Patent Application
20220295765
The state of the art provides methods for producing antibodies in vitro (eg, using phage, ribosome or yeast display) or in vivo (eg, using non-human vertebrates (eg, mice and rats) and cells comprising transgenic immunoglobulin loci). Such in vivo systems (eg, Xenomouse™) have used completely human transgenic heavy chain loci which comprise human variable regions (human VH, D and JH gene segments) upstream of human constant regions (eg, human mu upstream of human gamma constant gene segments). Subsequently, it has been discovered that the use of totally human transgenic loci in such in vivo systems is detrimental and B-cell development is hampered, leading to relatively small B-cell compartments and restricted utility for generating antibodies. Later-generation transgenic animals (eg, the Velocimouse™) have been created which have chimaeric heavy chain loci in which a human variable region is upstream of endogenous (eg, mouse or rat) constant regions (ie, mouse mu constant region upstream of gamma constant region, in germline configuration). This enables the harnessing of endogenous control mechanisms for B-cell and antibody development, and as such the extent of problems of totally human transgenic loci are not seen. Methods of constructing transgenic vertebrates and use of these to generate antibodies and nucleic acids thereof following antigen immunisation are known in the art, eg, see U.S. Pat. No. 7,501,552 (Medarex); U.S. Pat. No. 5,939,598 & U.S. Pat. No. 6,130,364 (Abgenix); WO02066630, WO2011163311 & WO2011163314 (Regeneron); WO2011004192 & WO2011158009 (Kymab Limited); WO2009076464, WO2009143472, EP1414858, WO2009013620A2, WO2010070263A1 & WO2010109165A2 (Harbour Antibodies); EP1399559 (Crescendo Biologics) and WO2010039900 (Ablexis), the disclosures of which are explicitly incorporated herein including, but not limited to, for the purpose of providing the skilled person with guidance of how to make non-human animals bearing transgenic immunoglobulin loci and to inactivate endogenous loci expression. US2008/0196112A1 (Innate Pharma) discloses transgenic animals comprising a single, predetermined human rearranged VDJ from a lead antibody, together with one or more human constant region genes in a locus. There are no repertoires of unrearranged V, D and J and recombination and junctional diversity to produce a repertoire of VH domains and H chains and antibodies is not addressed.
Whether selected and produced in vitro or in vivo, the art has recognised that the human therapeutic utility of chimaeric antibodies is hampered by their non-human constant domains, despite having human variable domains. This is due to the immunogenicity of the non-human portions once the antibodies have been administered to human patients. The solution in the art to this issue has been to humanise chimaeric antibodies in vitro using protein engineering whereby the non-human constant domains are replaced with corresponding human constant domains. While addressing the immunogenicity issue, however, such engineering in vitro can downgrade the desirable characteristics of the resultant antibody. For example, antigen-binding affinity, antigen specificity, expressibility (eg, in cell lines such as CHO or HEK293 cells), half-life and/or biophysical characteristics (eg, melting temperature, solution state, resistance to aggregation etc) can be downgraded, thereby hampering development of the antibody as drugs for human therapeutic or prophylactic use. It would be desirable to have means for selecting and humanising antibodies that addresses these shortcomings in the art as well as providing repertoires of such humanised antibodies or heavy chains from which drug candidates can be selected.
The present invention provides a solution by providing for the recombination, humanisation and selection of antibodies entirely in vivo by harnessing the control mechanisms of non-human vertebrate systems. To this end, the invention provides non-human vertebrates, cells, populations and methods useful for humanising chimaeric antibodies to produce fully human antibodies that have undergone variable region gene segment recombination, junctional mutation, somatic hypermutation and isotype switching in vivo and that are selected by an in vivo system. Using the present invention it is possible straightforwardly and rapidly to obtain antigen-specific antibodies that are fully human (ie, comprising human variable and constant regions) and have undergone recombination, affinity maturation in vivo. Furthermore, such antibodies are humanised—and selected—totally in vivo, and as such the present invention harnesses in vivo filtering for expressibility (and affinity and biophysical characteristics factors) in the context of the desired human variable and constant region pairings. This is avoids problems of down-grading antibody characteristics when humanising the constant region of chimaeric antibodies in vitro.
Importantly, the present invention does this in a way that harnesses endogenous control of B-cell development and antibody production and selection. The invention achieves this by ensuring that these functions are carried out in situ in a non-human vertebrate system in an endogenous IgH locus where heavy chain development and selection passes through an IgM stage that is matched with the non-human vertebrate system. Thus, the invention adapts an endogenous IgH locus by targeted insertion of unrearranged human variable region gene segments therein in functional relationship upstream of an endogenous mu constant region (ie, the endogenous Cmu or an inserted exogenous Cmu of the same species of non-human vertebrate). Thus, endogenous control of recombination and IgM heavy chain development and selection can be harnessed to provide a useful pool of properly developed B-cells expressing chimaeric human V/endogenous Cmu heavy chains. Provision of such a good repertoire of cell-surface expressed IgM heavy chains is advantageous since it provides the non-human system with a useful and diverse repertoire from which to select and clonally mature B-cells for subsequent isotype switching to a human non-mu constant region. Thus, a useful repertoire of human non-mu (eg, gamma) heavy chains is provided that have undergone rigorous selection by the endogenous non-human system in vivo for antigen binding and expressibility. The skilled person is thus able to select and isolate one or more desired heavy chains (or antibodies comprising a heavy chain) that are specific to a target antigen, knowing that these have been selected in a totally human format for compatibility with in vivo systems. Thus, one or more biophysical characteristics (eg, melting temperature, low aggregatability, expressibility etc as will be known by the skilled person) have already been usefully tuned, thereby making the selected heavy chain or antibody useful for human drug production.
Thus, the invention provides:—
A non-human vertebrate (eg, a rodent, a mouse, a rat or a rabbit) or a non-human vertebrate cell (eg, a rodent cell, a mouse cell, a rat cell or rabbit cell) whose genome comprises a gene locus for expression of antibody heavy chains, the locus comprising
(a) an unrearranged human variable region comprising human variable region gene segments for expression of a repertoire of human variable domains;
(b) an endogenous mu constant region for expression of IgM antibody heavy chains comprising endogenous mu heavy chain constant domains and human variable domains; and
(c) a humanised non-mu constant region downstream of the mu constant region for expression of non-mu antibody heavy chains comprising human non-mu constant domains and human variable domains;
Wherein the unrearranged variable region is provided as a targeted insertion of the human variable region gene segments upstream of the endogenous mu constant region in an endogenous IgH locus such that the variable region gene segments are able to recombine for expression and selection in the context of an endogenous mu constant region.
In alternative embodiments of any configuration or aspect of the invention, the mu constant region is not endogenous, but is of a different non-human vertebrate species (ie, different to the species of vertebrate or cell). For example, the vertebrate or cell is a mouse and the mu constant region is a non-mouse rodent (eg, rat) mu constant region. For example, the vertebrate or cell is a rat and the mu constant region is a non-rat rodent (eg, mouse) mu constant region. By selecting related species, for example, it is possible still for the endogenous control to function in the context of the mu constant region. Thus, in these embodiments, the vertebrate or cell is of a first non-human vertebrate species and the mu constant region is of a second (ie, different) non-human vertebrate species.
In embodiments of any configuration or aspect of the invention, the mu constant region is of the same non-human species as the vertebrate or cell, but is of a different strain (eg, different mouse or rat strain where the vertebrate is a mouse or rat, or the cell is a mouse or rat cell).
The invention also provides embodiments wherein the IgH locus is provide not by targeted insertion, but by insertion of a transgene and random integration into the genome or integration in a location that is not the endogenous wild-type IgH locus. For example, an IgH locus comprising human variable region and human non-mu constant region can be provided in a yeast artificial chromosome (YAC), PAC or other vector known in the art for accommodating large inserts. The vector can be introduced into an ES cell (eg, mouse or rat ES cell) and the IgH locus can integrate into the genome of the cell.
