavage of interferon regulatory factor 7 by enterovirus 71 3C suppresses cellular responses. J Virol, 87, 3, 1690-1698. doi: 10.1128/JVI.01855-12. Epub 2012 Nov. 21.). This IIP is believed to cleave IRF7. One embodiment of the polypeptide sequence of EV71 3Cpro is represented herein as SEQ ID No: 215, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 215, or a variant or fragment thereof.
In one embodiment, the EV71 3Cpro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 216, as follows:
Accordingly, preferably the EV71 3Cpro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 216, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EV71 3Cpro polypeptide is provided herein as SEQ ID No: 217, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 217, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 217 is provided herein as SEQ ID No: 218, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 218, or a fragment or variant thereof.
In one embodiment, the at least one IIP is FMDV Lpro (P03307; Leader Protease Genome polyprotein foot-and-mouth disease virus (isolate-/Germany/A5Westerwald/1951 serotype A)), or an orthologue thereof. One embodiment of the polypeptide sequence of FMDV Lpro is represented herein as SEQ ID No: 219, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 219, or a variant or fragment thereof.
In one embodiment, the FMDV Lpro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 220, as follows:
Accordingly, preferably the FMDV Lpro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 220, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the FMDV Lpro polypeptide is provided herein as SEQ ID No: 221, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 221, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 221 is provided herein as SEQ ID No: 222, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 222, or a fragment or variant thereof.
In one embodiment, the at least one IIP is FMDV 3Cpro (P03307; Protease 3C Genome polyprotein foot-and-mouth disease virus (isolate-/Germany/A5Westerwald/1951 serotype A), or an orthologue thereof. Ekanayaka P, Shin S H, Weeratunga P, Lee H, Kim T-H, Chathuranga K, Subasinghe A, Park J-H, Lee J-S (2021) Foot and mouth disease virus 3C protease antagonises interferon signaling and C142T substitution attenuates the FMD virus. Front Microbiol., 21, 737031. doi: 10.3389/fmicb.2021.737031
One embodiment of the polypeptide sequence of FMDV 3Cpro is represented herein as SEQ ID No: 223, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 223, or a variant or fragment thereof.
In one embodiment, the FMDV 3Cpro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 224, as follows:
Accordingly, preferably the FMDV 3Cpro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 224, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the FMDV 3Cpro polypeptide is provided herein as SEQ ID No: 225, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 225, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 225 is provided herein as SEQ ID No: 226, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 226, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Toscana Virus NSS protein (RIG 1 degradation) (P21699; Non-structural protein NS-S Toscana virus), or an orthologue thereof. One embodiment of the polypeptide sequence of Toscana Virus NSS protein is represented herein as SEQ ID No: 227, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 227, or a variant or fragment thereof.
In one embodiment, the Toscana Virus NSS polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 228, as follows:
Accordingly, preferably the Toscana Virus NSS polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 228, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Toscana Virus NSS polypeptide is provided herein as SEQ ID No: 229, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 229, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 229 is provided herein as SEQ ID No: 230, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 230, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Non-structural protein 1 Influenza A virus (strain A/Puerto Rico/8/1934 H1N1) (P03496; Influenza A/PR/8/34 NS1), or an orthologue thereof. One embodiment of the polypeptide sequence of Influenza A virus Non-structural protein 1 is represented herein as SEQ ID No: 231, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 231, or a variant or fragment thereof.
In one embodiment, the Non-structural protein 1 Influenza A virus polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 232, as follows:
Accordingly, preferably the Non-structural protein 1 Influenza A virus polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 232, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Non-structural protein 1 Influenza A virus polypeptide is provided herein as SEQ ID No: 233, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 233, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 233 is provided herein as SEQ ID No: 234, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 234, or a fragment or variant thereof.
In one embodiment, the at least one IIP is SARS CoV N protein (P59595; Nucleoprotein Severe acute respiratory syndrome coronavirus), or an orthologue thereof. One embodiment of the polypeptide sequence of SARS CoV N protein is represented herein as SEQ ID No: 235, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 235, or a variant or fragment thereof.
In one embodiment, the SARS CoV N polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 236, as follows:
Accordingly, preferably the SARS CoV N polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 236, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the SARS CoV N polypeptide is provided herein as SEQ ID No: 237, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 237, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 237 is provided herein as SEQ ID No: 238, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 238, or a fragment or variant thereof.
In one embodiment, the at least one IIP is MHV N protein (P03416; Nucleoprotein Murine coronavirus (strain A59)), or an orthologue thereof. One embodiment of the polypeptide sequence of MHV N protein is represented herein as SEQ ID No: 239, as so follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 239, or a variant or fragment thereof.
In one embodiment, the MHV N polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 240, as follows:
Accordingly, preferably the MHV N polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 240, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the MHV N polypeptide is provided herein as SEQ ID No: 241, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 241, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 241 is provided herein as SEQ ID No: 242, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 242, or a fragment or variant thereof.
In one embodiment, the at least one IIP is FMDV 2B protein (P03307; Protease 3C Genome polyprotein foot-and-mouth disease virus (isolate-/Germany/A5Westerwald/1951 serotype A), or an orthologue thereof. One embodiment of the polypeptide sequence of FMDV 2B protein is represented herein as SEQ ID No: 243, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 243, or a variant or fragment thereof.
In one embodiment, the FMDV 2B polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 244, as follows:
Accordingly, preferably the FMDV 2B polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 244, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the FMDV 2B polypeptide is provided herein as SEQ ID No: 245, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 245, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 245 is provided herein as SEQ ID No: 246, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 246, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Influenza virus A PB1-F2 (B4URE5; Protein PB1-F2 Influenza A virus (strain A/Russia:St.Petersburg/8/2006 H1N1), or an orthologue thereof. One embodiment of the polypeptide sequence of Influenza virus A PB1-F2 is represented herein as SEQ ID No: 247, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 247, or a variant or fragment thereof.
In one embodiment, the Influenza virus A PB1-F2 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 248, as follows:
Accordingly, preferably the Influenza virus A PB1-F2 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 248, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Influenza virus A PB1-F2 polypeptide is provided herein as SEQ ID No: 249, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 249, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 249 is provided herein as SEQ ID No: 250, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 250, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Hepatitis A Protein 3ABC (Q05794; Genome polyprotein Human hepatitis A virus genotype IA (isolate HAS-15)), or an orthologue thereof. One embodiment of the polypeptide sequence of Hepatitis A Protein 3ABC is represented herein as SEQ ID No: 251, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 251, or a variant or fragment thereof.
In one embodiment, the Hepatitis A Protein 3ABC polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 252, as follows:
Accordingly, preferably the Hepatitis A Protein 3ABC polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 252, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Hepatitis A Protein 3ABC polypeptide is provided herein as SEQ ID No: 253, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 253, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 253 is provided herein as SEQ ID No: 254, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 254, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Hepatitis B X protein (P03165; Protein X Hepatitis B virus genotype D), or an orthologue thereof. One embodiment of the polypeptide sequence of Hepatitis B X protein is represented herein as SEQ ID No: 255, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 255, or a variant or fragment thereof.
In one embodiment, the Hepatitis B X polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 256, as follows:
Accordingly, preferably the Hepatitis B X polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 256, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Hepatitis B X polypeptide is provided herein as SEQ ID No: 257, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 257, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 257 is provided herein as SEQ ID No: 258, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 258, or a fragment or variant thereof.
In one embodiment, the at least one IIP is SARS-CoV NSP15 (P0C6X7; Replicase polyprotein Severe acute respiratory syndrome coronavirus), or an orthologue thereof. One embodiment of the polypeptide sequence of SARS-CoV NSP15 is represented herein as SEQ ID No: 259, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 259, or a variant or fragment thereof.
In one embodiment, the SARS-CoV NSP15 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 260, as follows:
Accordingly, preferably the SARS-CoV NSP15 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 260, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the SARS-CoV NSP15 polypeptide is provided herein as SEQ ID No: 261, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 261, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 261 is provided herein as SEQ ID No: 262, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 262, or a fragment or variant thereof.
In one embodiment, the at least one IIP is SARS CoV Orf9b (P59636; SARS ORF9b protein Severe acute respiratory syndrome coronavirus), or an orthologue thereof. One embodiment of the polypeptide sequence of SARS CoV Orf9b is represented herein as SEQ ID No: 263, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 263, or a variant or fragment thereof.
In one embodiment, the SARS CoV Orf9b polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 264, as follows:
Accordingly, preferably the SARS CoV Orf9b polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 264, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the SARS CoV Orf9b polypeptide is provided herein as SEQ ID No: 265, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 265, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 265 is provided herein as SEQ ID No: 266, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 266, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Rhinovirus 2Apro (P23008; Genome polyprotein Human rhinovirus 1A), or an orthologue thereof. One embodiment of the polypeptide sequence of Rhinovirus 2Apro is represented herein as SEQ ID No: 267, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 267, or a variant or fragment thereof.
In one embodiment, the Rhinovirus 2Apro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 268, as follows:
Accordingly, preferably the Rhinovirus 2Apro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 268, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Rhinovirus 2Apro polypeptide is provided herein as SEQ ID No: 269, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 269, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 269 is provided herein as SEQ ID No: 270, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 270, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Rhinovirus 3Cpro (P23008; Genome polyprotein Human rhinovirus 1A), or an orthologue thereof. One embodiment of the polypeptide sequence of Rhinovirus 3Cpro is represented herein as SEQ ID No: 271, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 271, or a variant or fragment thereof.
In one embodiment, the Rhinovirus 3Cpro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 272, as follows:
Accordingly, preferably the Rhinovirus 3Cpro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 272, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Rhinovirus 3Cpro polypeptide is provided herein as SEQ ID No: 273, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 273, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 273 is provided herein as SEQ ID No: 274, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 274, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Rotavirus VP3 (A2T3S5; Protein VP3 Rotavirus A (isolate RVA/Monkey/South Africa/SA11-H96/1958/G3P5B[2])), or an orthologue thereof. One embodiment of the polypeptide sequence of Rotavirus VP3 is represented herein as SEQ ID No: 275, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 275, or a variant or fragment thereof.
In one embodiment, the Rotavirus VP3 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 276, as follows:
Accordingly, preferably the Rotavirus VP3 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 276, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Rotavirus VP3 polypeptide is provided herein as SEQ ID No: 277, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 277, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 277 is provided herein as SEQ ID No: 278, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 278, or a fragment or variant thereof.
In one embodiment, the at least one IIP is GB Virus B NS3/4A (Q69422; Genome polyprotein Hepatitis GB virus B), or an orthologue thereof. One embodiment of the polypeptide sequence of GB Virus B NS3/4A is represented herein as SEQ ID No: 279, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 279, or a variant or fragment thereof.
In one embodiment, the GB Virus B NS3/4A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 280, as follows:
Accordingly, preferably the GB Virus B NS3/4A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 280, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the GB Virus B NS3/4A polypeptide is provided herein as SEQ ID No: 281, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 281, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 281 is provided herein as SEQ ID No: 282, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 282, or a fragment or variant thereof.
In one embodiment, the at least one IIP is HAV 3Cpro (P08617; Genome polyprotein Human hepatitis A virus genotype IB (isolate HM175)), or an orthologue thereof. One embodiment of the polypeptide sequence of HAV 3Cpro is represented herein as SEQ ID No: 283, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 283, or a variant or fragment thereof.
In one embodiment, the HAV 3Cpro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 284, as follows:
Accordingly, preferably the HAV 3Cpro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 284, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HAV 3Cpro polypeptide is provided herein as SEQ ID No: 285, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 285, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 285 is provided herein as SEQ ID No: 286, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 286, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Human metapneumovirus M2-2 (Q6WB96; Protein M2-2 Human metapneumovirus (strain CAN97-83)), or an orthologue thereof. One embodiment of the polypeptide sequence of Human metapneumovirus M2-2 is represented herein as SEQ ID No: 287, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 287, or a variant or fragment thereof.
In one embodiment, the Human metapneumovirus M2-2 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 288, as follows:
Accordingly, preferably the Human metapneumovirus M2-2 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 288, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Human metapneumovirus M2-2 polypeptide is provided herein as SEQ ID No: 289, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 289, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 289 is provided herein as SEQ ID No: 290, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 290, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Hepatitis E methyltransferase (Q9WC28; Non-structural polyprotein pORF1 Methyltransferase Hepatitis E virus genotype 1), or an orthologue thereof. One embodiment of the polypeptide sequence of Hepatitis E methyltransferase is represented herein as SEQ ID No: 291, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 291, or a variant or fragment thereof.
In one embodiment, the Hepatitis E methyltransferase polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 292, as follows:
Accordingly, preferably the Hepatitis E methyltransferase polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 292, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Hepatitis E methyltransferase polypeptide is provided herein as SEQ ID No: 293, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 293, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 293 is provided herein as SEQ ID No: 294, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 294, or a fragment or variant thereof.
In one embodiment, the at least one IIP is PRRV Npro (P24381; Serine/threonine-protein kinase US3 homolog Suid herpesvirus 2 (strain NIA-3) Pseudorabies Virus), or an orthologue thereof. One embodiment of the polypeptide sequence of PRRV Npro is represented herein as SEQ ID No: 295, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 295, or a variant or fragment thereof.
In one embodiment, the PRRV Npro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 296, as follows:
Accordingly, preferably the PRRV Npro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 296, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the PRRV Npro polypeptide is provided herein as SEQ ID No: 297, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 297, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 297 is provided herein as SEQ ID No: 298, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 298, or a fragment or variant thereof.
In one embodiment, the at least one IIP is HSV1 US3 (P04413; Serine/threonine-protein kinase US3 Human herpesvirus 1 (strain 17)), or an orthologue thereof. One embodiment of the polypeptide sequence of HSV1 US3 is represented herein as SEQ ID No: 299, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 299, or a variant or fragment thereof.
In one embodiment, the HSV1 US3 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 300, as follows:
Accordingly, preferably the HSV1 US3 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 300, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HSV1 US3 polypeptide is provided herein as SEQ ID No: 301, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 301, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 301 is provided herein as SEQ ID No: 302, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 302, or a fragment or variant thereof.
In one embodiment, the at least one HP is HSV2 US1 (A0A290Y3Z3; A0A290Y3Z3 HHV2 US1 Human herpesvirus 2), or an orthologue thereof. One embodiment of the polypeptide sequence of HSV2 US1 is represented herein as SEQ ID No: 303, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 303, or a variant or fragment thereof.
In one embodiment, the HSV2 US1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 304, as follows:
Accordingly, preferably the HSV2 US1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 304, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HSV2 US1 polypeptide is provided herein as SEQ ID No: 305, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 305, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 305 is provided herein as SEQ ID No: 306, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 306, or a fragment or variant thereof.
In one embodiment, the at least one IIP is CSFV NPro (P19712; Genome polyprotein Classical swine fever virus (strain Alfort)), or an orthologue thereof. One embodiment of the polypeptide sequence of CSFV NPro is represented herein as SEQ ID No: 307, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 307, or a variant or fragment thereof.
In one embodiment, the CSFV NPro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 308, as follows:
Accordingly, preferably the CSFV NPro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 308, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the CSFV NPro polypeptide is provided herein as SEQ ID No: 309, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 309, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 309 is provided herein as SEQ ID No: 310, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 310, or a fragment or variant thereof.
In one embodiment, the at least one IIP is BDV Npro (A0A290YXI0; Autoprotease p20 Border disease virus), or an orthologue thereof. One embodiment of the polypeptide sequence of BDV Npro is represented herein as SEQ ID No: 311, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 311, or a variant or fragment thereof.
In one embodiment, the BDV Npro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 312, as follows:
Accordingly, preferably the BDV Npro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 312, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the BDV Npro polypeptide is provided herein as SEQ ID No: 313, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 313, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 313 is provided herein as SEQ ID No: 314, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 314, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Bovine RV NS1 (Q8JZ13; Non-structural protein 1 Bovine Rotavirus A), or an orthologue thereof. One embodiment of the polypeptide sequence of Bovine RV NS1 is represented herein as SEQ ID No: 315, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 315, or a variant or fragment thereof.
In one embodiment, the Bovine RV NS1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 316, as follows:
Accordingly, preferably the Bovine RV NS1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 316, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Bovine RV NS1 polypeptide is provided herein as SEQ ID No: 317, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 317, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 317 is provided herein as SEQ ID No: 318, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 318, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Bovine RV NS2 (Q86505; Non-structural protein 2 Bovine Rotavirus A), or an orthologue thereof. One embodiment of the polypeptide sequence of Bovine RV NS2 is represented herein as SEQ ID No: 319, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 319, or a variant or fragment thereof.
In one embodiment, the Bovine RV NS2 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 320, as follows:
Accordingly, preferably the Bovine RV NS2 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 320, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Bovine RV NS2 polypeptide is provided herein as SEQ ID No: 321, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 321, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 321 is provided herein as SEQ ID No: 322, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 322, or a fragment or variant thereof.
In one embodiment, the at least one IIP is PBoV NP1 (D7RF52; Non-structural protein NP-1 Porcine bocavirus 1), or an orthologue thereof. One embodiment of the polypeptide sequence of PBoV NP1 is represented herein as SEQ ID No: 323, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 323, or a variant or fragment thereof.
In one embodiment, the PBoV NP1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 324, as follows:
Accordingly, preferably the PBoV NP1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 324, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the PBoV NP1 polypeptide is provided herein as SEQ ID No: 325, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 325, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 325 is provided herein as SEQ ID No: 326, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 326, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Hepatitis E Orf3 (P69616; Protein ORF3 Hepatitis E virus genotype 1), or an orthologue thereof. One embodiment of the polypeptide sequence of Hepatitis E Orf3 is represented herein as SEQ ID No: 327, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 327, or a variant or fragment thereof.
In one embodiment, the Hepatitis E Orf3 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 328, as follows:
Accordingly, preferably the Hepatitis E Orf3 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 328, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Hepatitis E Orf3 polypeptide is provided herein as SEQ ID No: 329, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 329, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 329 is provided herein as SEQ ID No: 330, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 330, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Rotavirus NSP1 (Q99FX5; Non-structural protein 1 Rotavirus A (strain RVA/SA11-4F/G3P6[1])), or an orthologue thereof. Barro M, Patton J T (2007) Rotavirus NSP1 inhibits expression of type 1 interferon by antagonising the function of interferon regulatory factors IRF3, IRF5 and IRF7. J Virol, 81, 9, 4473-4481. This IIP is believed to induce degradation of IRF7. One embodiment of the polypeptide sequence of Rotavirus NSP1 is represented herein as SEQ ID No: 331, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 331, or a variant or fragment thereof.
In one embodiment, the Rotavirus NSP1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 332, as follows:
Accordingly, preferably the Rotavirus NSP1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 332, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Rotavirus NSP1 polypeptide is provided herein as SEQ ID No: 333, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 333, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 333 is provided herein as SEQ ID No: 334, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 334, or a fragment or variant thereof.
In one embodiment, the at least one IIP is KSHV ORF45 (Q77UV9; HHV8 ORF 45 Human herpesvirus 8 OX), or an orthologue thereof. One embodiment of the polypeptide sequence of KSHV ORF45 is represented herein as SEQ ID No: 335, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 335, or a variant or fragment thereof.
In one embodiment, the KSHV ORF45 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 336, as follows:
Accordingly, preferably the KSHV ORF45 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 336, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the KSHV ORF45 polypeptide is provided herein as SEQ ID No: 337, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 337, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 337 is provided herein as SEQ ID No: 338, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 338, or a fragment or variant thereof.
In one embodiment, the at least one IIP is EBV BZLF-1 (P03206; Trans-activator protein BZLF1 Epstein-Barr virus (strain B95-8)), or an orthologue thereof. Hahn A M, Huye L E, Ning S, Webster-Cyriaque J M Pagano J S (2005) Interferon Regulatory Factor 7 Is Negatively Regulated by the Epstein-Barr Virus Immediate-Early Gene, J Virol, 79, 15, 10040-10052 doi:10.1128/JVI.790.15.10040-10052.2005. One embodiment of the polypeptide sequence of EBV BZLF-1 is represented herein as SEQ ID No: 339, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 339, or a variant or fragment thereof.
In one embodiment, the EBV BZLF-1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 340, as follows:
Accordingly, preferably the EBV BZLF-1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 340, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EBV BZLF-1 polypeptide is provided herein as SEQ ID No: 341, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 341, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 341 is provided herein as SEQ ID No: 342, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 342, or a fragment or variant thereof.
In one embodiment, the at least one IIP is MuHV Orf73 (041974; MHV68 ORF73 protein Murine herpesvirus 4), or an orthologue thereof. One embodiment of the polypeptide sequence of MuHV Orf73 is represented herein as SEQ ID No: 343, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 343, or a variant or fragment thereof.
In one embodiment, the MuHV Orf73 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 344, as follows:
Accordingly, preferably the MuHV Orf73 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 344, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the MuHV Orf73 polypeptide is provided herein as SEQ ID No: 345, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 345, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 345 is provided herein as SEQ ID No: 346, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 346, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Torque Teno virus Orf2 (A7XCD9; ORF2 protein Torque teno virus (isolate Human/Finland/Hel32/2002)), or an orthologue thereof. Zheng H, Ye L, Fang X, Li B, Wang Y, Xiang X, Kong L, Wang W et al. (2007) Torque teno virus (SANBAN isolate) ORF2 protein suppresses NF-kB pathways via interaction with IkappaB kinases. J Virol, 81, 21, 11917-11924. It is believed that this IIP suppresses canonical and non-canonical Nf-KB pathways. One embodiment of the polypeptide sequence of Torque Teno virus Orf2 is represented herein as SEQ ID No: 347, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 347, or a variant or fragment thereof.
In one embodiment, the Torque Teno virus Orf2 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 348, as follows:
Accordingly, preferably the Torque Teno virus Orf2 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 348, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Torque Teno virus Orf2 polypeptide is provided herein as SEQ ID No: 349, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 349, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 349 is provided herein as SEQ ID No: 350, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 350, or a fragment or variant thereof.
In one embodiment, the at least one IIP is EBV EBNA1 (P03211; Epstein-Barr nuclear antigen 1 Epstein-Barr virus (strain B95-8)), or an orthologue thereof. One embodiment of the polypeptide sequence of EBV EBNA1 is represented herein as SEQ ID No: 351, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 351, or a variant or fragment thereof.
In one embodiment, the EBV EBNA1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 352, as follows:
Accordingly, preferably the EBV EBNA1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 352, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the EBV EBNA1 polypeptide is provided herein as SEQ ID No: 353, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 353, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 353 is provided herein as SEQ ID No: 354, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ 50 ID No: 354, or a fragment or variant thereof.
In one embodiment, the at least one IIP is BDV P protein (POC799; Phosphoprotein Borna disease virus (strain V)), or an orthologue thereof. It is believed that this IIP acts as a decoy protein for phosphorylation by TBK, thus effecting reduction in TBK activity and activation of IRF3 and 7. One embodiment of the polypeptide sequence of BDV P protein is represented herein as SEQ ID No: 355, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 355, or a variant or fragment thereof.
In one embodiment, the BDV P polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 356, as follows:
Accordingly, preferably the BDV P polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 356, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the BDV P polypeptide is provided herein as SEQ ID No: 357, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 357, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 357 is provided herein as SEQ ID No: 358, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 358, or a fragment or variant thereof.
In one embodiment, the at least one IIP is HPV E7 (P03129; Protein E7 Human papillomavirus type 16), or an orthologue thereof. One embodiment of the polypeptide sequence of HPV E7 is represented herein as SEQ ID No: 359, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 359, or a variant or fragment thereof.
In one embodiment, the HPV E7 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 360, as follows:
Accordingly, preferably the HPV E7 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 360, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HPV E7 polypeptide is provided herein as SEQ ID No: 361, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 361, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 361 is provided herein as SEQ ID No: 362, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 362, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Arenavirus NP1 protein (A0A2H4RDN2; Nucleoprotein Arenavirus sp.), or an orthologue thereof. One embodiment of the polypeptide sequence of Arenavirus NP1 protein is represented herein as SEQ ID No: 363, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 363, or a variant or fragment thereof.
In one embodiment, the Arenavirus NP1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 364, as follows:
Accordingly, preferably the Arenavirus NP1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 364, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Arenavirus NP1 polypeptide is provided herein as SEQ ID No: 365, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 365, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 365 is provided herein as SEQ ID No: 366, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 366, or a fragment or variant thereof.
In one embodiment, the at least one IIP is HCV NS3 protein (P27958; Genome polyprotein Hepatitis C virus genotype 1a (isolate H77)), or an orthologue thereof. One embodiment of the polypeptide sequence of HCV NS3 protein is represented herein as SEQ ID No: 367, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 367, or a variant or fragment thereof.
In one embodiment, the HCV NS3 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 368, as follows:
Accordingly, preferably the HCV NS3 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 368, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HCV NS3 polypeptide is provided herein as SEQ ID No: 369, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 369, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 369 is provided herein as SEQ ID No: 370, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 370, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 1 NS4A protein (P17763; Genome polyprotein Dengue virus type 1 (strain Nauru/West Pac/1974)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 1 NS4A protein is represented herein as SEQ ID No: 371, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 371, or a variant or fragment thereof.
In one embodiment, the DENV 1 NS4A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 372, as follows:
Accordingly, preferably the DENV 1 NS4A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 372, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 1 NS4A polypeptide is provided herein as SEQ ID No: 373, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 373, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 373 is provided herein as SEQ ID No: 374, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 374, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 1 NS2A (P17763; Genome polyprotein Dengue virus type 1 (strain Nauru/West Pac/1974)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 1 NS2A is represented herein as SEQ ID No: 375, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 375, or a variant or fragment thereof.
In one embodiment, the DENV 1 NS2A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 376, as follows:
Accordingly, preferably the DENV 1 NS2A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 376, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 1 NS2A polypeptide is provided herein as SEQ ID No: 377, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 377, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 377 is provided herein as SEQ ID No: 378, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 378, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 2 NS2A (P29990; Genome polyprotein Dengue virus type 2 (strain Thailand/16681/1984)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 2 NS2A is represented herein as SEQ ID No: 379, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 379, or a variant or fragment thereof.
In one embodiment, the DENV 2 NS2A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 380, as follows:
Accordingly, preferably the DENV 2 NS2A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 380, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 2 NS2A polypeptide is provided herein as SEQ ID No: 381, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 381, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 381 is provided herein as SEQ ID No: 382, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 382, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 4 NS2A (P09866; Genome polyprotein Dengue virus type 4 (strain Dominica/814669/1981)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 4 NS2A is represented herein as SEQ ID No: 383, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 383, or a variant or fragment thereof.
In one embodiment, the DENV 4 NS2A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 384, as follows:
Accordingly, preferably the DENV 4 NS2A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 384, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 4 NS2A polypeptide is provided herein as SEQ ID No: 385, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 385, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 385 is provided herein as SEQ ID No: 386, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 386, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 1 NS2B (P17763; Genome polyprotein Dengue virus type 1 (strain Nauru/West Pac/1974)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 1 NS2B is represented herein as SEQ ID No: 387, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 387, or a variant or fragment thereof.
In one embodiment, the DENV 1 NS2B polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 388, as follows:
Accordingly, preferably the DENV 1 NS2B polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 388, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 1 NS2B polypeptide is provided herein as SEQ ID No: 389, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 389, or a fragment or variant thereof.
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 390, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 2 NS2B (P29990; Genome polyprotein Dengue virus type 2 (strain Thailand/16681/1984)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 2 NS2B is represented herein as SEQ ID No: 391, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 391, or a variant or fragment thereof.
In one embodiment, the DENV 2 NS2B polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 392, as follows:
Accordingly, preferably the DENV 2 NS2B polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 392, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 2 NS2B polypeptide is provided herein as SEQ ID No: 393, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 393, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 393 is provided herein as SEQ ID No: 394, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 394, or a fragment or variant thereof.
In one embodiment, the at least one IIP is DENV 4 NS2B (P09866; Genome polyprotein virus type 4 (strain Dominica/814669/1981)), or an orthologue thereof. One embodiment of the polypeptide sequence of DENV 4 NS2B is represented herein as SEQ ID No: 395, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 395, or a variant or fragment thereof.
In one embodiment, the DENV 4 NS2B polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 396, as follows:
Accordingly, preferably the DENV 4 NS2B polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 396, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the DENV 4 NS2B polypeptide is provided herein as SEQ ID No: 397, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 397, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 397 is provided herein as SEQ ID No: 398, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 398, or a fragment or variant thereof.
In one embodiment, the at least one IIP is WNV NS4A (P06935; Genome polyprotein West Nile virus NS4A), or an orthologue thereof. One embodiment of the polypeptide sequence of WNV NS4A is represented herein as SEQ ID No: 399, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 399, or a variant or fragment thereof.
In one embodiment, the WNV NS4A polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 400, as follows:
Accordingly, preferably the WNV NS4A polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 400, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the WNV NS4A polypeptide is provided herein as SEQ ID No: 401, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 401, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 401 is provided herein as SEQ ID No: 402, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 402, or a fragment or variant thereof.