In embodiments of any configuration or aspect of the invention the humanised non-mu constant region is totally human (ie, comprises only human constant domain genes).
Thus, the invention provides:—
A non-human vertebrate (eg, a rodent, a mouse, a rat or a rabbit) or a non-human vertebrate cell (eg, a rodent cell, a mouse cell, a rat cell or rabbit cell) whose genome comprises a gene locus for expression of antibody heavy chains, the locus comprising
(a) an unrearranged human variable region comprising human variable region gene segments for expression of a repertoire of human variable domains;
(b) an endogenous mu constant region for expression of IgM antibody heavy chains comprising endogenous mu heavy chain constant domains and human variable domains; and
(c) a humanised non-mu constant region downstream of the mu constant region for expression of non-mu antibody heavy chains comprising human non-mu constant domains and human variable domains;
Wherein the unrearranged variable region is provided upstream of the endogenous mu constant region in the locus such that the variable region gene segments are able to recombine for expression and selection in the context of an endogenous mu constant region.
The invention also provides:—
A non-human vertebrate (eg, a mouse or a rat) or a non-human vertebrate cell (eg, a mouse cell or a rat cell) whose genome comprises a gene locus for expression of antibody heavy chains, the locus comprising
(a) a human variable region comprising human variable region gene segments for expression of human variable domains;
(b) an endogenous mu constant region for expression of IgM antibody heavy chains comprising endogenous mu heavy chain constant domains and human variable domains; and
(c) a humanised non-mu constant region downstream of the mu constant region for expression of non-mu antibody heavy chains comprising human non-mu constant domains and human variable domains.
Also the invention provides a non-human vertebrate (eg, a mouse or a rat) or a non-human vertebrate cell whose genome comprises an antibody heavy chain locus comprising (in 5′ to 3′ direction) a variable region, a first switch, an endogenous mu constant region, a second switch and a human non-mu (eg, gamma) constant region; wherein the heavy chain locus of each cell is capable of undergoing switching from IgM to the non-mu (eg, IgG) isotype.
By retaining an endogenous IgM stage, the invention retains the ability to harness the endogenous antibody and B-cell development control mechanisms of the non-human vertebrate or cell. This includes the ability to harness endogenous terminal deoxynucleotidyl transferase (TdT) activity and junctional mutation as well as proper B-cell development (including at early stages of development when IgM is expressed) to yield good size B-cell compartments and good size and quality repertoires of recombined VDJ diversity from which to subsequently select and mature isotype-switched heavy chains produced from the gene locus of the invention. Furthermore, this entails switching to a human constant region in resulting antibodies, which is beneficial for producing drugs for human therapeutic use. Thus, for example, a vertebrate of the invention can be immunised with a predetermined therapeutic target antigen (eg, a human, viral or bacterial antigen) and antibodies (eg, human IgG) or heavy chains (eg, human gamma-type heavy chains) can be isolated that (i) have undergone junctional and somatic mutation, and thus affinity maturation in vivo in response to antigen challenge, (ii) are fully human, ie, have human variable and constant domains, and (iii) have been selected by a totally in vivo system for expression and ability to bind antigen. Thus, the invention employs in vivo systems to direct the skilled person to viable human antibodies and heavy chains that can be expressed well in vivo and which are specific for a predetermined antigen. The method is simple and avoids multi-step combinations of in vivo and in vitro production and engineering as per the prior art methods.
Moreover, having undergone affinity maturation in the vertebrate or cell, the selected antibodies have had their antigen binding affinities tuned by nature—rather than by man. Thus, vertebrates and cells of the invention provide good sources for fully human antigen-specific antibodies and heavy chains with therapeutically-amenable affinities without the need to perform laborious in vitro affinity maturation (or risk downgrading desirable characteristics due to in vitro manipulation).
Additionally, the present invention enables the skilled person to design vertebrates and cells to produce fully human antibodies of a specific, desired isotype in a predictable way. For example, the skilled person is able to design the heavy chain loci in a vertebrate of the invention so that all gamma constant region gene segments are human ones. In this way, the skilled person will know that all IgG-type antibodies or heavy chains selected from the vertebrate will be fully human in their H chains and will have been subjected to endogenous antibody development (eg, affinity maturation) and in vivo expression and selection. Going a step further, the skilled person could design a vertebrate in which just the IgG1 isotype gene segments are human. Thus, the skilled person will know from the outset that all IgG1 isotype antibodies will be fully human and matured, expressed and selected in vivo. This is useful for tailoring antibody sub-types, such as IgG1 or IgG4, to particular human therapeutic indications, as explained further below.
Thus, in an embodiment, the gene locus of the invention comprises only human constant regions, with the exception of the endogenous mu constant region. This is useful for producing isotype-switched heavy chains in which the constant regions are predictably always human.
In an embodiment, the gene locus of the invention comprises only human constant region gene segments, with the exception of the constant region gene segments of the endogenous mu constant region. Thus, usefully, the skilled person will reliably know at the outset that all switched heavy chains and antibodies will bear human heavy chain constant domains.
In an embodiment, the gene locus of the invention comprises gamma constant region gene segments and all of the gamma constant region gene segments are human. This is useful for producing isotype-switched gamma heavy chains in which the constant regions are predictably always human.
In an embodiment, the gene locus of the invention comprises gamma constant region gene segments and all of the delta constant region gene segments are human. This is useful for producing isotype-switched delta heavy chains in which the constant regions are predictably always human.
In an embodiment, the gene locus of the invention comprises epsilon constant region gene segments and all of the delta constant region gene segments are human. This is useful for producing isotype-switched epsilon heavy chains in which the constant regions are predictably always human.
In an embodiment, the gene locus of the invention comprises alpha constant region gene segments and all of the delta constant region gene segments are human. This is useful for producing isotype-switched alpha heavy chains in which the constant regions are predictably always human.
The invention also enables the skilled person to tailor other characteristics of antibody constant regions to particular therapeutic or prophylactic uses. For example, one can include variant human non-mu constant region gene segments in the heavy chain locus. Thus, in one embodiment, the variants may encode mutant human Fc regions that are either activated (eg, for cell-killing applications such as oncology or treatment of inflammatory conditions) or inactivated (eg, when activation due to cross-linking of cell-surface antigens by antibody is undesirable, eg, as seen when the target antigen is CD40 or CD40 ligand).
In another configuration, the application recognises the desirability of exploring repertoires of variant human constant domains of antibodies when paired and selected with human variable domains in vivo. Such variants are seen in different populations of humans (eg, encoded by different variants of gamma constant region gene segments as seen in different ethnic human populations). Similarly, this concept can be applied to synthetic variants of human constant domains and corresponding human constant region gene segments (eg, variants that have been mutated in different ways to inactivate Fc, or to activate Fc). To this end, the invention provides:—
A population of vertebrates of the invention, wherein the population comprises
(i) a first vertebrate wherein the antibody heavy chain locus comprises one or more first human non-mu gene segment(s) (eg, a human CH1, CH2 or CH3; or an Fc);
(ii) and a second vertebrate the antibody heavy chain locus comprises one or more second human non-mu gene segment(s) (eg, a human CH1, CH2 or CH3; or encoding an Fc); and
wherein the first and second gene segments are the same type of constant region gene segment(s) (eg, both CH1 gene segments or both encoding an Fc) and the second gene segment(s) is a variant of the first gene segment(s).
In an embodiment, the immunoglobulin loci of the vertebrates of the population differ only in the repertoire of said human constant regions or constant region gene segments.
The invention also provides a method of isolating a human antibody, the method comprising immunising a vertebrate or population of vertebrates according to any preceding claim with an antigen and isolating an antibody from said vertebrate or a vertebrate of the population, wherein the isolated antibody specifically binds to the antigen and comprises a fully human heavy chain of said non-mu isotype.
The invention also provides:—
A method of obtaining a humanised and affinity matured antigen-specific antibody heavy chain, the method comprising humanising the heavy chain in vivo in a non-human vertebrate (eg, a mouse or a rat) comprising functional RAG and activation induced cytidine deaminase (AID) by immunising the vertebrate with the antigen and obtaining recombination of VH,D and JH gene segments in vivo, somatic hypermutation and isotype switching in a B-cell of the vertebrate from an endogenous mu isotype to a human non-mu isotype, wherein a repertoire of affinity matured antigen-specific non-mu antibody heavy chains are produced and expressed by the vertebrate, the non-mu constant domains of the heavy chains being human constant domains, the method further comprising isolating one or more of said humanised heavy chains.
By using a non-human vertebrate ES cell (eg, an ES cell disclosed herein) the skilled person will be able to provide for the provision of functional RAG and AID. These will be matched with the endogenous mu for good harnessing of the endogenous control mechanisms.
A method of obtaining a humanised and affinity matured antigen-specific antibody heavy chain, the method comprising humanising the heavy chain in vivo in a non-human vertebrate (eg, a mouse or a rat) comprising a functional activation induced cytidine deaminase (AID) by immunising the vertebrate with the antigen and obtaining somatic hypermutation and isotype switching in a B-cell of the vertebrate from an endogenous mu isotype to a human non-mu isotype, wherein an affinity matured antigen-specific antibody heavy chain is produced and expressed by the vertebrate, the non-mu constant domains of the heavy chain being human constant domains, the method further comprising isolating said humanised heavy chain.
The invention also provides a pharmaceutical composition comprising the isolated antibody heavy chain obtained in the method of the invention or a copy or derivative thereof; optionally wherein the heavy chain, copy or derivative is provided by an antibody that specifically binds the antigen.
The invention also provides a method of treating or preventing a medical condition or disease in a human associated or caused by said antigen, the method comprising administering to the human the antigen-specific antibody or heavy chain obtained in the method described above.
The invention also provides the antigen-specific antibody or heavy chain obtained in the method of the invention for use in the treatment or prophylaxis of a medical condition or disease in a human associated or caused by said antigen.
The invention also provides the use of the antigen-specific antibody or heavy chain obtained in the method of the invention in the manufacture of a medicament for use in the treatment or prophylaxis of a medical condition or disease in a human associated or caused by said antigen.
The present invention relates to humanisation of antibodies in vivo. To this end, the invention provides non-human vertebrates, cells, populations and methods useful for humanising chimaeric antibodies in vivo. Using the present invention it is possible straightforwardly and rapidly to obtain antigen-specific antibodies that are fully human (ie, comprising human variable and constant regions) and have undergone affinity maturation in vivo. Furthermore, such antibodies are humanised—and selected—totally in vivo, and as such the present invention harnesses in vivo filtering for expressibility (and factors in affinity and biophysical characteristics) in the context of the desired human variable and constant region pairings. This is avoids problems of down-grading antibody characteristics when humanising the constant region of chimaeric antibodies in vitro.
To this end, the invention provides a non-human vertebrate (eg, a mouse or a rat) or a non-human vertebrate cell (eg, a mouse cell or a rat cell) whose genome comprises a gene locus for expression of antibody heavy chains, the locus comprising
(a) a human variable region comprising human variable region gene segments for expression of human variable domains;
(b) an endogenous mu constant region for expression of IgM antibody heavy chains comprising endogenous mu heavy chain constant domains and human variable domains; and
(c) a humanised non-mu constant region downstream of the mu constant region for expression of non-mu antibody heavy chains (eg, following immunisation of the vertebrate with target antigen) comprising human non-mu constant domains and human variable domains.
The locus is, in the preferred embodiment, a heavy chain locus of the genome, ie, it is in the germline location of a heavy chain locus of said type of vertebrate or cell. In this example, therefore, the humanised locus of the invention can be constructed by inserting human constant region DNA into the endogenous (ie, non-human vertebrate) heavy chain locus downstream of the endogenous mu constant region. In another embodiment, the locus of the invention is synthetically constructed elsewhere in the genome (ie, not in the endogenous heavy chain locus location) and may be on a different chromosome to that chromosome harbouring the heavy chain locus in a wild-type vertebrate or cell. For example, the locus of the invention is constructed at the Rosa26 locus.
The gene locus of the invention comprises all of the elements required for expression of heavy chains and isotype switching in the vertebrate or cell, such a human variable region comprising a plurality of of VH gene segments, a plurality of D gene segments and a plurality of JH gene segments upstream of (ie, 5′ of) a S-mu switch (eg, the endogenous S-mu), an endogenous mu constant region comprising endogenous mu constant gene segments (eg, CH1, CH2 and CH3), a second switch (eg, an endogenous switch; eg, a gamma switch) and a (ie, one or more) human non-mu constant region. For example, the human non-mu constant region is a gamma-1 constant region comprising from CH2 to (and including) the poly-A 3′ of M2 as shown in
Thus, the following examples of inserted DNA comprising one or more human non-mu constant regions are contemplated:—
Human Gamma Constant Regions
Human Delta Constant Regions
Human Alpha Constant Regions
The alpha constant region is, in one example, a human alpha-1 constant region. In another example the constant region is a human alpha-2 constant region.
Human Epsilon Constant Regions
Stretches of human DNA can be inserted in one piece or in serial insertions into the genome of a non-human vertebrate or cell (eg, ES cell) genome. For example, a plurality of bacterial artificial chromosomes (BACs) can be constructed using standard recombineering techniques which between them comprise the entire sequence of human constant region DNA to be inserted, each BAC containing a portion of that stretch of DNA. By using serial insertions from serial BACs (eg, using standard homologous recombination (eg, see the Regeneron and Ablexis PCTs disclosed herein) or serial recombinase mediated cassette exchange—sRMCE—(eg, see the Kymab Limited PCTs disclosed herein) the skilled person can build up the one or more human constant regions downstream of the endogenous mu constant region in the genome. When an ES cell is manipulated in this way, the ES cell can be used, as is standard, to implant in a donor blastocyst, which is then implanted into a foster mother. With germline transmission and any necessary subsequent breeding and crossing (again as is conventional), the skilled person can arrive at progeny vertebrates and cells bearing the gene locus of the invention in which one or a plurality of human non-mu constant regions are downstream of an endogenous mu constant region. The gene locus may be present in a homozygous state (eg, a gene locus of the invention at each heavy chain allele) or heterozygous state (eg, with the second allele being an inactivated endogenous heavy chain so that only heavy chain expression from the first allele—bearing the gene locus of the invention—provides expression of heavy chains). In an alternative, different gene loci of the invention are provided at the first and second alleles of the heavy chain locus in the genome, so that different combinations of human isotype switched heavy chains can be expressed by the combination of loci.
In an embodiment, the genome also comprises transgenic light chain loci that express human light chains (or in the alternative at least human light chain variable regions) and endogenous light chain expression is substantially inactive; also endogenous heavy chain expression is substantially inactive. This embodiment advantageously provides a genome for predictable expression of only fully human antibodies (or at least fully human heavy chains and fully human light chain variable regions in the alternative) and no endogenous antibody chains, from which pool of antibodies the skilled person can select (eg, after immunisation with target antigen) non-mu type antibodies (eg, gamma type) that have undergone mutation and maturation and selection by the in vivo machinery of the vertebrate or cell.