In one embodiment, the at least one IIP is WNV NS4B (P06935; Genome polyprotein West Nile virus NS4A), or an orthologue thereof. One embodiment of the polypeptide sequence of WNV NS4B is represented herein as SEQ ID No: 403, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 403, or a variant or fragment thereof.
In one embodiment, the WNV NS4B polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 404, as follows:
Accordingly, preferably the WNV NS4B polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 404, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the WNV NS4B polypeptide is provided herein as SEQ ID No: 405, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 405, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 405 is provided herein as SEQ ID No: 406, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 406, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Rabies Virus PP (P69479; Phosphoprotein Rabies virus (strain ERA)), or an orthologue thereof. One embodiment of the polypeptide sequence of Rabies Virus PP is represented herein as SEQ ID No: 407, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 407, or a variant or fragment thereof.
In one embodiment, the Rabies Virus PP polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 408, as follows:
Accordingly, preferably the Rabies Virus PP polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 408, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Rabies Virus PP polypeptide is provided herein as SEQ ID No: 409, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 409, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 409 is provided herein as SEQ ID No: 410, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 410, or a fragment or variant thereof.
In one embodiment, the at least one IIP is PEDV N protein (Q07499; Nucleoprotein Porcine epidemic diarrhea virus (strain CV777)), or an orthologue thereof. One embodiment of the polypeptide sequence of PEDV N protein is represented herein as SEQ ID No: 411, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 411, or a variant or fragment thereof.
In one embodiment, the PEDV N polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 412, as follows:
Accordingly, preferably the PEDV N polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 412, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the PEDV N polypeptide is provided herein as SEQ ID No: 413, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 413, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 413 is provided herein as SEQ ID No: 414, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 414, or a fragment or variant thereof.
In one embodiment, the at least one IIP is HSV1 ICP27 (P10238; ICP27 mRNA export factor Human herpesvirus 1 (strain 17)), or an orthologue thereof. One embodiment of the polypeptide sequence of HSV1 ICP27 is represented herein as SEQ ID No: 415, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 415, or a variant or fragment thereof.
In one embodiment, the HSV1 ICP27 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 416, as follows:
Accordingly, preferably the HSV1 ICP27 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 416, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HSV1 ICP27 polypeptide is provided herein as SEQ ID No: 417, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 417, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 417 is provided herein as SEQ ID No: 418, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 418, or a fragment or variant thereof.
In one embodiment, the at least one IIP is HSV1VP24 (F8RDC3; Capsid scaffolding protein VP24 cleavage product of UL26 Human herpesvirus 1), or an orthologue thereof. One embodiment of the polypeptide sequence of HSV1 VP24 is represented herein as SEQ ID No: 419, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 419, or a variant or fragment thereof.
In one embodiment, the HSV1VP24 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 420, as follows:
Accordingly, preferably the HSV1 VP24 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 420, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the HSV1 VP24 polypeptide is provided herein as SEQ ID No: 421, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 421, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 421 is provided herein as SEQ ID No: 422, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 422, or a fragment or variant thereof.
In one embodiment, the at least one IIP is Murine CTMV M45 (Q06A28; Ribonucleoside-diphosphate reductase large subunit-like protein Murine herpesvirus 1 (strain Smith) Murine Cytomegalovirus M45 Protein), or an orthologue thereof. Fliss P, Pechenick Jowers T et al (2012) Viral Mediated Redirection of NEMO/IKKγ to Autophagosomes Curtails the Inflammatory Cascade. PLoS Pathogens 8, 2. It is believed that M45 induces proteasome-independent degradation of NEMO. One embodiment of the polypeptide sequence of Murine CTMV M45 is represented herein as SEQ ID No: 423, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 423, or a variant or fragment thereof.
In one embodiment, the Murine CTMV M45 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 424, as follows:
Accordingly, preferably the Murine CTMV M45 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 424, or a variant or fragment thereof.
One embodiment of codon optimised nucleic acid (DNA) encoding the Murine CTMV M45 polypeptide is provided herein as SEQ ID No: 425, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 425, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 425 is provided herein as SEQ ID No: 426, as follows:
In another embodiment, the inhibitor of an innate signalling pathway is Pangolin CoV-2 ORF3b*57 variant protein, (i.e. a mutated form the Pangolin CoV-2 ORF3b protein where a premature stop codon has been altered to AA glutamine (NCBI Reference Sequence: QIG55946.1; UniProtKB—A0A6M3G7Q4 (A0A6M3G7Q4_9BETC)), or an orthologue thereof (Konno Y, Kimura I, Uriu K, Fukushi M, Irie T, Koyanagi Y, Sauter D, Gifford R, USFQ-COVID19 Consortium, Nakagawa S and Sato K. 2020. SARS-CoV-2 ORF3b is a potent interferon antagonist whose activity is increased by a naturally occurring elongation variant. Cell Reports 32: Issue 12. doi.org/10.116/j.celrep.2020.108185. One embodiment of the Pangolin CoV-2 ORF3b*57 is represented herein as SEQ ID No: 427, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 427, or a variant or fragment thereof.
In one embodiment, the Pangolin CoV-2 ORF3b*57 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 428, as follows:
Accordingly, preferably the Pangolin CoV-2 ORF3b*57 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 428, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 429, as follows:
Therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 429, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 442 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 430, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 430, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 430 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 431, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 431, or a fragment or variant thereof.
In another embodiment, the inhibitor of an innate signalling pathway is Pangolin CoV-2 ORF3b*79 variant protein, (i.e. a mutated form the Pangolin CoV-2 ORF3b protein where a premature stop codon has been altered to AA glutamine (NCBI Reference Sequence: QIG55946.1; UniProtKB—A0A6M3G7Q4 (A0A6M3G7Q4_9BETC)), or an orthologue thereof (Konno Y, Kimura I, Uriu K, Fukushi M, Irie T, Koyanagi Y, Sauter D, Gifford R, USFQ-COVID19 Consortium, Nakagawa S and Sato K. 2020. SARS-CoV-2 ORF3b is a potent interferon antagonist whose activity is increased by a naturally occurring elongation variant. Cell Reports 32: Issue 12. doi.org/10.116/j.celrep.2020.108185. One embodiment of the Pangolin CoV-2 ORF3b*79 is represented herein as SEQ ID No: 432, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 432, or a variant or fragment thereof.
In one embodiment, the Pangolin CoV-2 ORF3b*79 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 433, as follows:
Accordingly, preferably the Pangolin CoV-2 ORF3b*79 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 433, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 434, as follows:
Therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 434, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 432 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 435, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 435, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 435 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 436, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 436, or a fragment or variant thereof.
In another embodiment, the inhibitor of an innate signalling pathway is MERS-ORF4a protein (NCBI Reference Sequence: AGV08457.1; UniProtKB—T2BBG6 (T2BBG6_MERS)), or an orthologue thereof. One embodiment of the MERS-ORF4a is represented herein as SEQ ID No: 437, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 437, or a variant or fragment thereof.
In one embodiment, the MERS-ORF4a polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 438, as follows:
Accordingly, preferably the MERS-ORF4a polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 438, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 439, as follows:
Therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 439, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 437 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 440, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 440 or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 440 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 441, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 441, or a fragment or variant thereof.
In another embodiment, the inhibitor of an innate signalling pathway is BVDV nPro protein (NCBI Reference Sequence: AAA42854.1; UniProtKB—P19711 (POLG_BVDVN)), or an orthologue thereof. One embodiment of the BVDV nPro is represented herein as SEQ ID No:442, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 442, or a variant or fragment thereof.
In one embodiment, the BVDV nPro polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 443, as follows:
Accordingly, preferably the BVDV nPro polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO:443, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No:444, as follows:
Therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No:444, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 442 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No: 445, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 445, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 445 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 446, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No:446, or a fragment or variant thereof.
In another embodiment, the inhibitor of an innate signalling pathway is HSV US1 protein (NCBI Reference Sequence: CAB06708.1; UniProtKB—P89474 (ICP22_HHV2H)), or an orthologue thereof. One embodiment of the HSV US1 is represented herein as SEQ ID No: 447, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 447, or a variant or fragment thereof.
In one embodiment, the HSV US1 polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No:448, as follows:
Accordingly, preferably the HSV US1 polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO:448, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 449, as follows:
Therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 449, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 447 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No:450, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 450, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 450 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No:451, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No: 452 or a fragment or variant thereof.
In another embodiment, the inhibitor of an innate signalling pathway is MERS CoV M protein (NCBI Reference Sequence: AGV08396.1; UniProtKB—T2BB40 (T2BB40_MERS)), or an orthologue thereof. One embodiment of the MERS CoV M is represented herein as SEQ ID No: 452, as follows:
Therefore, preferably the RNA construct comprises a nucleotide sequence which encodes an amino acid sequence substantially as set out in SEQ ID No: 452, or a variant or fragment thereof.
In one embodiment, the MERS CoV M polypeptide is encoded by the DNA nucleotide sequence of SEQ ID No: 453, as follows:
Accordingly, preferably the MERS CoV M polypeptide is encoded by the DNA nucleotide sequence substantially as set out in SEQ ID NO: 453, or a variant or fragment thereof.
Thus, the RNA construct may comprise an RNA nucleotide sequence of SEQ ID No: 454, as follows:
Therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out in SEQ ID No: 454, or a variant or fragment thereof.
The inventors then subjected the protein sequence of SEQ ID No: 452 to codon optimisation for human expression, and one embodiment of the codon optimised nucleic acid (DNA) sequence that includes that includes a start (ATG) and a stop (TGA) codon is provided herein as SEQ ID No:455, as follows:
Hence, preferably the RNA construct is encoded by a DNA sequence substantially as set out in SEQ ID No: 455, or a fragment or variant thereof.
In an embodiment, the RNA sequence corresponding to the codon optimised DNA sequence of SEQ ID No: 455 that includes a start (AUG) and a stop (UGA) codon is provided herein as SEQ ID No: 456, as follows:
Hence, preferably the RNA construct comprises a sequence substantially as set out in SEQ ID No:456, or a fragment or variant thereof.
The at least one innate inhibitor protein (IIP) may not be selected from a group of IIPs consisting of: ORF4a (NS4a) of any coronavirus, ORF3b of any coronavirus, or the nucleocapsid proteins of mouse hepatitis virus and SARS (coronavirus); and orthologues thereof.
The at least one innate inhibitor protein (IIP) may not be selected from a group of IIPs consisting of: HSV-2 Us1; HSV-1 Us1; HSV-1Us11; ORF V20.0L; BVDV Npro; Langat NS5; Influenza NS1; PIV-5 V; SARS-CoV-2 ORF3b; and MERS-CoV ORF4a.
The RNA construct comprises a nucleotide sequence which encodes the at least one therapeutic biomolecule. This is referred to as the gene of interest (GOI) in
The at least one therapeutic biomolecule may comprise a therapeutic protein. The skilled person would understand that therapeutic protein relates to any protein that has therapeutic application, preferably in human. Exemplary therapeutic biomolecules that can be encoded by the RNA molecule include proteins or peptides derived from pathogens, such as bacteria, viruses, fungi, protozoa/or parasites. The protein or peptide may be an antigen, and therefore one which may stimulate or trigger and immune response in the host. Hence, in the embodiment in which the at least one therapeutic biomolecule is an antigen, the RNA construct of the first aspect may be regarded as a vaccine.
The protein or peptide derived from a virus may be a viral antigen. The viral antigen may be derived from a virus selected from the group consisting of: Orthomyxoviruses; Paramyxoviridae viruses; Metapneumovirus and Morbilliviruses; Pneumoviruses; Paramyxoviruses; Poxviridae; Metapneumoviruses; Morbilliviruses; Picornaviruses; Enteroviruseses; Bunyaviruses; Phlebovirus; Nairovirus; Heparnaviruses; Togaviruses; Alphavirus; Arterivirus; Flaviviruses; Pestiviruses; Hepadnaviruses; Rhabdoviruses; Caliciviridae; Coronaviruses; Retroviruses; Reoviruses; Parvoviruses; Delta hepatitis virus (HDV); Hepatitis E virus (HEV); Human Herpesviruses and Papovaviruses.
The Orthomyxoviruses may be Influenza A, B and C. The Paramyxoviridae virus may be Pneumoviruses (RSV), Paramyxoviruses (PIV). The Metapneumovirus may be Morbilliviruses (e.g., measles). The Pneumovirus may be Respiratory syncytial virus (RSV), Bovine respiratory syncytial virus, Pneumonia virus of mice, or Turkey rhinotracheitis virus. The Paramyxovirus may be Parainkuenza virus types 1-4 (PIV), Mumps, Sendai viruses, Simian virus 5, Bovine parainkuenza virus, Nipahvirus, Henipavirus or Newcastle disease virus. The Poxviridae may be Variola vera, for example Variola major and Variola minor. The Metapneumovirus may be human metapneumovirus (hMPV) or avian metapneumoviruses (aMPV). The Morbillivirus may be measles. The Picornaviruses may be Enteroviruses, Rhinoviruses, Heparnavirus, Parechovirus, Cardioviruses and Aphthoviruses. The Enteroviruses may be Poliovirus types 1, 2 or 3, Coxsackie A virus types 1 to 22 and 24, Coxsackie B virus types 1 to 6, Echovirus (ECHO) virus) types 1 to 9, 11 to 27 and 29 to 34 or Enterovirus 68 to 71. The Bunyavirus may be California encephalitis virus. The Phlebovirus may be Rift Valley Fever virus. The Nairovirus may be Crimean-Congo hemorrhagic fever virus. The Heparnaviruses may be Hepatitis A virus (HAV). The Togaviruses may be Rubivirus. The Flavivirus may be Tick-borne encephalitis (TBE) virus, Dengue (types 1, 2, 3 or 4) virus, Yellow Fever virus, Japanese encephalitis virus, Kyasanur Forest Virus, West Nile encephalitis virus, St. Louis encephalitis virus, Russian spring-summer encephalitis virus or Powassan encephalitis virus. The Pestivirus may be Bovine viral diarrhea (BVDV), Classical swine fever (CSFV) or Border disease (BDV). The Hepadnavirus may be Hepatitis B virus or Hepatitis C virus. The Rhabdovirus may be Lyssavirus (Rabies virus) or Vesiculovirus (VSV). The Caliciviridae may be Norwalk virus, or Norwalk-like Viruses, such as Hawaii Virus and Snow Mountain Virus. The Coronavirus may be SARS CoV-1, SARS-CoV-2, MERS, Human respiratory coronavirus, Avian infectious bronchitis (IBV), Mouse hepatitis virus (MHV), or Porcine transmissible gastroenteritis virus (TGEV). The Retrovirus may be Oncovirus, a Lentivirus or a Spumavirus. The Reovirus may be an Orthoreo virus, a Rotavirus, an Orbivirus, or a Coltivirus. The Parvovirus may be Parvovirus B 19. The Human Herpesvirus may be Herpes Simplex Viruses (HSV), Varicella-zoster virus (VZV), Epstein-Barr virus (EBV), Cytomegalovirus (CMV), Human Herpesvirus 6 (HHV6), Human Herpesvirus 7 (HHV7), or Human Herpesvirus 8 (HHV8). The Papovavirus may be Papilloma viruses, Polyomaviruses, Adenoviruess or Arenaviruses.