It is particularly beneficial to use embodiments in which one or more human gamma constant regions are inserted, since gamma-type antibodies are frequently used in humans in immune responses in disease settings and are thus frequently used as drugs for human medicine. Human gamma-1 isotype is particularly useful for this reason, and many human therapeutic antibody drugs have gamma-1 isotype constant domains accordingly.
As discussed further in WO2011066501, human IgG sub-types IgG1, IgG2, gG3 and IgG4 exhibit differential capacity to recruit immune functions, such as antibody-dependent cellular cytotoxicity (ADCC, e.g., IgG1 and IgG3), antibody-dependent cellular phagocytosis (ADCP, e.g., IgG1, IgG2, IgG3 and IgG4), and complement dependent cytotoxicity (CDC, e.g., IgG1, IgG3). Sub-type-specific engagement of such immune functions is based on selectivity for Fc receptors on distinct immune cells and the ability to bind C1q and activate the assembly of a membrane attack complex (MAC). Among the various types, relative affinity for Fcγ receptors (e.g., FcγRI, FcγRIIa/b/c, FcγRIIIa/b) is high for IgG1 and IgG3, however, there is minimal affinity for IgG2 (restricted to the FcγRIIa 131H polymorphism), and IgG4 only has measurable affinity for FcγRI. Using comparative sequence analysis and co-crystal structures, the key contact residues for receptor binding have been mapped to the amino acid residues spanning the lower hinge and CH2 region. Using standard protein engineering techniques, some success in enhancing or reducing the affinity of an antibody preparation for Fc receptors and the C1q component of complement has been achieved.
Among the isotypes, IgG2 is least capable of binding the family of Fc receptors. Using IgG2 as the starting point, efforts have been made to find a mutant with diminished effector functions but which retains FcRn binding, prolonged stability, and low immunogenicity. Improved mutants of this nature may provide improved antibody therapeutics with retained safety. Human IgG1 therapeutic antibodies that bind to cell surface targets are able to engage effector cells that may mediate cell lysis of the target cell by antibody-dependent cellular cytotoxicity (ADCC) or complement dependent cytotoxicity (CDC). These mechanisms occur through interaction of the CH2 region of the antibody Fc domain to FcγR receptors on immune effector cells or with C1q, the first component of the complement cascade. Table 1 shows the activities of different human gamma sub-types. The skilled person may choose accordingly to promote or dampen-down activity depending upon the disease setting in humans of interest. For example, use of an insertion comprising human gamma-1 constant region is desirable when one wishes to isolated totally human heavy chains and antibodies that have relatively high complement activation activity by the classical pathway and FcγR1 recognition in human patients.
See also Mol Immunol. 2003 December; 40(9):585-93; “Differential binding to human FcgammaRIIa and FcgammaRIIb receptors by human IgG wildtype and mutant antibodies”; Armour K L et al, which is incorporated herein by reference.
IgG2 constant regions are well suited to producing antibodies and heavy chains according to the invention for binding to cytokines or soluble targets in humans, since IgG2 is essentially FcγRI,III-silent, FcγRIIa-active and has little Complement activity.
IgG1 constant regions have wide utility for human therapeutics, since IgG1 antibodies and heavy chains are FcγRI,II,III-active and have complement activity. This can be enhanced by using a human gamma-1 constant region that has been activated by engineering as is known in the art.
Thus, in one embodiment of the vertebrate or cell of the invention the human non-mu constant region comprises CH2 or CH2 and CH3 gene segments encode for an activated Fc region. This is useful for, eg, treating or preventing inflammation or a inflammatory disease or condition. This embodiment is also useful where cell killing in the human patient is desirable, eg, for oncology applications.
In one embodiment of the vertebrate or cell of the invention the human non-mu constant region comprises CH2, or CH2 and CH3, gene segments encode for an inactivated Fc region. This is useful for, eg, applications where triggering following cross-linking is undesirable. This may be useful, for example where cross-linking of cell-surface antigens is to be avoided after administration of an antibody produced according to the invention (eg, where the target antigen against which the antibody or heavy chain is raised is a T-cell costimulatory antigen such as CD40 or CD40 ligand).
The choice of constant region and gene segments to include in the human constant region(s) may also take into account the desirability for good binding to human FcRn in the human patient, so that the heavy chain or antibody comprising this is efficiently recycled and a desirable drug half-life is achieved. For this purpose, gamma-type human constant regions are desirable, since IgG antibodies and heavy chains bind efficiently to human FcRn in vivo.
“Antibody-dependent cell-mediated cytotoxicity” or ADCC″ refers to a form of cytotoxicity in which secreted Ig bound onto Fc receptors (FcRs) present on certain cytotoxic cells (e.g., Natural Killer (NK) cells, neutrophils, and macrophages) that enables these cytotoxic effector cells to bind specifically to an antigen-bearing target cell and subsequently kill the target cell with cytotoxins. Ligand specific high-affinity IgG antibodies directed to the surface of target cells stimulate the cytotoxic cells and are required for such killing. Lysis of the target cell is extracellular, requires direct cell-to-cell contact, and does not involve complement.
The ability of any particular antibody to mediate lysis of the target cell by ADCC can be assayed. To assess ADCC activity, an antibody of interest is added to target cells displaying the target ligand in combination with immune effector cells, which may be activated by the antigen antibody complexes resulting in cytolysis of the target cell. Cytolysis is generally detected by the release of label (e.g., radioactive substrates, fluorescent dyes or natural intracellular proteins) from the lysed cells. Useful effector cells for such assays include peripheral blood mononuclear cells (PBMC) and Natural Killer (NK) cells. Specific examples of in vitro ADCC assays are described in Wisecarver et al, 1985, 19:21 1; Bruggemann et al, 1987, J Exp Med 166: 1351; Wilkinson et al, 2001, J Immunol Methods 258: 183; Patel et al, 1995 J Immunol Methods 184:29 (each of which is incorporated by reference). Alternatively, or additionally, ADCC activity of the antibody of interest may be assessed in vivo, e.g., in an animal model, such as that disclosed in Clynes et al, 1998, PNAS USA 95:652, the contents of which are incorporated by reference in its entirety.
“Complement-directed cytotoxicity” or CDC refers to the form of cytotoxicity in which the complement cascade is activated by the complement component C1q binding to antibody Fc.
The term “Fc” as used herein refer to the protein comprising (in N- to C-terminal direction) an immunoglobulin CH2 and CH3 domain. The CH2 and CH3 domains can form at least a part of the constant region of an antibody or heavy chain.
“Constant region” as used herein when referring to the gene locus of the invention, is a reference to a stretch of DNA sequence comprising gene segments (constant region gene segments) that combine in vivo with recombined VDJ sequence in the locus. The VDJ yield (optionally following hypermutation), together with the constant region gene segments RNA transcripts in the vertebrate or cell from which can be produced antibody heavy chains (eg, following splicing of RNA), each heavy chains comprising an variable domain and one or more constant domains. When “constant region” is used with reference to an antibody or antibody heavy chain, this is referring to the region C-terminal to the variable domain and comprising one or more constant domains.
“Endogenous” as used herein indicates that the constant region etc is a type of constant region etc that is normally found in the vertebrate or cell (as opposed to an exogenous constant region whose sequence is not normally found in such a vertebrate or cell, eg a human sequence). For example, the endogenous constant region can be those encoded by the wild-type genome of the non-human vertebrate or cell. So, in an example wherein the vertebrate is a mouse, the endogenous constant region would be a mouse constant region. Going further, the endogenous regions are, in an example, strain-matched to the vertebrate or cell. So, in one embodiment, the vertebrate or cell is a mouse 129 ES cell, the endogenous constant region would be mouse 129 constant region. In another embodiment, the vertebrate or cell is a JM8 strain mouse or mouse cell, the endogenous constant region would be mouse JM8 constant region. In another embodiment, the vertebrate or cell is a Black 6 mouse or mouse cell, the endogenous constant region would be mouse Black 6 constant region.