The protein or peptide derived from bacteria may be a bacterial antigen.
The bacterial antigen may derived from a bacterium selected from the group consisting of: Neisseria meningitides, Streptococcus pneumoniae, Streptococcus pyogenes, Moraxella catarrhalis, Bordetella pertussis, Burkholderia sp. (e.g., Burkholderia mallei, Burkholderia pseudomallei and Burkholderia cepacia), Staphylococcus aureus, Haemophilus influenzae, Clostridium tetani (Tetanus), Clostridium perfringens, Clostridium botulinums, Cornynebacterium diphtheriae (Diphtheria), Pseudomonas aeruginosa, Legionella pneumophila, Coxiella burnetii, Brucella sp. (e.g., B. abortus, B. canis, B. melitensis, B. neotomae, B. ovis, B. suis and B. pinnipediae, Francisella sp. (e.g., F. novicida, F. philomiragia and F. tularensis), Streptococcus agalactiae, Neiserria gonorrhoeae, Chlamydia trachomatis, Treponema pallidum (Syphilis), Haemophilus ducreyi, Enterococcusfaecalis, Enterococcus faecium, Helicobacter pylori, Staphylococcus saprophyticus, Yersinia enter ocolitica, E. coli, Bacillus anthracis (anthrax), Yersinia pestis (plague), Mycobacterium tuberculosis, Rickettsia, Listeria, Chlamydia pneumoniae, Vibrio cholerae, Salmonella typhi (typhoid fever), Borrelia burgdorfer, Porphyromonas s and Klebsiella sp.
The protein or peptide derived from a fungus may be a fungal antigen.
The fungal antigen may be derived from a fungus selected from the group consisting of Dermatophytres, including: Epidermophyton koccusum, Microsporum audouini, Microsporum canis, Microsporum distortum, Microsporum equinum, Microsporum gypsum, Microsporum nanum, Trichophyton concentricum, Trichophyton equinum, Trichophyton gallinae, Trichophyton gypseum, Trichophyton megnini, Trichophyton mentagrophytes, Trichophyton quinckeanum, Trichophyton rubrum, Trichophyton schoenleini, Trichophyton tonsurans, Trichophyton verrucosum, T verrucosum var. album, var. discoides, var. ochraceum, Trichophyton violaceum, and/or Trichophyton faviforme; or from Aspergillus fumigatus, Aspergillus kavus, Aspergillus niger, Aspergillus nidulans, Aspergillus terreus, Aspergillus sydowii, Aspergillus kavatus, Aspergillus glaucus, Blastoschizomyces capitatus, Candida albicans, Candida enolase, Candida tropicalis, Candida glabrata, Candida krusei, Candida parapsilosis, Candida stellatoidea, Candida kusei, Candida parakwsei, Candida lusitaniae, Candida pseudotropicalis, Candida guilliermondi, Cladosporium carrionii, Coccidioides immitis, Blastomyces dermatidis, Cryptococcus neoformans, Geotrichum clavatum, Histoplasma capsulatum, Klebsiella pneumoniae, Microsporidia, Encephalitozoon spp., Septata intestinalis and Enterocytozoon bieneusi; Brachiola spp, Microsporidium spp., Nosema spp., Pleistophora spp., Trachipleistophora spp., Vittaforma spp Paracoccidioides brasiliensis, Pneumocystis carinii, Pythiumn insidiosum, Pityrosporum ovale, Sacharomyces cerevisiae, Saccharomyces boulardii, Saccharomyces pombe, Scedosporium apiosperum, Sporothrix schenckii, Trichosporon beigelii, Toxoplasma gondii, Penicillium marneffei, Malassezia spp., Fonsecaea spp., Wangiella spp., Sporothrix spp., Basidiobolus spp., Conidiobolus spp., Rhizopus spp, Mucor spp, Absidia spp, Mortierella spp, Cunninghamella spp, Saksenaea spp., Alternaria spp, Curvularia spp, Helminthosporium spp, Fusarium spp, Aspergillus spp, Penicillium spp, Monolinia spp, Rhizoctonia spp, Paecilomyces spp, Pithomyces spp, and Cladosporium spp. The protein or peptide derived from a protozoan may be a protozoan antigen.
The protozoan antigen may be derived from a protozoan selected from the group consisting of: Entamoeba histolytica, Giardia lambli, Cryptosporidium parvum, Cyclospora cayatanensis and Toxoplasma.
The therapeutic biomolecule may be a protein or peptide derived from a plant. Preferably, the protein or peptide is a plant antigen. For example, the plant antigen may be derived from Ricinus communis.
In another embodiment, the therapeutic biomolecule may be an immunogen or an antigen. Preferably, the immunogen or an antigen is a tumour immunogen or antigen, or cancer immunogen or antigen. The tumour immunogens and antigens may be peptide-containing tumour antigens, such as a polypeptide tumour antigen or glycoprotein tumour antigens.
The tumour antigens may be (a) full length molecules associated with cancer cells, (b) homologs and modified forms of the same, including molecules with deleted, added and/or substituted portions, and (c) fragments of the same.
Suitable tumour immunogens include: class I-restricted antigens recognized by CD 8+ lymphocytes or class II-restricted antigens recognized by CD4+ lymphocytes.
The tumour antigen may be an antigen that is associated with a cancer selected from the group consisting of: a testis cancer, melanoma, lung cancer, head and neck cancer, NSCLC, breast cancer, gastrointestinal cancer, bladder cancer, colorectal cancer, pancreatic cancer, lymphoma, leukaemia, renal cancer, hepatoma, ovarian cancer, gastric cancer and prostate cancer.
The tumour antigen may be selected from:
The therapeutic biomolecule may be a eukaryotic protein or peptide. In one embodiment, the eukaryotic protein or peptide is a mammalian protein or peptide. The mammalian protein or peptide may be selected from the group consisting of: an enzyme; an enzyme inhibitor; a hormone; an immune system protein; a receptor; a binding protein; a transcription factor; translation factor; tumour growth suppressing protein; a structural protein; and a blood protein.
The immune system protein may be an antibody or antigen binding fragment thereof. Accordingly, the therapeutic biomolecule may be an antibody or antigen binding fragment thereof. The antigen binding fragment may comprise an individual heavy or light chain, or a fragment thereof, such as VL, VH and Fd; a monovalent fragment, such as Fv, Fab, and Fab′; a bivalent fragment, such as F(ab′)2; a single chain Fv (scFv); one or more complementarity determining region (CDR); or a Fc fragment.
The enzyme may be selected from the group consisting of: chymosin; gastric lipase; tissue plasminogen activator; streptokinase; a cholesterol biosynthetic or degradative steriodogenic enzyme; kinases; phosphodiesterases; methylases; de-methylases; dehydrogenases; cellulases; proteases; lipases; phospholipases; aromatases; cytochromes; adenylate or guanylaste cyclases and neuramidases.
The enzyme inhibitor may be tissue inhibitor of metalloproteinase (TIMP). The hormone may be growth hormone.
The immune system protein may be selected from the group consisting of: a cytokine; a chemokine; a lymphokine; erythropoietin; an integrin; addressin; selectin; homing receptors; T cell receptors and immunoglobulins.
The cytokine may be an interleukin, for example IL-2, IL-4 and/or IL-6, colony stimulating factor (CSF), granulocyte colony stimulating factor (G-CSF), granulocyte-macrophage colony stimulating factor (GM-CSF) or tumour necrosis factor (TNF).
The chemokine may be a macrophage inflammatory protein-2 and/or a plasminogen activator.
The lymphokine may be an interferon.
The immunoglobulin may be a natural, modified or chimeric immunoglobulin or a fragment thereof. Preferably, the immunoglobulin is a chimeric immunoglobulin having dual activity such as antibody enzyme or antibody-toxin chimera.
The hormone may be selected from the group consisting of: insulin, thyroid hormone, catecholamines, gonadotrophines, trophic hormones, prolactin, oxytocin, dopamine, bovine somatotropin, leptins; growth hormones (e.g., human growth hormone), growth factors (e.g., epidermal growth factor, nerve growth factor, insulin-like growth factor and the like).
The receptor may be a steroid hormone receptor or a peptide receptor. Preferably, the receptor is a growth factor receptor.
The binding protein may be a growth factor binding protein.
The tumour growth suppressing protein may be a protein that inhibits angiogenesis.
The structural protein may be selected from the group consisting of: collagen; fibroin; fibrinogen; elastin; tubulin; actin; and myosin.
The blood protein may be selected from the group consisting of thrombin; serum albumin; Factor VII; Factor VIII; insulin; Factor IX; Factor X; tissue plasminogen activator; protein C; von Willebrand factor; antithrombin III; glucocerebrosidase; erythropoietin granulocyte colony stimulating factor (GCSF) or modified Factor VIII; and anticoagulants.
In one preferred embodiment, the therapeutic biomolecule is a cytokine which is capable of regulating lymphoid homeostasis, preferably a cytokine which is involved in and preferably induces or enhances development, priming, expansion, differentiation and/or survival of T cells. Thus, preferably, the cytokine is an interleukin. Most preferably, IL-2, IL-7, IL-12, IL-15, or IL-21.
The therapeutic biomolecule may be protein that is capable of enhancing reprogramming of somatic cells to cells having stem cell characteristics. The protein that is capable of enhancing reprogramming of somatic cells to cells having stem cell characteristics may be selected from the group consisting of: OCT4, SOX2, NANOG, LIN28, p53, ART-4, BAGE, ss-catenin/m, Bcr-abL CAMEL, CAP-1, CASP-8, CDC27/m, CD 4/m, CEA, CLAUDIN-12, c-MYC, CT, Cyp-B, DAM, ELF2M, ETV6-AML1, G250, GAGE, GnT-V, GaplOO, HAGE, HER-2/neu, HPV-E7, HPV-E6, HAST-2, hTERT (or hTRT), LAGE, LDLR/FUT, MAGE-A, MAGE-B, MAGE-C, MART-1/Melan-A, MC1R, Myosin/m, MUC1, MUM-1, -2, -3, NA88-A, NF1, NY-ESO-1, NY-BR-1, p190 minor BCR-abL, Plac-1, Pml/RARa, PRAME, proteinase 3, PSA, PSM, RAGE, RU1 or RU2, SAGE, SART-1 or SART-3, SCGB3A2, SCP1, SCP2, SCP3, SSX, SURVIVIN, TEL/AML1, TPI/m, TRP-1, TRP-2, TRP-2/INT2, TPTE and WT, preferably WT-1.
Preferably, MAGE-A is selected from the group consisting of: MAGE-A 1, MAGE-A2, MAGE-A3, MAGE-A4, MAGE-A5, MAGE-A6, MAGE-A7, MAGE-A8, MAGE-A9, MAGE-A 10, MAGE-A 11, or MAGE-A 12. Preferably, the protein that is capable of enhancing reprogramming of somatic cells to cells having stem cell characteristics is OCT4, SOX2, LF4; c-MYC; NANOG; LIN28.
The therapeutic biomolecule may be a biomolecule that is utilised for the modification of cells ex vivo for cell-therapy indications. Thus, preferably the therapeutic biomolecule may be selected from the group consisting of an immunoglobulin, a T-cell receptor and NK receptor.
The therapeutic biomolecule may be an RNA molecule that is capable of regulating expression of endogenous host genes, for example an interfering RNA, such as small RNA, siRNA or microRNA.
The sequence encoding the at least one viral innate inhibitor protein (IIP) may be disposed anywhere within the RNA construct of the first aspect, such that the sequence encoding the therapeutic biomolecule (i.e. the GOI in
For example, in one embodiment, the sequence encoding the therapeutic biomolecule is preferably disposed 5′ to the sequence encoding the at least one innate modulatory protein. See for example, the saRNA embodiments 2a, 3a, 4a, and the mRNA embodiments 6a and 7a shown in
However, in another embodiment, the sequence encoding the therapeutic biomolecule is preferably disposed 3′ to the sequence encoding the at least one innate modulatory protein. See for example, the saRNA embodiments 2b, 3b, 4b, and the mRNA embodiments 6b and 7b shown in
Preferably, the RNA construct according to the first aspect comprises at least one promotor, which may be either genomic or subgenomic. Preferably, however, the promoter is a subgenomic promoter, as is shown in
Preferably, therefore, saRNA constructs of the invention comprise a promoter. The skilled person would understand that the subgenomic promotor relates to a promoter that is operably linked to the sequences encoding the at least one therapeutic biomolecule and the at least one innate inhibitor protein, such that it enables the transcription of the nucleotide sequence encoding the therapeutic biomolecule and the at least one innate modulatory protein.
Preferably, the subgenomic promoter is 26S, which is provided herein as SEQ ID No: 67, as follows:
Accordingly, preferably the promoter (which is preferably a subgenomic promoter) is as substantially as set out in SEQ ID NO: 67, or a variant or fragment thereof.
In one embodiment, the same promotor is operably linked to the sequence encoding the at least therapeutic biomolecule and the sequence encoding the at least one innate modulatory protein.
The inventor's designs, wherein both the therapeutic biomolecule (i.e. GOI) and IIP are encoded by a single strand of RNA, advantageously enables the use of much smaller doses of RNA, because it ensures that the protein is being expressed in the same cell that is sensing the RNA, and can also be replicated, therefore having the additional aspect of expression and amplification of the innate modulatory component.
Thus, in one embodiment of the RNA construct, the promoter is disposed 5′ of the sequence encoding the at least one therapeutic biomolecule and the sequence encoding the at least one innate inhibitor protein, such that the promoter is operably linked to both sequences, thereby driving expression of both.
In another embodiment, however, a first promotor is operably linked to the sequence encoding the at least one therapeutic biomolecule, and a second promotor is operably linked the sequence encoding the at least one innate inhibitor protein. This is referred to as a double genomic construct. Preferably, the first and/or second promoter is genomic or subgenomic. Preferably, both promoters are subgenomic promoters, such as 26S.
The RNA construct may encode at least two, three, four or five IIPs. In embodiments in which there is more than one sequence encoding an innate modulatory protein, a single promotor may be operably linked to all sequences encoding an innate modulatory protein.
Alternatively, a promotor may be linked to each of the sequences encoding an innate modulatory protein, such that each innate modulatory protein is operably linked to a separate promoter. In this embodiment, the separate promoters may comprise the same promotor sequence or different promoter sequences. In another embodiment, different promotors are operably linked to each sequence encoding an innate modulatory protein.
The RNA construct may further comprise a linker sequence disposed between the sequence encoding the at least one therapeutic biomolecule and the sequence encoding the at least one innate modulatory protein. This linker sequence is such that it allows the production of the IIP and the production of the therapeutic molecule from the single promoter. In one embodiment, the linker sequence encodes a peptide linker that is configured to be digested or cleaved following translation, to thereby separate the at least one therapeutic biomolecule and the at least one innate modulatory protein in the host cell. As such, the linker sequence is preferably a cleavable peptide, which may form a cleavage site, for example a 2A peptide (Furler S, Paterna J-C, Weibel M and Bueler H Recombinant AAV vectors containing the foot and mouth disease virus 2A sequence confer efficient bicistronic gene expression in cultured cells and rat substantia nigra neurons Gene Ther. 2001, vol. 8, PP: 864-873).
Preferably, the linker sequence encoding the 2A peptide sequence connects the two coding sequence together. This enables the RNA construct to overcome the size restrictions that may occur with expression in various vectors and enables expression and translation of all of the peptides encoded by the RNA construct of the first aspect to occur under control of a single promoter, as a single protein. Thus, following the translation of the single protein comprising the sequences of the IIP, the 2A peptide, and the therapeutic biomolecule, cleavage occurs in the viral 2A peptide sequence at the terminal glycine-proline link, thereby liberating two polypeptides.
The 2A spacer sequence may be any known variant, which includes those sequences referred to as E2A, F2A, P2A and T2A, as disclosed in Wang Y et al. Scientific Reports 2015, 5, i.e. suitable 2A peptides include the porcine teschovirus-1 2A (P2A)—ATNFSLLKQAGDVEENPGP (SEQ ID No: 68), Thosea asigna virus 2A (T2A)—QCTNYALLKLAGDVESNPGP (SEQ ID No: 69), equine rhinitis A virus 2A (E2A), and Foot and mouth disease virus 2A (F2A) VKQTLNFDLLKLAGDVESNPGP (SEQ ID No: 70). Preferably, the 2A peptide is Thosea asigna virus 2A (T2A).
In another embodiment, the cleavable peptide is a self-cleaving peptide. In an embodiment, the linker comprises a viral 2A peptide spacer and further comprises a furin cleavage site. Preferably, the self-cleaving peptide is a furin/2A peptide. Insertion of an upstream furin cleavage site allows the removal of 2A residues that would otherwise remain attached to the upstream protein.
The furin sequence may be disposed 3′ or 5′ of the 2A sequence. Preferably, however, the furin sequence is disposed 5′ of the 2A sequence, and preferably with a GSG spacer disposed between the furin and 2A sequence.
The skilled person would appreciate that furin is a ubiquitous calcium-dependent proprotein convertase located in the secretory pathway (mainly in the golgi and trans-golgi network) that cleaves precursor proteins at a specific recognition sequence—canonically R-X-R/K/X-R (SEQ ID No: 71), and cleaving the proprotein after the final R. Thus, in one embodiment the furin sequence is R-X-R/K/X-R. However, preferably, the furin sequence is the optimised sequence RRRRRR (SEQ ID No: 72) a GSG sequence. Preferably, the GSG spacer is disposed 3′ of the furin sequence and 5′ of the 2A sequence.
Thus, preferably, the spacer sequence is the furin/T2A, as provided by NCBI Reference Sequence: GenBank: AAC97195.1, and provided herein as SEQ ID No: 73, as follows:
Hence, preferably the spacer sequence comprises an amino acid sequence substantially as set out in SEQ ID NO: 73, or a variant or fragment thereof.
In embodiments in which the RNA construct or replicon comprises more than one sequence encoding an innate modulatory protein, the construct may comprise linker sequences disposed between each sequence encoding an innate modulatory protein, or only between some IIPs.
In one embodiment, the sequence encoding the at least one therapeutic biomolecule and the sequence encoding the at least one innate modulatory protein may be separated by a stop codon followed by an internal ribosome entry site (IRES) sequence capable of initiating translation of the downstream sequence, whichever sequence that may be (i.e. GOI or IIP as shown in embodiments 3a, 3b, 7a or 7b in
In an embodiment, the IRES is a picornavirus IRES. Oher typical IRES sequences include those such as the IRES sequence of encephalomyocarditis virus (EMCV) or vascular endothelial growth factor and type 1 collagen-inducible protein (VCIP), and would be known to those skilled in the art.
In other embodiments, the IRES may be selected from a rhinovirus IRES, a hepatitis A virus IRES, a hepatitis C virus IRES, a poliovirus IRES, an enterovirus IRES, a cardiovirus IRES, an aphthovirus IRES, flavivirus IRES, a pestivirus IRES, a cripavirus IRES, a Rhopalosiphum padi virus IRES, or any suitable IRES. In particular, the IRES may be any IRES described by the “IRESite” which provides a database of experimentally verified IRES structures (http://www.iresite.org/), or as disclosed in “New Messenger RNA Research Communications” (ISBN: 1-60021-488-6).
In a preferred embodiment, the IRES is a foot-and-mouth disease virus (FMDV) IRES, which may be as set out in SEQ ID No:74, or a fragment or variant thereof, as follows:
In another preferred embodiment, the IRES is an encephalomyocarditis virus (EMCV) IRES. The EMCV IRES may be as set out in SEQ ID No:75, or a fragment or variant thereof, as follows:
Therefore, preferably the IRES comprises a nucleotide sequence substantially as set out in SEQ ID No: 74 or 75, or a fragment or variant thereof.
Alternatively, instead of an IRES or a 2A linker, the linker sequence may comprise a sequence encoding a flexible linker, which allows for the expression of both the therapeutic biomolecule and IIP as a single polypeptide chain, but wherein the therapeutic biomolecule and IIP act as independent proteins. Hence, the proteins exert their effects in the same manner as if they were singly expressed.
The flexible linker sequence may be as disclosed by WO 2013/061076 A1 (Oxford Biomedica). The flexible linker sequence may be referred to herein as SEQ ID No:76, or a fragment or variant thereof, as follows:
Preferably, therefore, the flexible linker sequence comprises a nucleotide sequence substantially as set out in SEQ ID No: 76, or a fragment or variant thereof.
In one preferred embodiment, the flexible linker sequence comprises a nucleotide sequence encoding an amino acid sequence referred to herein as SEQ ID NO: 77, or a fragment or variant thereof, as set out below:
Preferably, therefore, the flexible linker sequence encodes an amino acid sequence substantially as set out in SEQ ID No: 77, or a fragment or variant thereof.
In yet another embodiment, the sequence encoding the at least one therapeutic biomolecule and the at least one innate inhibitor protein may be separated by a stop codon followed by a second subgenomic promotor sequence capable of initiating transcription of the downstream sequence. Examples of this embodiment are illustrated in
The RNA construct (preferably when it is a saRNA construct) may encode at least one non-structural protein (NSP), disposed 5′ or 3′ of the sequence encoding the at least one therapeutic biomolecule and the at least one innate modulatory protein. Preferably, the sequence encoding the at least one NSP is disposed 5′ of the sequences encoding the therapeutic biomolecule and the at least one innate modulatory protein. Thus, preferably the sequence encoding the at least one NSP is disposed at the 5′ end of the RNA construct.
The at least one non-structural protein, which is encoded by the RNA construct, may be the RNA polymerase NSP4. The one or more non-structural protein preferably encodes a replicase. Preferably, the construct encodes NSP1, NSP2, NSP3 and NSP4. The skilled person would understand that NSP1 is the viral capping enzyme and membrane anchor of the replication complex (RC), while NSP2 is an RNA helicase and the protease responsible for the ns polyprotein processing. NSP3 interacts with several host proteins and may modulate protein poly- and mono-ADP-ribosylation, and NSP4 is the core viral RNA-dependent RNA polymerase.
In one embodiment, NSP1 is provided herein as SEQ ID No: 78, as follows:
Accordingly, NSP1 preferably comprises an amino acid sequence as substantially as set out in SEQ ID No: 78, or a biologically active variant or fragment thereof.
In one embodiment, NSP1 is encoded by a nucleotide sequence a defined in SEQ ID No: 79, as follows:
Accordingly, NSP1 is preferably encoded by a nucleotide sequence as substantially as set out in SEQ ID No: 79, or a variant or fragment thereof.
Accordingly, therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out as SEQ ID No: 80, or a variant or fragment thereof.
In one embodiment, NSP2 is provided herein as SEQ ID No: 81, as follows:
Accordingly, NSP2 preferably comprises an amino acid sequence as substantially as set out in SEQ ID No: 81, or a biologically active variant or fragment thereof.
In one embodiment, NSP2 is encoded by a nucleotide sequence a defined in SEQ ID No: 82, as follows:
Accordingly, preferably NSP2 is encoded by a nucleotide sequence as substantially as set out in SEQ ID No: 82, or a variant or fragment thereof.
Thus, the RNA construct may comprise SEQ ID No: 83, as follows:
Accordingly, therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out as SEQ ID No: 83, or a variant or fragment thereof.
In one embodiment, NSP3 is provided herein as SEQ ID No: 84, as follows:
Accordingly, preferably NSP3 comprises an amino acid sequence as substantially as set out in SEQ ID No: 84, or a biologically active variant or fragment thereof.
In one embodiment, NSP3 is encoded by a nucleotide sequence a defined in SEQ ID No: 85, as follows:
Accordingly, preferably NSP3 comprises an amino acid sequence as substantially as set out in SEQ ID No: 85, or a biologically active variant or fragment thereof.
Thus, the RNA construct may comprise SEQ ID No: 86, as follows:
Accordingly, therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out as SEQ ID No: 86, or a variant or fragment thereof.
In one embodiment, NSP4 is provided herein as SEQ ID No: 87, as follows:
Accordingly, preferably NSP4 comprises an amino acid sequence as substantially as set out in SEQ ID No: 87, or a biologically active variant or fragment thereof.
In one embodiment, NSP4 is encoded by a nucleotide sequence a defined in SEQ ID No: 88, as follows:
Accordingly, preferably NSP4 is encoded by a nucleotide sequence as substantially as set out in SEQ ID No: 88, or a variant or fragment thereof.
Thus, the RNA construct may comprise SEQ ID No: 89, as follows:
Accordingly, therefore, preferably the RNA construct comprises an RNA nucleotide sequence substantially as set out as SEQ ID No: 89, or a variant or fragment thereof.
Preferably, together with proteins present in a host cell, the non-structural proteins encoded by the RNA construct of the invention form an enzyme complex (i.e. a replicase) that is required for genome replication and transcription of the sequences encoding the at least one therapeutic biomolecule and the at least one innate modulatory protein. For example, the one or more non-structural protein may encode a polymerase to enable the construct to amplify the nucleotide sequences encoding the at least one peptide or protein of interest (i.e. therapeutic biomolecule) and the at least one innate modulatory protein.
The host cell may be a eukaryotic or prokaryotic host cell. Preferably, the host cell is a eukaryotic host cell. More preferably, the host cell is a mammalian host cell.
The RNA construct may further comprise a promoter disposed 5′ of the at least one non-structural protein, such that the promoter is operably linked to the sequence encoding the at least one non-structural protein and enables expression of the at least one non-structural protein in a host cell.
Preferably, the RNA construct comprises a 5′ UTR conserved sequence element, which may be referred to herein as SEQ ID No: 90, as follows:
Accordingly, preferably the UTR is disposed 5′ of the at least one non-structural protein and comprises a nucleotide sequence substantially as set out in SEQ ID No: 90, or a fragment or variant thereof.
Preferably, the RNA construct comprises a 3′ UTR conserved sequence element, which may be referred to herein as SEQ ID No: 91, as follows:
Accordingly, preferably the 3′ UTR is disposed 3′ of the at least one non-structural protein and comprises a nucleotide sequence substantially as set out in SEQ ID No: 91, or a fragment or variant thereof.
Preferably, the RNA construct comprises a polyA tail. Preferably, the polyA tail is disposed at the 3′ end of the construct. The poly A tail may comprise at least 35 nt, or at least 40 nt, or at least 45 nt, or at least 50 nt, wherein each nt is an adenine. In another embodiment, the polyA tail may comprise at least 55 nt or at least 60 nt, wherein each nt is an adenine. In yet another embodiment, the polyA tail may comprise at least 60 adenines, followed by one or more non-adenine nucleotides (i.e. G, C or T, preferably guanine), and then another at least 35 nt, or at least 40 nt, or at least 45 nt, or at least 50 nt, or at least 55 nt, or at least 60 nt, wherein each nt is an adenine.
The RNA construct may further comprise a 5′ cap. In the context of the present invention, the term “5′-cap” includes a 5′-cap analog that resembles the RNA cap structure and is modified to possess the ability to stabilize RNA and/or enhance translation of RNA if attached thereto, preferably in vivo and/or in a cell.
An RNA with a 5′-cap may be achieved by in vitro transcription of a DNA template in presence of said 5′-cap, wherein said 5′-cap is co-transcriptionally incorporated into the generated RNA strand, or the RNA may be generated, for example, by in vitro transcription, and the 5′-cap may be attached to the RNA post-transcriptionally using capping enzymes, for example, capping enzymes of vaccinia virus. In capped RNA, the 3′ position of the first base of a (capped) RNA molecule is linked to the 5′ position of the subsequent base of the RNA molecule (“second base”) via a phosphodiester bond.
In one embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one therapeutic biomolecule, a linker sequence, and at least one sequence encoding an IIP. In one embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one IIP, a linker sequence, and a sequence encoding at least one therapeutic biomolecule. The linker may be F-T2a or IRES in either embodiment.
In another embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one non-structural protein, a sub genomic promoter, a sequence encoding at least one therapeutic biomolecule, a linker sequence, and a sequence encoding at least one viral IIP. In another embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one non-structural protein, a sub genomic promoter, a sequence encoding at least one viral IIP, a linker sequence, and a sequence encoding at least one therapeutic biomolecule. The linker may be F-T2a or IRES in either embodiment.
In yet another embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one non-structural protein, a sub genomic promoter, a sequence encoding at least one therapeutic biomolecule, a linker sequence, a sequence encoding at least one viral IIP, and a polyA tail. In yet another embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one non-structural protein, a sub genomic promoter, a sequence encoding at least one viral IIP, a linker sequence, a sequence encoding at least one therapeutic biomolecule, and a polyA tail. The linker may be F-T2a or IRES in either embodiment.