In an embodiment, the gene locus in the vertebrate or cell of the invention comprises (in 5′ to 3′ direction) one or more membrane-encoding exons (M) and a polyA downstream of the non-human human constant region gene segments, wherein the vertebrate is capable of expressing membrane-bound heavy chain or antibody of said non-mu isotype. Additionally or alternatively, the locus comprises a polyA immediately downstream of the last human constant region gene segment. The locus may further comprise a splice site between the latter polyA and the one or more membrane-encoding exons, wherein the vertebrate or cell is capable of expressing both membrane-bound and secreted forms of the non-mu heavy chain or antibody.
In order to obtain switching from the endogenous mu to human non-mu isotypes, the locus comprises a switch 5′ of the mu constant region (eg, the endogenous S-mu is retained) and a second switch 5′ of the (or each) human non-mu constant region. The second switch can be the human switch usually present with the human constant region (eg, when the human constant region is a gamma-1 constant region, the human gamma-1 switch is retained). Alternatively, the switch can be the corresponding endogenous non-human vertebrate switch, in this example an endogenous S-gamma (eg, S-gamma-1), eg, where a nucleotide sequence corresponding to human DNA from CH1 to the M2 or polyA 3′ of M2 of a human gamma constant region is inserted downstream of an endogenous S-gamma in the vertebrate or cell genome. Switch sequences are known in the art, for example, see Nikaido et al, Nature 292: 845-848 (1981) and also WO2011004192, U.S. Pat. Nos. 7,501,552, 6,673,986, 6,130,364, WO2009/076464 and U.S. Pat. No. 6,586,251, eg, SEQ ID NOs: 9-24 disclosed in U.S. Pat. No. 7,501,552. Commercial human and mouse BAC libraries (eg, the RPC-11 and Caltech A, B, C and D libraries) are sources of suitable immunoglobulin locus sequences, eg, sequences of switches or constant regions. Alternatively, human DNA samples can be obtained de novo from consenting donors (eg, using cheek swabs) and DNA sequences obtained from the samples.
In an embodiment, the vertebrate or cell of the invention comprises an antibody heavy chain locus that comprises (in 5′ to 3′ direction) a rearranged or unrearranged variable region, a first switch (eg, an S-mu switch, eg an endogenous S-mu), an endogenous mu constant region, a second switch (an S-gamma switch; eg, endogenous S-gamma) and a human constant region of said non-mu isotype; wherein the heavy chain locus is capable of undergoing switching from IgM to the non-mu isotype. Thus, for example, this can be provided by inserting one or more human non-mu constant region sequences downstream (3′) of an endogenous mu region in the genome of a non-human vertebrate or cell (eg, ES cell). In this way, the human sequences are provided within the location of the endogenous heavy chain locus and expression from the human sequence can be effectively controlled using endogenous antibody and B-cell mechanisms.
By accommodating VH, D and JH recombination and initial expression in the context of an endogenous IgM, heavy chain variable regions are produced and selected in context of non-human (eg, mouse) mu constant regions. This advantageously enables endogenous RAG-1 and RAG-2 to be efficiently employed in a completely endogenous context, as well as harnessing endogenous control, mutation and signalling involved in antibody and B-cell development. The invention subsequently enables switching to a human non-mu C region, which enables one to produce human constant domains in product heavy chains which have been affinity matured by somatic hypermutation effected by endogenous activation induced cytidine deaminase (AID). Those rearranged variable regions that still work well (eg, good expression, affinity, biophysical characteristics) in the context of the human C domains are selected in vivo by the mouse and amplified following immunisation with a predetermined antigen. This retains the advantage of harnessing endogenous antibody and B-cell production and control, together with affinity maturation and in vivo amplification of selected B-cells expressing desirable antibodies/heavy chains in a way that harnesses the mouse (or other non-vertebrate) system to select for good, fully-human antibodies and heavy chains. This is superior to the prior art method of humanising in vitro, where selection for good biophysical characteristics, expression, affinity etc is not factored in (thus often resulting in a down-grading of these in the prior art) and which adds multi-step procedures following initial production of a chimaeric antibody in vivo.
In one embodiment, the vertebrate or cell of the invention does not express endogenous antibody heavy chains of said non-mu isotype. For example, this is effected using standard methods to delete or inactivate endogenous heavy chain variable and constant regions. Thus, the skilled person will know that heavy chains (and antibodies comprising these) of the predetermined human non-mu isotype (eg, IgG antibodies) produced by the vertebrate or cell will always comprise human constant regions.
In one embodiment, in the vertebrate or cell of the invention the human non-mu constant region is a gamma constant region (eg, gamma-1, -2, 3 or -4). Instead of a gamma constant region, the constant region can be a delta, alpha (eg, alpha-1 or -2) or epsilon constant region. Thus, the invention allows the skilled person to tailor the genome of the vertebrate or cell according to desired constant region functionality of resultant antibodies and heavy chains, as discussed above.
In one embodiment, in the vertebrate or cell of the invention the gamma constant region comprises CH2 and CH3 gene segments for encoding an antibody Fc region. In an example, the constant region also comprises a CH1 gene segment of the human constant region. This is useful for producing heavy chains that are to form part of 4-chain antibodies (classic H2L2 antibodies). In another example, the constant region lacks a CH1 gene segment. This is useful for producing heavy chains that are to form part of heavy-chain only antibodies (H2 antibodies) which are devoid of light chains.
In one embodiment, in the vertebrate or cell of the invention the genome comprises a light chain locus comprising human VL and JL gene segments upstream of a constant region for expression of light chains comprising human variable regions; optionally wherein the constant region is a human light chain constant region. For example, the genome comprises a light chain locus comprising human Vκ and Jκ gene segments upstream of an endogenous or human kappa constant region in the endogenous kappa locus for expression of kappa light chains comprising human variable regions. In this example, where the vertebrate is a mouse, it may not be necessary to humanise the lambda locus, since lambda chain expression in mice is relatively low. Optionally, the lambda locus is inactive and/or comprises human Vλ and Jλ upstream of an endogenous or human lambda constant region. Optionally, endogenous kappa chain expression is inactive.
For example, the vertebrate or cell does not substantially express endogenous light chains.
Inactivation of endogenous antibody, antibody chain or gene segment usage is, for example, substantially complete inactivation or prevention (substantially 100%, ie, essentially none (eg, less than 10, 5, 4, 3, 2, 1 or 0.5%) of the endogenous antibody chain etc (eg, no endogenous heavy chains etc) is expressed). This can be determined, for example, at the antibody chain (protein) level by assessing the antibody repertoire produced by the non-human vertebrate or cell or at the nucleotide level by assessing mRNA transcripts of antibody gene loci, eg, using RACE. In an embodiment, inactivation is more than 50% (ie, 50% or less of the antibodies or transcripts are of an endogenous antibody chain), 60%, 70%, 80%, 85%, 90%, 95%, 96%, 97%, 98% or 99%. For example, in an embodiment, endogenous heavy chain expression is substantially inactivated such that no more than 85%, 90%, 95%, 96%, 97%, 98% or 99% of the heavy chain repertoire of the vertebrate is provided by endogenous heavy chains. For example, endogenous heavy chain expression is substantially inactivated such that substantially none of the heavy chain repertoire of the vertebrate is provided by endogenous heavy chains. For example, in an embodiment, endogenous kappa chain expression is substantially inactivated such that no more than 85%, 90%, 95%, 96%, 97%, 98% or 99% of the kappa chain repertoire of the vertebrate is provided by endogenous kappa chains. For example, endogenous kappa chain expression is substantially inactivated such that substantially none of the kappa chain repertoire of the vertebrate is provided by endogenous kappa chains. For example, in an embodiment, endogenous lambda chain expression is substantially inactivated such that no more than 85%, 90%, 95%, 96%, 97%, 98% or 99% of the lambda chain repertoire of the vertebrate is provided by endogenous lambda chains. For example, endogenous lambda chain expression is substantially inactivated such that substantially none of the lambda chain repertoire of the vertebrate is provided by endogenous lambda chains.