In another embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one non-structural protein, a first sub genomic promoter, a sequence encoding at least one therapeutic biomolecule, a second sub genomic promoter, a sequence encoding at least one viral IIP, and a polyA tail. In another embodiment, the RNA construct comprises, preferably 5′ to 3′, a promoter, a sequence encoding at least one non-structural protein, a first sub genomic promoter, a sequence encoding at least one viral IIP, a second sub genomic promoter, a sequence encoding at least one therapeutic biomolecule, and a polyA tail.
Most preferably, the RNA construct comprises, 5′ to 3′, a 5′ cap, a promoter, nsP1, nsP2, nsP3, nsP4, the sub genomic promoter 26S, a sequence encoding a therapeutic biomolecule, a linker sequence, a sequence encoding the viral IIP and a polyA tail. Most preferably, the RNA construct comprises, 5′ to 3′, a 5′ cap, a promoter, nsP1, nsP2, nsP3v, nsP4, the sub genomic promoter 26S, a sequence encoding a viral IIP, a linker sequence, a sequence encoding a therapeutic biomolecule; and a polyA tail.
In one embodiment, therefore, the RNA construct may encode or comprise a GOI—furin T2A—HCV E6 (which is the first viral IIP mentioned herein, but it will be appreciated that any of the IIPs or linkers disclosed herein may be used). Hence, the RNA construct may comprise or consist of a single RNA construct comprising or consisting of SEQ ID No: 92, a GOI, and SEQ ID No: 457, in a single RNA construct. SEQ ID No: 92 and SEQ ID No: 457 are as follows:
Accordingly, preferably the RNA construct comprises a nucleotide sequence substantially as set out above, comprising or consisting of SEQ ID No: 92, a GOI, and SEQ ID No: 457, or a fragment or variant thereof.
In a second aspect of the invention, there is provided a nucleic acid sequence encoding the RNA construct of the first aspect.
In one embodiment, the nucleic acid sequence may encode a GOI—furin T2A—HCV E6 (which is the first viral IIP mentioned herein, but it will be appreciated that any of the IIPs or linkers disclosed herein may be used). Thus, the nucleic acid sequence may comprise or consist of SEQ ID No: 93, a GOI, and SEQ ID No: 458. SEQ ID No: 93 and SEQ ID No: 458 are as follows:
Accordingly, preferably the nucleic acid sequence comprises a nucleotide sequence substantially as set out above, comprising or consisting of SEQ ID No: 93, a GOI, and SEQ ID No: 458, or a fragment or variant thereof.
In a third aspect, there is provided an expression cassette comprising a nucleic acid sequence according to the second aspect.
The nucleic acid sequences of the invention are preferably harboured in a recombinant vector, for example a recombinant vector for delivery into a host cell of interest to enable production of the RNA construct.
Accordingly, in a fourth aspect, there is provided a recombinant vector comprising the expression cassette according to the third aspect.
In one embodiment, the vector may comprise a DNA sequence which encodes or comprises an saRNA plasmid construct harbouring a GOI—furin T2A—HCV E6 (which is the first viral IIP mentioned herein, but it will be appreciated that any of the IIPs or linkers disclosed herein may be used). Therefore, the vector may comprise the nucleic acid sequence of SEQ ID No: 94, a GOI, and the nucleic acid sequence of SEQ ID No: 459, in a single vector. SEQ ID No: 94 and SEQ ID No: 459 are as follows, where “GOI” represents the position of the therapeutic biomolecule encoding sequence:
Accordingly, preferably the vector comprises the nucleotide sequence substantially as set out above, comprising or consisting of SEQ ID NO: 94, a GOI, and SEQ ID No: 459, or a variant or fragment thereof.
The saRNA constructs of the invention may be made using a DNA plasmid, as a template. RNA copies may then be made by in vitro transcription using a polymerase, such as T7 polymerase, and the T7 promoter may be upstream of the saRNA. Hence, the saRNA constructs of the invention may be made using the DNA plasmid having a nucleic acid sequence substantially as set out above, comprising or consisting of SEQ ID No: 94, a GOI, and SEQ ID No: 459, or a variant or fragment thereof, as the template. Of course, it will be appreciated that other RNA polymerases could be used instead of T7 polymerase, for example the SP6 or the T3 polymerase, in which case the saRNA construct may comprise the SP6 or T3 promoter instead.
The vector of the fourth aspect encoding the RNA construct of the first aspect may for example be a plasmid, cosmid or phage and/or be a viral vector. Such recombinant vectors are highly useful in the delivery systems of the invention for transforming cells with the nucleotide sequences. The nucleotide sequences may preferably be a DNA sequence, and it is this DNA sequence which encodes the RNA sequence forming the RNA construct of the first aspect.
Recombinant vectors encoding the RNA construct of the first aspect may also include other functional elements. For example, they may further comprise a variety of other functional elements including a suitable promoter for initiating transgene expression upon introduction of the vector in a host cell. For instance, the vector is preferably capable of autonomously replicating in the nucleus of the host cell, such as a bacterial cell. In this case, elements which induce or regulate DNA replication may be required in the recombinant vector. Alternatively, the recombinant vector may be designed such that it integrates into the genome of a host cell. In this case, DNA sequences which favour targeted integration (e.g. by homologous recombination) are envisaged. Suitable promoters may include the SV40 promoter, CMV, EF1a, PGK, viral long terminal repeats, as well as inducible promoters, such as the Tetracycline inducible system, as examples. The cassette or vector may also comprise a terminator, such as the Beta globin, SV40 polyadenylation sequences or synthetic polyadenylation sequences. The recombinant vector may also comprise a promoter or regulator or enhancer to control expression of the nucleic acid as required.
The vector may also comprise DNA coding for a gene that may be used as a selectable marker in the cloning process, i.e. to enable selection of cells that have been transfected or transformed, and to enable the selection of cells harbouring vectors incorporating heterologous DNA. For example, ampicillin, neomycin, puromycin or chloramphenicol resistance is envisaged. Alternatively, the selectable marker gene may be in a different vector to be used simultaneously with the vector containing the transgene(s). The cassette or vector may also comprise DNA involved with regulating expression of the nucleotide sequence, or for targeting the expressed polypeptide to a certain part of the host cell.
Purified vector may be inserted directly into a host cell by suitable means, e.g. direct endocytotic uptake. The vector may be introduced directly into a host cell (e.g. a eukaryotic or prokaryotic cell) by transfection, infection, electroporation, microinjection, cell fusion, protoplast fusion or ballistic bombardment. Alternatively, vectors of the invention may be introduced directly into a host cell using a particle gun.
The nucleic acid molecule may (but not necessarily) be one, which becomes incorporated in the DNA of the host cell. Undifferentiated cells may be stably transformed leading to the production of genetically modified daughter cells (in which case regulation of expression in the subject may be required e.g. with specific transcription factors or gene activators). Alternatively, the delivery system may be designed to favour unstable or transient transformation of differentiated cells. When this is the case, regulation of expression may be less important because expression of the DNA molecule will stop when the transformed cells die or stop expressing the protein.
Alternatively, the delivery system may provide the nucleic acid molecule to the host cell without it being incorporated in a vector. For instance, the nucleic acid molecule may be incorporated within a liposome or virus particle. Alternatively a “naked” nucleic acid molecule may be inserted into a host cell by a suitable means e.g. direct endocytotic uptake.
In a fifth aspect, there is provided a pharmaceutical composition comprising the RNA construct of the first aspect, the nucleic acid sequence of the second aspect, the expression cassette of the third aspect or the vector of the fourth aspect, and a pharmaceutically acceptable vehicle.
In a sixth aspect, there is provided a process for making the pharmaceutical composition according to the fifth aspect, the method comprising contacting the RNA construct of the first aspect, the nucleic acid sequence of the second aspect, the expression cassette of the third aspect or the vector of the fourth aspect, with a pharmaceutically acceptable vehicle.
In a seventh aspect, there is provided a method of preparing the RNA construct of the first aspect, the method comprising:
The host cell of step a) may be a eukaryotic or prokaryotic host cell. Preferably, the host cell is a eukaryotic host cell. More preferably, the host cell is a mammalian host cell such as Human embryonic kidney 293 cells or Chinese hamster ovary (CHO) cells. Step (b) may be performed in vitro or in vivo, preferably in vitro.
Suitable methods of in vitro transcription are well known in the art and would be known to those skilled in the art. For example, as described in Molecular Cloning, A Laboratory Manual, 2nd edition. (1989) editor C Nolan, Cold Spring Harbor Laboratory Press.
The RNA replicon of the first aspect is particularly suitable for therapy.
While the inventors envisaged that the RNA construct of the first aspect would be generated by in vitro transcription for in vivo use in therapy, those experienced in the art will recognise that the RNA construct can be generated in vivo in a subject for therapy, by in vivo delivery of the nucleic acid according to the second aspect, the expression cassette according to the third aspect, or the vector according to the fourth aspect to a subject.
Hence, according to an eighth aspect, there is provided a RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect, for use as a medicament or in therapy.
In a ninth aspect of the invention, there is provided a RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect, for use in the prevention, amelioration or treatment of a protozoan, fungal, bacterial or viral infection.
The protozoan, fungal, bacterial or viral infection may be an infection of a protozoa, fungus, bacterium or virus as defined in the first aspect.
In a tenth aspect of the invention, there is provided an RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect, for use in the prevention, amelioration or treatment of cancer.
The cancer may be as defined in the first aspect.
In an eleventh aspect of the invention, there is provided a method for treating a protozoan, fungal, bacterial or viral infection, the method comprising administering, to a subject in need thereof, a therapeutically effective amount of the RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect.
The protozoan, fungal, bacterial or viral infection to be treated may be an infection of a protozoa, fungus, bacterium or virus as defined in the first aspect.
In a twelfth aspect of the invention, there is provided a method for treating cancer, the method comprising administering, to a subject in need thereof, a therapeutically effective amount of the RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect.
The cancer to be treated may be as defined in the first aspect.
The RNA construct described herein provides an effective means of vaccinating a subject (e.g. against a viral, bacterial or fungal infection) and cancer.
Accordingly, in a thirteenth aspect of the invention, there is provided a vaccine comprising the RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect.
The adjuvant incorporated into a delivery formulation may be selected form the group consisting of a bacterial lipopeptide, lipoprotein and lipoteichoic acid; mycobacterial lipoglycan; yeast zymosan, porin, Lipopolysaccharide, Lipid A, monophosphoryl lipid A (MPL), Flagellin, CpG DNA, hemozoin, Tomatine, ISCOM, ISCOMATRIX™, squalene based emulsions, polymers such as PEI, Carbopol, lipid nanoparticles and bacterial toxins (CT, LT). Other examples of adjuvants incorporated into the delivery formulation may include an aluminium salt, a synthetic form of DNA, a carbohydrate, a tablet binder, an ion exchange resin, a preservative, a polymer, an emulsion and/or a lipid. Examples of adjuvants may include monosodium glutamate, sucrose, dextrose, aluminum bovine, human serum albumin, cytosine phosphoguanine, potassium phosphate, plasdone C, anhydrous lactose, cellulose, polacrilin potassium, glycerine, asparagine, citric acid, potassium phosphate magnesium sulfate, iron ammonium citrate, 2-phenoxyethanol, aluminium, beta-propiolactone, bovine extract, DOPC, EDTA, formaldehyde, thimerosal, phenol, potassium aluminum sulfate, potassium glutamate, sodium borate, sodium metabisulphite, urea, PLGA, PVA, PLA, PVP, cyclodextrin-based stabilisers, oil in water emulsion adjuvants and/or lipid-based adjuvants.
In a fourteenth aspect of the invention, there is provided an RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect, for use in stimulating an immune response in a subject.
The immune response may be stimulated against a protozoa, bacterium, virus, fungus or cancer as per the antigens defined in the first aspect.
In another aspect, there is provided a method of vaccinating a subject, the method comprising administering, or having administered, to a subject in need thereof, a therapeutically effective amount of the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect.
According to a fifteenth aspect, there is provided an RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect, for use in stem cell therapy.
Stem cell therapy may relate to the reprogramming somatic cells to cells having stem cell characteristics.
Somatic cells may be reprogrammed by delivering one or more proteins that are capable of enhancing reprogramming of somatic cells to cells having stem cell characteristics as defined in the first aspect.
According to a sixteenth aspect, there is provided a method of modifying a cell ex vivo or in vitro, comprising delivering, to the cell, the RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect.
Preferably, the method is performed ex vivo.
The cell may be a eukaryotic or prokaryotic cell. Preferably, the cell is a eukaryotic cell. More preferably, the cell is a mammalian host cell. Most preferably, the cell is a human cell.
Preferably, the modified cell is suitable for cell-therapy indications.
In a seventeenth aspect, there is provided a modified cell obtained from, or obtainable by, the method of the sixteenth aspect.
In an eighteenth aspect, there is provided the modified cell of the seventeenth aspect, for use in therapy, optionally cell therapy.
It will be appreciated that the RNA construct according to the first aspect, the nucleic acid according to the second aspect, the expression cassette according to the third aspect, the vector according to the fourth aspect or the pharmaceutical composition according to the fifth aspect (herein known as the active agents) may be used in a medicament, which may be used as a monotherapy (i.e. use of the active agent), for treating, ameliorating, or preventing disease or vaccination. Alternatively, the active agents according to the invention may be used as an adjunct to, or in combination with, known therapies for treating, ameliorating, or preventing disease.
The RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition of the invention may be combined in compositions having a number of different forms depending, in particular, on the manner in which the composition is to be used. Thus, for example, the composition may be in the form of a powder, tablet, capsule, liquid, ointment, cream, gel, hydrogel, aerosol, spray, micellar solution, transdermal patch, liposome suspension, polyplex, emulsion, lipid nanoparticles (with RNA on the surface or encapsulated) or any other suitable form that may be administered to a person or animal in need of treatment or vaccination. It will be appreciated that the vehicle of medicaments according to the invention should be one which is well-tolerated by the subject to whom it is given.
The RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition of the invention may also be incorporated within a slow- or delayed-release device. Such devices may, for example, be inserted on or under the skin, and the medicament may be released over weeks or even months. The device may be located at least adjacent to the treatment site. Such devices may be particularly advantageous when long-term treatment with the RNA construct or the recombinant vector is required and which would normally require frequent administration (e.g. at least daily injection).
In a preferred embodiment, however, medicaments according to the invention may be administered to a subject by injection into the blood stream, muscle, skin or directly into a site requiring treatment. Most preferably, the medicaments, including the RNA construct, are injected into muscle. Injections may be intravenous (bolus or infusion) or subcutaneous (bolus or infusion), or intradermal (bolus or infusion), or intramuscular (bolus or infusion).