In one embodiment, in the vertebrate or cell of the invention the human gamma constant region does not comprise a CH1 gene segment. In this embodiment, in an example, light chain expression is inactive when the non-mu heavy chains are expressed. This is useful for producing heavy-chain only antibodies of the non-mu isotype.
In one embodiment, in the vertebrate or cell of the invention the locus comprises a replacement of endogenous non-mu constant region gene segments (eg, CH2 and CH3 gene segments) with corresponding human constant region gene segments (eg, CH2 and CH3 gene segments) of the same non-mu isotype; optionally wherein an endogenous switch of said non-mu isotype is retained. This may be advantageous for maintaining the non-mu switch control of switching to the accompanying human isotype. Replacement here means functional or physical replacement, wherein the endogenous constant region of said non-mu isotype is non-functional or absent in the final genome and the human constant region is functional and present.
The vertebrate or cell of any preceding claim, wherein the locus comprises an insertion of a human gamma constant region nucleotide sequence comprising sequence from the human gamma S-gamma CH1, hinge or CH2 gene segment to (and including) the human gamma CH3 gene segment, wherein the insertion replaces a corresponding sequence of an endogenous gamma constant region in the genome of the vertebrate or cell. This is advantageous for maintaining the human CH2 and CH3 and inter-gene segment sequences in relative genomic or germline configuration for proper expression of human non-mu Fc in the product heavy chain or antibodies. Proper Fc function is desirable for Fc receptor interactions and recycling in human patients receiving the chain or antibody or a derivative drug thereof, as discussed above. Replacement here means functional or physical replacement, wherein the endogenous constant region of said non-mu isotype is non-functional or absent in the final genome and the human constant region is functional and present.
In an example, the human constant region is in human germline configuration. The term “germline configuration” refers to a germline genomic configuration. For example, human immunoglobulin gene segments present in the gene locus of the invention are in a germline configuration when the relative order of the human gene segments is the same as the order of corresponding gene segments in a human germline genome. For example, when the gene locus of the invention comprises hypothetical human immunoglobulin constant region gene segments A, B and C, these would be provided in this order (5′ to 3′ in the locus) when the corresponding gene segments of a human germline genome comprises the arrangement 5′-A-B-C-3′; and optionally the inter-gene segments too are in germline configuration (ie, the nucleotide sequence from A to C corresponds to a stretch of contiguous nucleotide sequence from A to C in a human germline genome). Available databases and sources of human germline sequence are discussed below. Thus, in an example, when elements of a human immunoglobulin locus (eg, gene segments, enhancers or other regulatory elements) are provided in a gene locus according to the invention, the human Ig locus elements are in germline configuration when the relative order of the elements is the same as the order of corresponding elements in a human germline genome and human sequences between the elements are included, these corresponding to such sequences between corresponding elements in the human germline genome. Thus, in a hypothetical example the transgenic locus comprises human elements in the arrangement 5′-A-S1-B-S2-C-S3-3′, wherein A, B and C are human immunoglobulin gene segments and S1-S3 are human inter-gene segment sequences, wherein the corresponding arrangement 5′-A-S1-B-S2-C-S3-3′ is present in a human germline genome. For example, this can be achieved by providing in a transgenic immunoglobulin locus of the invention a DNA insert corresponding to the DNA sequence from A to C in a human germline genome (or the insert comprising the DNA sequence from A to C). The arrangements in human germline genomes and immunoglobulin loci are known in the art (eg, see the IMGT, Kabat and other antibody resources).
In an embodiment of the invention, endogenous inter-gene segment sequences have been retained so that the heavy chain locus comprises said human non-mu constant region gene segments flanked by endogenous constant region inter-gene segment sequences. This is useful for preserving any endogenous, non-human regulatory elements between gene segments—for control using endogenous mechanisms for class switching and antibody/chain production in the vertebrate or cell.
In an embodiment of the invention, the gene locus comprises a replacement of endogenous gamma constant region gene segments (eg, gamma CH2 and CH3 gene segments) with human gamma constant region gene segments (eg, gamma CH2 and CH3 gene segments), but endogenous sequences between gamma constant regions have been retained. This is useful for preserving any endogenous, non-human regulatory elements between gene segments—for control using endogenous mechanisms for class switching and antibody/chain production in the vertebrate or cell.
The invention also provides a general combinatorial or repertoire approach that enables the skilled person to design an antibody/heavy chain production and selection scheme that combines human mutated variable regions with a plurality of different human constant domains (and/or synthetic mutants thereof). This scheme straight-forwardly harnesses the in vivo non-human vertebrate system to perform combinations, affinity maturation, and selection by expression and amplification of target antigen-specific heavy chains that are productive and in a fully human configuration. Thus, the skilled person is provided with a way of obtaining a repertoire of matured, target antigen-specific human heavy chain variable domains paired with a repertoire of human constant regions. The skilled person will know that all members of the repertoire represent productive combinations of human variable and constant heavy chain regions, in that they can be expressed to detectable and selectable levels in an in vivo system. From the repertoire (eg, a repertoire provided in a population of non-human vertebrates of the invention; or a repertoire of B-cells isolated from such vertebrates; or a repertoire of antibodies or heavy chains isolated from such vertebrates or cells; or a repertoire of nucleotide sequences encoding such antibodies or heavy chains) the skilled person is able to select one or more antibodies or heavy chains (or corresponding nucleotides sequences) that bind the target antigen. Selection is performed on the basis of a desired antibody/chain characteristic, such as antigen binding affinity and/or a biophysical characteristic.
To this end, there is provided a population of vertebrates according to the invention, wherein the population comprises
(i) a first of said vertebrates wherein said gene locus is an antibody heavy chain locus that comprises one or more first human non-mu gene segment(s) (eg, a human CH1, CH2 or CH3; or an Fc) or a first human non-mu constant region;
(ii) and a second of said vertebrates wherein said gene locus is an antibody heavy chain locus that comprises one or more second human non-mu gene segment(s) (eg, a human CH1, CH2 or CH3; or encoding an Fc) or a second human non-mu constant region; and
wherein the first and second gene segments are the same type of constant region gene segment(s) (eg, both CH1 gene segments or both encoding an Fc) and the second gene segment(s) is a variant of (ie, is a mutant of) the first gene segment(s).
Thus, this aspect of the invention is useful, for example, because it enables the skilled person to use the vertebrates to select for desirable human V regions (and those that express and perform well, have good biophysical characteristics etc) in vivo in the context of a repertoire of naturally-occurring human constant region polypmorphic variants—thus one can include the most common human variants (eg, as present in the 1000 Genomes database; www.1000genomes.org) to arrive at human antibodies and heavy chains that have wide application in human medicine, or can be selected (according to the C region variant distribution in the human ethnic and other populations) to be tailored to specific human populations. Also variants may have differing expression and/or biophysical characteristics—thus allowing one to have a pool of human antibodies and heavy chains from which to select good drug candidates for human use.
Thus, in an example, the second gene segment(s) is derived from the genome sequence of different human individuals, for example sequences appearing in the 1000 Genomes database (www.1000genomes.org).
The variant can, in one example, have no more than 15, 10, 9, 8, 7, 6, 5, 4, 3, 2 or 1 mutations compared to the corresponding first gene segment(s) or region.