It will be appreciated that the amount of RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition that is required is determined by its biological activity and bioavailability, which in turn depends on the mode of administration, the physiochemical properties of the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition and whether it is being used as a monotherapy or in a combined therapy. The frequency of administration will also be influenced by the half-life of the active agent within the subject being treated. Optimal dosages to be administered may be determined by those skilled in the art, and will vary with the particular the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition in use, the strength of the pharmaceutical composition, the mode of administration, and the type and advancement of the viral infection. Additional factors depending on the particular subject being treated will result in a need to adjust dosages, including subject age, weight, gender, diet, and time of administration.
Generally, a daily dose of between 0.001 μg/kg of body weight and 10 mg/kg of body weight, or between 0.1 μg/kg of body weight and 1 mg/kg of body weight, of the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition of the invention may be used for treating, ameliorating, or preventing a disease, depending upon the active agent used.
Daily doses may be given as a single administration (e.g. a single daily injection or inhalation of a nasal spray). Alternatively, the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition may require administration twice or more times during a day. As an example, the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition may be administered as two (or more depending upon the severity of the disease being treated) daily doses of between 0.07 μg and 700 mg (i.e. assuming a body weight of 70 kg). A patient receiving treatment may take a first dose upon waking and then a second dose in the evening (if on a two dose regime) or at 3- or 4-hourly intervals thereafter. Alternatively, a slow release device may be used to provide optimal doses of the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition according to the invention to a patient without the need to administer repeated doses.
Preferably, however, the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition according to the invention may be given as a weekly dose, and more preferably a fortnightly dose.
Known procedures, such as those conventionally employed by the pharmaceutical industry (e.g. in vivo experimentation, clinical trials, etc.), may be used to form specific formulations of the RNA construct, nucleic acid sequence, expression cassette or vector according to the invention and precise therapeutic regimes (such as daily doses of the agents and the frequency of administration).
A “subject” may be a vertebrate, mammal, or domestic animal. Hence, compositions and medicaments according to the invention may be used to treat any mammal, for example livestock (e.g. a horse), pets, or may be used in other veterinary applications. Most preferably, however, the subject is a human being.
A “therapeutically effective amount” of the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition is any amount which, when administered to a subject, is the amount of the aforementioned that is needed to ameliorate, prevent or treat any given disease.
For example, the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition of the invention may be used from about 0.0001 mg to about 800 mg, and preferably from about 0.001 mg to about 500 mg. It is preferred that the amount of the replicon, nucleic acid sequence, expression cassette, vector or pharmaceutical composition is an amount from about 0.001 mg to about 250 mg, and most preferably from about 0.01 mg to about 1 mg. Preferably, the RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition according to the invention is administered at a dose of 1-200 g.
A “pharmaceutically acceptable vehicle” as referred to herein, is any known compound or combination of known compounds that are known to those skilled in the art to be useful in formulating pharmaceutical compositions.
In one embodiment, the pharmaceutically acceptable vehicle may be a solid, and the composition may be in the form of a powder or tablet. A solid pharmaceutically acceptable vehicle may include one or more substances which may also act as flavouring agents, lubricants, solubilisers, suspending agents, dyes, fillers, glidants, compression aids, inert binders, sweeteners, preservatives, dyes, coatings, or tablet-disintegrating agents. The vehicle may also be an encapsulating material. In powders, the vehicle is a finely divided solid that is in admixture with the finely divided active agents according to the invention. In tablets, the active agent (e.g. RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition according to the invention) may be mixed with a vehicle having the necessary compression properties in suitable proportions and compacted in the shape and size desired. The powders and tablets preferably contain up to 99% of the active agents. Suitable solid vehicles include, for example calcium phosphate, magnesium stearate, tale, sugars, lactose, dextrin, starch, gelatin, cellulose, polyvinylpyrrolidine, low melting waxes and ion exchange resins. In another embodiment, the pharmaceutical vehicle may be a gel and the composition may be in the form of a cream or the like.
However, the pharmaceutical vehicle may be a liquid, and the pharmaceutical composition is in the form of a solution. Liquid vehicles are used in preparing solutions, suspensions, emulsions, syrups, elixirs and pressurized compositions. The RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition according to the invention may be dissolved or suspended in a pharmaceutically acceptable liquid vehicle such as water, an organic solvent, a mixture of both or pharmaceutically acceptable oils or fats. The liquid vehicle can contain other suitable pharmaceutical additives such as solubilisers, emulsifiers, buffers, preservatives, sweeteners, flavouring agents, suspending agents, thickening agents, colours, viscosity regulators, stabilizers or osmo-regulators. Suitable examples of liquid vehicles for oral and parenteral administration include water (partially containing additives as above, e.g. cellulose derivatives, preferably sodium carboxymethyl cellulose solution), alcohols (including monohydric alcohols and polyhydric alcohols, e.g. glycols) and their derivatives, and oils (e.g. fractionated coconut oil and arachis oil). For parenteral administration, the vehicle can also be an oily ester such as ethyl oleate and isopropyl myristate. Sterile liquid vehicles are useful in sterile liquid form compositions for parenteral administration. The liquid vehicle for pressurized compositions can be a halogenated hydrocarbon or other pharmaceutically acceptable propellant.
Liquid pharmaceutical compositions, which are sterile solutions or suspensions, can be utilized by, for example, subcutaneous, intradermal, intrathecal, epidural, intraperitoneal, intravenous and particularly intramuscular injection. The nucleic acid sequence, or expression cassette of the invention may be prepared as a sterile solid composition that may be dissolved or suspended at the time of administration using sterile water, saline, or other appropriate sterile injectable medium.
The RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition of the invention may be administered orally in the form of a sterile solution or suspension containing other solutes or suspending agents (for example, enough saline or glucose to make the solution isotonic), bile salts, acacia, gelatin, sorbitan monoleate, polysorbate 80 (oleate esters of sorbitol and its anhydrides copolymerized with ethylene oxide) and the like. The RNA construct, nucleic acid sequence, expression cassette, vector or pharmaceutical composition according to the invention can also be administered orally either in liquid or solid composition form. Compositions suitable for oral administration include solid forms, such as pills, capsules, granules, tablets, and powders, and liquid forms, such as solutions, syrups, elixirs, and suspensions. Forms useful for parenteral administration include sterile solutions, emulsions, and suspensions.
It will be appreciated that the invention extends to any nucleic acid or peptide or variant, derivative or analogue thereof, which comprises substantially the amino acid or nucleic acid sequences of any of the sequences referred to herein, including variants or fragments thereof. The terms “substantially the amino acid/nucleotide/peptide sequence”, “variant” and “fragment”, can be a sequence that has at least 40% sequence identity with the amino acid/nucleotide/peptide sequences of any one of the sequences referred to herein, for example 40% identity with any of the sequences identified herein.
Amino acid/polynucleotide/polypeptide sequences with a sequence identity which is greater than 65%, more preferably greater than 70%, even more preferably greater than 75%, and still more preferably greater than 80% sequence identity to any of the sequences referred to are also envisaged. Preferably, the amino acid/polynucleotide/polypeptide sequence has at least 85% identity with any of the sequences referred to, more preferably at least 90% identity, even more preferably at least 92% identity, even more preferably at least 95% identity, even more preferably at least 97% identity, even more preferably at least 98% identity and, most preferably at least 99% identity with any of the sequences referred to herein.
The skilled technician will appreciate how to calculate the percentage identity between two amino acid/polynucleotide/polypeptide sequences. In order to calculate the percentage identity between two amino acid/polynucleotide/polypeptide sequences, an alignment of the two sequences must first be prepared, followed by calculation of the sequence identity value. The percentage identity for two sequences may take different values depending on:—(i) the method used to align the sequences, for example, ClustalW, BLAST, FASTA, Smith-Waterman (implemented in different programs), or structural alignment from 3D comparison; and (ii) the parameters used by the alignment method, for example, local vs global alignment, the pair-score matrix used (e.g. BLOSUM62, PAM250, Gonnet etc.), and gap-penalty, e.g. functional form and constants.
Having made the alignment, there are many different ways of calculating percentage identity between the two sequences. For example, one may divide the number of identities by: (i) the length of shortest sequence; (ii) the length of alignment; (iii) the mean length of sequence; (iv) the number of non-gap positions; or (v) the number of equivalenced positions excluding overhangs. Furthermore, it will be appreciated that percentage identity is also strongly length dependent. Therefore, the shorter a pair of sequences is, the higher the sequence identity one may expect to occur by chance.
Hence, it will be appreciated that the accurate alignment of protein or DNA sequences is a complex process. The popular multiple alignment program ClustalW (Thompson et al., 1994, Nucleic Acids Research, 22, 4673-4680; Thompson et al., 1997, Nucleic Acids Research, 24, 4876-4882) is a preferred way for generating multiple alignments of proteins or DNA in accordance with the invention. Suitable parameters for ClustalW may be as follows: For DNA alignments: Gap Open Penalty=15.0, Gap Extension Penalty=6.66, and Matrix=Identity. For protein alignments: Gap Open Penalty=10.0, Gap Extension Penalty=0.2, and Matrix=Gonnet. For DNA and Protein alignments: ENDGAP=−1, and GAPDIST=4. Those skilled in the art will be aware that it may be necessary to vary these and other parameters for optimal sequence alignment.
Preferably, calculation of percentage identities between two amino acid/polynucleotide/polypeptide sequences may then be calculated from such an alignment as (N/T)*100, where N is the number of positions at which the sequences share an identical residue, and T is the total number of positions compared including gaps and either including or excluding overhangs. Preferably, overhangs are included in the calculation. Hence, a most preferred method for calculating percentage identity between two sequences comprises (i) preparing a sequence alignment using the ClustalW program using a suitable set of parameters, for example, as set out above; and (ii) inserting the values of N and T into the following formula:—Sequence Identity=(N/T)*100.
Alternative methods for identifying similar sequences will be known to those skilled in the art. For example, a substantially similar nucleotide sequence will be encoded by a sequence which hybridizes to DNA sequences or their complements under stringent conditions. By stringent conditions, the inventors mean the nucleotide hybridises to filter-bound DNA or RNA in 3× sodium chloride/sodium citrate (SSC) at approximately 45° C. followed by at least one wash in 0.2×SSC/0.1% SDS at approximately 20-65° C. Alternatively, a substantially similar polypeptide may differ by at least 1, but less than 5, 10, 20, 50 or 100 amino acids from any of the sequences described herein.
Due to the degeneracy of the genetic code, it is clear that any nucleic acid sequence described herein could be varied or changed without substantially affecting the sequence of the protein encoded thereby, to provide a functional variant thereof. Suitable nucleotide variants are those having a sequence altered by the substitution of different codons that encode the same amino acid within the sequence, thus producing a silent (synonymous) change. Other suitable variants are those having homologous nucleotide sequences but comprising all, or portions of, sequence, which are altered by the substitution of different codons that encode an amino acid with a side chain of similar biophysical properties to the amino acid it substitutes, to produce a conservative change. For example, small non-polar, hydrophobic amino acids include glycine, alanine, leucine, isoleucine, valine, proline, and methionine. Large non-polar, hydrophobic amino acids include phenylalanine, tryptophan and tyrosine. The polar neutral amino acids include serine, threonine, cysteine, asparagine and glutamine. The positively charged (basic) amino acids include lysine, arginine and histidine. The negatively charged (acidic) amino acids include aspartic acid and glutamic acid. It will therefore be appreciated which amino acids may be replaced with an amino acid having similar biophysical properties, and the skilled technician will know the nucleotide sequences encoding these amino acids.
All of the features described herein (including any accompanying claims, abstract and drawings), and/or all of the steps of any method or process so disclosed, may be combined with any of the above aspects in any combination, except combinations where at least some of such features and/or steps are mutually exclusive.
For a better understanding of the invention, and to show how embodiments of the same may be carried into effect, reference will now be made, by way of example, to the accompanying Figures, in which:—
The inventors hypothesized that cis encoding proteins from non-viral sources, such as humans and other mammals, that are known to inhibit the innate recognition of saRNA or mRNA, would dampen the innate sensing in the host cell, and enhance both the protein expression and immunogenicity of RNA vaccines. Thus, the inventors designed and tested a range of RNA constructs (saRNA and mRNA) containing viral innate immune inhibitor proteins (IIPs) and a gene of interest (GOI), and then characterized whether these constructs enhance both intracellular and secreted protein expression (encoded by the gene of interest).
Materials and Methods
Cloning of saRNA Replicon Plasmids Containing IIPs
SaRNA encoding firefly luciferase (fLuc) and replicase derived from the Venezuelan equine encephalitis virus (VEEV) were cloned into a plasmid vector, as previously described (1). Replicon plasmids containing reporter gene followed by IIP (firefly luciferase f-Luc; Uniprot: Q27758) were generated with Furin-T2A or double sub-genomic promoters. Double sub-genomic (DSG) constructs are designed to initiate transcription of separate RNA molecules encoding the fLuc and IIP and were produced by cloning into a base double sub-genomic vector using Gibson assembly and a nucleotide base overlap. Briefly, plasmid DNA was restriction digested for 2 h at 37° C. and used in a NEB Builder HiFi DNA assembly reaction with gene fragment strings synthesised by GeneArt (Regensburg, Germany) or Integrated DNA Technologies (IDT) (Iowa, USA) according to manufacturer's protocol (New England BioLabs, UK). Furin-T2A (F-T2A) constructs designed to generate a single RNA transcript from the VEEV primary sub-genomic promoter with no stop codon for fLuc translation were produced by cloning IIP with F-T2A sequence into restriction enzyme sites of the corresponding DSG plasmid vector. After incubation at 50° C. for 30 min, 2 uL of the NEB Builder HiFi assembly reaction was used to transform NEB 10-alpha bacteria and the transformants plated onto LB agar plates and incubated overnight. Colonies were selected, expanded overnight and recombinant plasmid purified using Qiagen plasmid miniprep kits (Qiagen, UK). Purified clonal plasmids were analysed using a diagnostic restriction enzyme digest and those which exhibited the correct digestion pattern were fully sequenced to confirm nucleotide identity (Eurofins, Germany).
Plasmids that had IIP followed by the reporter gene in the F-T2A or DSG form as well as constructs that utilized the ECMV IRES internal ribosomal entry sequence (which initiates protein translation from the IRES element at a site internal to a messenger RNA transcript; Bochkov and Palmenburg, Biotechniques 41(3):283-4, 2006) were generated by VectorBuilder (VectorBuilder, Germany) using standard molecular techniques.
The incorporated interferon inhibiting proteins (IIP) can be found with the following database identifiers/accession numbers: EBOV VP35 (Ebola virus VP35; NP_066244.1; Accession Number—NCBI Reference Sequence: NC_002549.1; UniProtKB—Q05127 (VP35_EBOZM); EV71-2Apro (Enterovirus 71 2A pro; Accession Numbers—GenBank KC875402.1 and AG028195.1; UniProtKB—Q66478 (POLG_HE71B); HCV E2 (hepatitis C virus E2; NS1 Protein from polyprotein AAA45534.1; Accession Number—Genomic RNA Translation AAA45534.1; UniProtKB—P27958 (384-746) (POLG_HCV77)); HCV NS5a (hepatitis C virus NS5a; isolate H—Genomic RNA translation: AAA45534.1; UniProtKB—P27958 (POLG_HCV77)); HPV E6 (Human papillomavirus E6; NP_041325.1; Accession Number—NCBI Reference Sequence: NC_001526.4; UniProtKB—P03126 (VE6_HPV16)); HSV ICP34.5 (Herpes simplex virus ICP34.5; YP_009137073.1; Accession Number—NCBI Reference Sequence: NC_001806.2; UniProtKB—P36313 (ICP34_HHV11)); KSHV ORF52 (Kaposi's sarcoma-associated herpesvirus ORF52; Accession Number—Genomic DNA Translation: ACY00451.1; UniProtKB—F5HBL8 (F5HBL8_HHV8)); MERS ORF8b (Middle East Respiratory Syndrome virus ORF8b; Accession Number—Genomic RNA Translation ANF29170.1; UniProtKB—A0A1W5LGP6 (A0A1W5LGP6_MERS)); VACV C6 Vaccinia C6 (vaccinia virus C6; Accession Number—Genomic DNA Translation: AAA69602.1; UniProtKB—P17362 (C6_VACCW)); VACV K3L (vaccinia virus K3L; Accession Number—Genomic DNA Translation: AAA48009.1; UniProtKB—P20639 (K3 VACCC)); PIV 5 V (Parainfluenza virus 5 V; ENA protein ID: AAA47882.1; GenBank Accession Number J03142.1; UniProtKB—P11207; V_PIV5)); SARS ORF3b*57 variant (Severe acute respiratory syndrome coronavirus 2 (2019-nCoV) (SARS-CoV-2) ORF3b protein-mutated stop codon at AA 23; Genomic RNA Translation QTT40181.1; UniProtKB—PoDTF1 (ORF3B_SARS2)); SARS ORF3b*79 variant (Severe acute respiratory syndrome coronavirus 2 (2019-nCoV) (SARS-CoV-2) ORF3b protein-mutated stop codons at AA 23 and AA 57; Genomic RNA Translation QTT40181.1; UniProtKB—PoDTF1 (ORF3B_SARS2)); SARS ORF3b*57 Ecuador variant (Severe acute respiratory syndrome coronavirus 2 (2019-nCoV) (SARS-CoV-2) ORF3b protein-mutated stop codon at AA 23; Ecuador mutation at AA 24 (L24M); Genomic RNA Translation QTT40181.1; UniProtKB—PoDTF1 (ORF3B_SARS2)); Pangolin ORF3b *57 (Pangolin Coronavirus—Genomic RNA Translation: QIG55946.1; ORF3b protein-mutated stop codon at AA 23; UniProtKB—A0A6M3G7Q4 (A0A6M3G7Q4_9BETC)); Pangolin ORF3b *79 (Pangolin Coronavirus—Genomic RNA Translation: QIG55946.1; ORF3b protein-mutated stop codons at AA 23 and AA 57; UniProtKB—A0A6M3G7Q4 (A0A6M3G7Q4_9BETC)); MERS ORF4a (Middle East respiratory syndrome-related coronavirus (MERS-CoV) NS4A protein—Genomic RNA Translation: AGV08457.1; UniProtKB: T2BBG6 (T2BBG6_MERS)); BVDV nPro (Bovine viral diarrhea virus (BVDV) (Mucosal disease virus) N-terminal protease (aa 1-168)—Genomic RNA Translation: AAA42854.1; UniProtKB: P19711 (POLG_BVDVN)); HSV US1 (Human herpesvirus 2 (strain HG52) (HHV-2) (Human herpes simplex virus 2) E3 ubiquitin ligase ICP22 US1—Genomic DNA Translation: CAB06708.1; UniProtKB: P89474 (ICP22_HHV2H)); MERS CoV M (Middle East respiratory syndrome-related coronavirus (MERS-CoV) Membrane protein (M)-Genomic RNA Translation: AGV08396.1; UniProtKB: T2BB40 (T2BB40_MERS)).
Cloning of Plasmids Containing IIPs for RNA Transcription
IIP were inserted into a base plasmid using restriction digestion followed by Gibson assembly with a nucleotide base overlap region and included a F-T2A sequence to allow for a single transcript expression of the n-Luc followed by an IIP. The base plasmid consisted of an mRNA encoding a luminous shrimp nanoluciferase (n-Luc) expression cassette with a T7 promoter, an alpha-globin 5′ UTR and a beta-globin 3′ UTR. Briefly, the n-Luc plasmid construct was linearized with restriction enzymes for 2 h at 37° C. and then used in a NEB Builder HiFi DNA assembly reaction essentially as described in the NEB Builder HiFi assembly protocol (New England BioLabs, UK). After incubation at 50° C. for 30 min, 2 uL of the assembly reaction was used to transform NEB 10-alpha bacteria as per protocol and the transformants plated onto LB agar plates and incubated overnight for colony growth. Colonies were selected and expanded overnight, the recombinant plasmid purified from the bacteria using Qiagen plasmid miniprep kit (Qiagen, UK) and purified clonal plasmids were analysed initially using a diagnostic restriction enzyme digest and those which exhibited the correct digestion pattern were fully sequenced to confirm nucleotide identity (Eurofins, Germany).
Plasmids that had IIP followed by the n-Luc in the F-T2A or DSG form as well as constructs that utilized the ECMV IRES internal ribosomal entry sequence (which initiates protein translation from the IRES element at a site internal to a messenger RNA transcript; Bochkov and Palmenburg, Biotechniques 41(3):283-4, 2006) for both the saRNA replicons and the plasmids used for mRNA transcription were generated by VectorBuilder (VectorBuilder, Germany) using standard molecular techniques.
In Vitro Transcription of saRNA
Plasmid DNA (pDNA) was transformed into Escherichia coli (E. coli) (New England BioLabs, UK) and cultured in 100 mL of Luria Broth (LB) with 100 μg/mL of carbenicillin (Sigma Aldrich, UK). pDNA was isolated using a Plasmid Plus MaxiPrep kit (QIAGEN, UK) and the final concentration measured on a NanoDrop One (ThermoFisher, UK). saRNA was transcribed from the pDNA template using CleanCap Reagent AG (Tebu-bio, France) to produce an RNA transcript with a naturally occurring Cap 1 structure. Briefly, the pDNA template was linearized for 3 h at 37° C., then 1 μg of the linearized pDNA template used in the standard CleanCap Transcription protocol (Tebu-bio, France) according to the manufacturer's protocol. Transcripts were purified by LiCl precipitation at −20° C. for at least 30 min, centrifuged at 20,000 g for 20 min at 4° C. to pellet the RNA, rinsed once with 70% EtOH, centrifuged again at 20,000 g for 5 min at 4° C. and resuspended in UltraPure H2O (Ambion, UK) and stored at −80° C. until further use.
In Vitro Transcription of RNA
pDNA was transformed into E. coli (New England BioLabs, UK), cultured in 100 mL of Luria Broth (LB) with 100 μg/mL of carbenicillin (Sigma Aldrich, UK). Plasmid was purified using a Plasmid Plus MaxiPrep kit (QIAGEN, UK) and the concentration and purity measured on a NanoDrop One (ThermoFisher, UK). RNA was transcribed from the plasmid DNA template using the MEGAscript™ T7 Transcription protocol (ThermoFisher, UK) followed by a ScriptCap™ m7G Capping System post translation (Cambio, UK). Briefly, pDNA was linearized for 3 h at 37° C., and 1 μg of the linearized pDNA template used in the standard reaction protocol. After the MEGAscript™ T7 Transcription the transcripts were purified by LiCl precipitation at −20° C. for at least 30 min, then centrifuged at 20,000 g for 20 min at 4° C. to pellet the RNA, rinsed once with 70% EtOH, centrifuged again at 20,000 g for 5 min at 4° C. and resuspended in UltraPure H2O (Ambion, UK). The transcripts were then post-transcriptionally capped using the ScriptCap™ m7G Capping System standard protocol and finally LiCl precipitated as described above. Purified and Cap 1 capped RNA was then resuspended in UltraPure H2O (Ambion, UK) and stored at −80° C. until further use.
Measurement of IIP Activity
In order to establish the ability of saRNA containing viral IIP to increase saRNA f-luc expression relative to saRNA without IIP; the ability of mRNA containing IIP to increase mRNA n-luc expression relative to mRNA without IIP and the ability of mRNA containing IIP to increase f-luc expression from saRNA without IIP, constructs were tested in interferon competent HeLa cells and expression compared to that obtained in HEK293T/17 cells which do not have a functional antiviral signalling pathway. Both cell lines were cultured in high glucose Dulbecco's Modified Eagle's Medium (cDMEM) (Sigma-Aldrich, Merck, UK) containing 10% (v/v) fetal bovine serum (FBS), 5 mg/mL L-glutamine (Gibco, ThermoFisher, UK) and 5 mg/mL penicillin/streptomycin (Sigma-Aldrich, Merck, UK).
Assessment of IIP on saRNA Firefly Luciferase (f-Luc) Expression
HEK293T/17 cells were plated at a density of 25000 cells per well and HeLa cells at a density of 10000 cells per well into flat clear bottom 96-well plates (Corning Costar) and incubated for 24 hr. 10 uL of OptiMEM (ThermoFisher, UK) containing 0.15 μL lipofectamine MessengerMAX (ThermoFisher, UK) and 100 ng of saRNA IIP constructs or saRNA control (no IIP) was added to triplicate wells and after a further 24 hr, plates were centrifuged at 630 g for 5 min at room temperature, 50 μL of medium removed from each well and 50 μL of ONE-Glo™ Ex Reagent D-luciferin reagent (Promega, UK) added and mixed by pipetting. The total volume from each well was then transferred to a flat bottom opaque white 96-well plate (Corning Costar) and fluorescence measured on a FLUOstar OMEGA plate reader within 10 min (BMG LABTECH, UK). Background fluorescence from control wells containing no saRNA was subtracted from the signal for each well containing saRNA. Then the signal obtained for saRNA containing IIP in HeLa cells was expressed as a fold change from signal obtained with control saRNA and to that obtained in HEK293T/17 cells.
Assessment of IIP on saRNA VEGF-A Expression
HEK293T/17 or Hela cells were transfected with 100 ng saRNA containing the VEGF-A gene using the same methods as described for testing of constructs expressing f-Luc. After 48 hr the VEGF-A in the cell culture media was measured using a human VEGF-A ELISA kit (Invitrogen, UK). Briefly, assay plate wells were washed twice with 400 uL wash buffer before addition of test samples or VEGF-A standard (15.6 μg/ml to 1000 μg/ml). Plates were then incubated at room temperature for 2 hr in a microplate shaker (300 rpm; Jencons Scientific Ltd, UK) before washing six times with 400 uL wash buffer 100 uL of Biotin-conjugate detection antibody (1:100 dilution) was added to each well and plates incubated in a microplate shaker (1 hr RT, 300 rpm). After six washes with 400 uL of wash buffer, the streptavidin-HRP (1:100 dilution) second layer conjugate (100 uL) was added and after a further 1 hr incubation and six further washes, 100 uL of TMB substrate was added to each well. After incubation in the dark for 30 min at RT in the dark, 100 uL of the Stop solution was added and the absorbance of each well read at 450 nm in a VersaMax microplate spectrophotometer (Molecular Devices, UK). VEGF-A levels in the samples were determined by interpolation to the standard curve.
Assessment of IIP on RNA Nano-Luciferase (n-Luc) Expression
HEK293T/17 cells were plated at a density of 25000 cells per well and HeLa cells at a density of 10000 cells per well into flat clear bottom 96-well plates (Corning Costar) and incubated for 24 hr. 10 uL of OptiMEM (ThermoFisher, UK) containing 0.15 μL lipofectamine MessengerMAX (ThermoFisher, UK) and 100 ng of saRNA IIP constructs or saRNA control (no IIP) was added to triplicate wells and after a further 24 hr, plates were centrifuged at 630 g for 5 min at room temperature, 50 μL of medium removed from each well and 50 μL of NanoDLR™ Stop & Glo® Reagent (Promega, UK) added and mixed by pipetting. The total volume from each well was then transferred to a flat bottom opaque white 96-well plate (Corning Costar) and fluorescence measured on a FLUOstar® OMEGA plate reader within 10 min (BMG LABTECH, UK). Background fluorescence from control wells containing no RNA was subtracted from the signal for each well containing RNA. Then the signal obtained for RNA containing IIP in HeLa cells was expressed as a fold change from signal obtained with control RNA and to that obtained in HEK293T/17 cells.
Viral innate inhibitor proteins (IIPs) can be incorporated into an RNA construct of the invention, which can be a self-amplifying RNA (saRNA) or messenger RNA (mRNA), in order to reduce or ablate the innate recognition and response that may modify or reduce protein expression and translation, i.e. the protein encoded by a Gene of Interest (GOI), which can be any therapeutic biomolecule.
Various embodiments of design configurations for the RNA construct of the invention are shown in
saRNA Constructs (Left Hand of
Any IIP can be encoded within the saRNA using the following design approaches:
mRNA Constructs (Right Hand of
Referring to
The inventors have tested a large number of viral IIPs in the various embodiments of RNA constructs illustrated in
Inhibitor Protein (IIP) The inventors designed, constructed and then tested a series of diverse viral IIPs in different replicon configurations on expression of the reporter gene, f-Luc or VEGF-A, and the results of the expression studies are shown in
Referring to
Referring to
Referring to
Referring to
Referring to
Referring to
The inventors designed, constructed and then tested a series of diverse viral IIPs, and the results of the expression studies are shown in
Referring to
The inventors believe that the constructs described herein display many advantages over those described in the prior art, including:
Numbered Paragraphs
The following paragraphs form part of the description and not the claims
| Number | Date | Country | Kind |
|---|---|---|---|
| 2020061.4 | Dec 2020 | GB | national |
| Filing Document | Filing Date | Country | Kind |
|---|---|---|---|
| PCT/GB2021/053362 | 12/17/2021 | WO |