In an embodiment, the second gene segment(s) or region is a synthetic mutant of the first gene segment(s) or region. In one example, the second gene segment(s) or region has no more than 15, 10, 9, 8, 7, 6, 5, 4, 3, 2 or 1 mutations compared to the corresponding first gene segment(s) or region. In this way, the skilled person can test out mutations in vivo in combination with a repertoire of human heavy chain variable regions. Combinations that are not productive will not be expressed and/or proliferate (as regulated by the vertebrates' own in vivo machinery) and productive combinations are then provided in one of said repertoires for selection of one or more desirable antibodies or heavy chains bearing human constant regions. Thus, for example, one can make (eg, design by specific choice of positions to mutate and/or residues to be encoded) mutant variants of a desired type of constant region (eg, to produce a collection of constant region encoding variant gamma, eg, gamma-1, constant regions). The mutants, in one example, are made with the aim of finding Fc inactivating variants that work well with the selected human variable regions. In another example, the mutants are made with the aim of finding Fc activating variants that work well with the selected human variable regions. Inactivation or activation of Fc can be tested (as is known in the art) after one or more antibodies or heavy chains have been selected from the population or repertoire. Advantageously, no further manipulation is required in vitro and expressibility of mutants and combinations is guaranteed in an in vivo system (at least cells of the non-human vertebrate type). For example, by immortalising isolated B-cells expressing to the selected antibodies/heavy chains (eg, by immortalising the B-cell directly or by fusion with a myeloma cell to produce a hybridoma), one then has a cell line that provides a good source of selected antibodies. Additionally, since in vitro manipulation is not necessary post-selection, the risk of down-grading biophysical characteristics is lowered and one can simply test the biophysical characteristics of a panel of lead antibodies/heavy chains (that have been selected for antigen binding in the desired affinity range) and select one or more antibodies/chains from this pane that meet the profile of characteristics required for human medicinal use and drug production and administration methods.
Thus, in an embodiment, one or both of the first and second gene segment(s) or regions encodes an inactivated human gamma Fc.
In an embodiment one or both of the first and second gene segment(s) or regions encodes an activated human gamma Fc.
Thus, the population of the invention provides an overall heavy chain repertoire comprising the heavy chain sequence repertoires of the first and second vertebrates. The vertebrates in the population can be immunised with the same antigen in a method of selecting and isolating one or more heavy chains (eg, provided as part of antibodies) that specifically bind to the antigen.
The VH gene segments of a repertoire can, in one embodiment, be recombined VH, ie, provided as part of a variable region sequence derived from the recombination of human VH with D and JH (eg, where the VH, D and JH are human).
In an embodiment, the population comprises a third said non-human vertebrate, wherein the human constant region gene segment repertoire is different from those of the first and second vertebrates, whereby the third vertebrate can produce a heavy chain sequence repertoire that is different from the heavy chain sequence repertoire produced by the first and second vertebrates. Thus, the population provides an overall heavy chain repertoire comprising the heavy chain sequence repertoires of the first, second and third vertebrates. The vertebrates in the population can be immunised with the same antigen in a method of selecting and isolating one or more heavy chains (eg, provided as part of antibodies) that specifically bind to the antigen.
In an embodiment, VH gene segment repertoire provided by said population comprises a substantially complete repertoire of functional human VH gene segments; optionally providing at least 6 different human JH gene segments, 27 different human D segments and at least 40 different human VH gene segments.
In an embodiment, the VH gene segment repertoire provided by said population comprises at least 20, 25, 30, 35 or 40 different human VH gene segments.
In an embodiment, the method of the invention comprises the step of immunising the vertebrates of the population with the same antigen (eg, a human antigen). Thus, the vertebrates are a population and are used as such.
In an embodiment, immunisation of two, more or all of said vertebrates is separated by no more than 12, 9, 6, 5, 4, 3, 2 or 1 months or 3, 2 or 1 week or 6, 5, 4, 3, 2, or 1 day. Thus, the vertebrates are a population and are used as such.
In an embodiment, the method of the invention comprises the step of selecting one or more heavy chains or antibodies from each of said immunised vertebrates on the basis of a common desired antibody or heavy chain characteristic (eg, binding affinity for said antigen), wherein the selected antibodies comprise human non-mu heavy chains, or the selected heavy chains are human.
In an example, the vertebrates share the same genetic background, with the exception of the heavy chain loci thereof (and optionally one or more of the light chain loci thereof).
In any configuration of the invention, in an embodiment vertebrates are derived from transgenic non-human vertebrate ancestor embryonic stem cells that have been genetically modified to include human immunoglobulin locus DNA, the ancestor stem cells being identical or related (eg, clonally related); optionally wherein the genome of the ancestor stem cells comprise a common sequence junction that is a junction between a non-human vertebrate sequence and a human sequence (eg, the ancestor genomes comprise a common transgenic immunoglobulin locus or a common human/non-human vertebrate (eg, human/mouse or human/rat) DNA junction). For example, the genomes comprise a common junction within or at the boundary of one or more of their immunoglobulin chain loci (eg, heavy chain loci and/or light chain loci). For example, the vertebrates of the population are mice whose genomes comprise a common human-mouse DNA junction within their heavy chain loci and/or one or more light chain loci. This is indicative that the mice form a population. For example, by producing variant vertebrates all stemming back from a common ancestor, the vertebrates can all share the same genetic background with the exception of one or more human gene segment repertoires in their genomes. This means that, with the exception of the expression profile resulting from the different gene segment sub-repertoires, there are no other introduced genetic variables between the members of the population, which enhances consistency of performance of the members of the population. This also simplifies breeding to produce the variants making up the population.
The invention provides an animal house or a laboratory containing a population according to the invention. For example, vertebrates of the population can be housed in the same cage or in the same collection of cages in the same animal house, building or laboratory. The cages or vertebrates themselves may be labelled so that they are part of the same population or experiment. They may be owned by the same owner, eg, the same company, or in the control of a single person or company. They may be allocated for use in the same research programme or series of related research experiments aimed at discovering one or more antibodies or antibody chains against a common antigen or related antigens. Thus, the vertebrates provide a population and are used as such. It is indicative of a population, that the vertebrates are discussed in the context of the same research programme or immunisation schedule or experiment or set of experiments in a laboratory notebook or a set of laboratory notebooks that relate to the same research programme or immunisation schedule or experiment or set of experiments. For example, such a programme, schedule or experiment(s) may relate to immunisation of the vertebrates of a population with the same antigen.
An aspect provides a method of isolating an antibody, heavy chain or nucleotide sequence encoding said antibody, the method comprising
(a) immunising (see e.g. Harlow, E. & Lane, D. 1998, 5th edition, Antibodies: A Laboratory Manual, Cold Spring Harbor Lab. Press, Plainview, N.Y.; and Pasqualini and Arap, Proceedings of the National Academy of Sciences (2004) 101:257-259) a vertebrate or population according to the invention with an antigen such that the vertebrate(s) produce antibodies; and
(b) isolating from immunised vertebrate(s) an antibody or heavy chain that specifically binds to said antigen and/or a nucleotide sequence encoding at least the heavy chain variable region of said antibody.
Suitably an immunogenic amount of the antigen is delivered in the method of the invention. The invention also relates to a method for detecting a target antigen comprising detecting an antibody or heavy chain produced as above or a derivative thereof with a secondary detection agent which recognises a portion of that antibody/chain.
Isolation of the antibody in step (b) can be carried out using conventional antibody selection techniques, eg, panning for antibodies against antigen that has been immobilised on a solid support, optionally with iterative rounds at increasing stringency, as will be readily apparent to the skilled person.
As a further optional step, after step (b) the amino acid sequence of the heavy chain variable region is mutated to improve affinity for binding to said antigen. Mutation can be generated by conventional techniques as will be readily apparent to the skilled person, eg, by error-prone PCR. Affinity can be determined by conventional techniques as will be readily apparent to the skilled person, eg, by surface plasmon resonance, eg, using Biacore™.
Additionally or alternatively, as a further optional step, after step (b) the amino acid sequence of the heavy chain variable region is mutated to further improve one or more biophysical characteristics of the antibody, eg, one or more of melting temperature, solution state (monomer or dimer), stability and expression (eg, in CHO or E. coli).
An aspect provides an antibody or heavy chain produced by the method of the invention, optionally for use in human medicine, eg, for treating and/or preventing a medical condition or disease in a human patient.
The invention provides a method of isolating a human antibody, the method comprising immunising a vertebrate or population of vertebrates according to any preceding claim with an antigen (eg, human antigen or viral or bacterial antigen) and isolating an antibody from said vertebrate or a vertebrate of the population, wherein the isolated antibody specifically binds to the antigen and comprises a fully human heavy chain of said non-mu isotype. The invention provides a pharmaceutical composition comprising the isolated antibody or a copy or derivative thereof.
The method provides a method of obtaining a humanised and affinity matured antigen-specific antibody heavy chain, the method comprising humanising the heavy chain in vivo in a non-human vertebrate (eg, a mouse or a rat) comprising a functional activation induced cytidine deaminase (AID) by immunising the vertebrate with the antigen and obtaining somatic hypermutation and isotype switching in a B-cell of the vertebrate from an endogenous mu isotype to a human non-mu isotype, wherein an affinity matured antigen-specific antibody heavy chain is produced and expressed by the vertebrate, the non-mu constant domains of the heavy chain being human constant domains, the method further comprising isolating said humanised heavy chain.
In an example, the variable domain of the heavy chain is a human variable domain.
In an example, the vertebrate is according to any aspect of the invention as described above.
The method provides a pharmaceutical composition comprising the isolated antibody heavy chain obtained in the method or a copy or derivative thereof; optionally wherein the heavy chain, copy or derivative is provided by an antibody that specifically binds the antigen.
Optionally, the method comprises the step of isolating a B-cell from said immunised vertebrate (or an immunised vertebrate of said population), wherein the B-cell expresses said isolated antibody or heavy chain; and optionally immortalising the B-cell.
Optionally, the method comprises the step of isolating a nucleotide sequence from said immunised vertebrate or B-cell, wherein the nucleotide sequence encodes said isolated antibody or a heavy chain thereof.
The method provides a vector (optionally in a host cell) comprising the nucleotide sequence of the invention or a copy thereof, or a derivative thereof; optionally comprising up to 15, 10, 9, 8, 7, 6, 5, 4, 3, or 1 mutations. The derivative specifically binds target antigen.
The method provides a method of treating or preventing a medical condition or disease in a human associated or caused by said antigen, the method comprising administering to the human the antigen-specific antibody or heavy chain obtained in the method.
The method provides the antigen-specific antibody or heavy chain obtained in the method for use in the treatment or prophylaxis of a medical condition or disease in a human associated or caused by said antigen.
The method provides the use of the antigen-specific antibody or heavy chain obtained in the method in the manufacture of a medicament for use in the treatment or prophylaxis of a medical condition or disease in a human associated or caused by said antigen.
As will be readily apparent to the skilled person, the operable connection of a human gene segment (eg, a V or J gene segment) upstream of a constant region in an Ig locus in any configuration of the invention enables the gene segment to be recombined and expressed in an immunoglobulin chain comprising sequence encoded by the constant region of the locus.
The term “antibody” includes monoclonal antibodies (including full length antibodies which have an immunoglobulin Fc region), antibody compositions with polyepitopic specificity, multispecific antibodies (e.g., bispecific antibodies, as well as antibody fragments (e.g., Fab, F(ab′)2). The term “antibody” also includes H2 antibodies that comprise a dimer of a heavy chain (5′-VH-(optional Hinge)-CH2-CH3-3′) and are devoid of a light chain (akin to naturally-occurring H2 antibodies; see, eg, Nature. 1993 Jun. 3; 363(6428):446-8; Naturally occurring antibodies devoid of light chains; Hamers-Casterman C, Atarhouch T, Muyldermans S, Robinson G, Hamers C, Songa E B, Bendahman N, Hamers R). Thus, in an embodiment of the present invention, RNA produced from the transgenic heavy chain locus of the invention encodes for heavy chains that re devoid of a CH1 gene segment and comprise no functional antibody light chain. In an example, RNA produced from the transgenic heavy chain locus encodes for VH single variable domains (dAbs; domain antibodies) with one or more human constant domains. Antibodies, according to the invention, comprise one or more human constant domains of non-mu isotype.
Examples of antibodies are classic 4-chain antibodies comprising two heavy chains paired with two light chains (such as, a dimer of 5′-VH-CH1-Hinge-CH2-CH3-3′ paired with 5′-VL-CL-3′) or H2 antibodies that comprise a dimer of a heavy chain (5′-VH-(optional Hinge)-CH2-CH3-3′) and are devoid of a light chain Thus, in an embodiment of the present invention, the heavy chain sequence repertoire encodes for heavy chains that re devoid of a CH1 gene segment and comprise no functional antibody light chain. In an example, the heavy chain sequence repertoire encodes a repertoire of VH single variable domains (dAbs; domain antibodies) with one or more human constant domains.
In an example of any configuration of the invention, a repertoire comprises a plurality of different members (thus, for example, a heavy chain repertoire comprises a plurality of different heavy chain sequences, such as sequences differing in their variable regions and/or human non-mu constant regions). In an example of any configuration of the invention, a repertoire comprises or consists of 2, 3, 4, 5, 6, 7, 8, 9, 10, at least 15, at least 20, at least 30, at least 40, at least 50, at least 60, at least 70, at least 80, at least 90, at least 100, at least 103, at least 104, at least 105, at least 106, at least 107, at least 108, at least 109, at least 1010, at least 1011, at least 1012, at least 1013, or at least 1014 members. For example, a repertoire of antibody heavy chains or antibodies comprises or consists of at least 100, at least 103, at least 104, at least 105, at least 106, at least 107, at least 108, at least 109, at least 1010, at least 1011, at least 1012, at least 1013, or at least 1014 antibody chain sequences or antibodies respectively. For example, a repertoire comprises or consists of 2, 3, 4, 5, 6, 7, 8, 9, 10, at least 15, at least 20, at least 30, at least 40, at least 50, at least 60, at least 70, at least 80, at least 90, at least 100, at least 103, at least 104, at least 105, at least 106, at least 107, at least 108, at least 109, at least 1010, at least 1011, at least 1012, at least 1013, or at least 1014 different members. For example, a repertoire of gene segments comprises or consists of 2, 3, 4, 5, 6, 7, 8, 9, 10, at least 15, at least 20, at least 30, at least 40, at least 50 gene segments. Optionally, all of the gene segments are different from each other; or all of the gene segments of the same type (eg, CH2) are different from each other.
In an example of any configuration of the invention, a population comprises a plurality of different members. Thus, for example, a population of non-human vertebrates (eg, mice or rats) comprises a plurality of vertebrates wherein at least two or more of the vertebrates comprise non-identical genomes. The genomes differ in their respective repertoire of human constant region gene segments. In an example of any configuration of the invention, a population of non-human vertebrates comprises or consists of 2, 3, 4, 5, 6, 7, 8, 9, 10, at least 15, at least 20, at least 30, at least 40, at least 50, at least 60, at least 70, at least 80, at least 90, at least 100, at least 103 non-human vertebrates. When the population consists of two vertebrates, the genomes of vertebrates are different.
In one embodiment in any configuration of the invention, each vertebrate is a non-human mammal. In one embodiment in any configuration of the invention, the vertebrate is a mouse, rat, rabbit, Camelid (eg, a llama, alpaca or camel), chicken, lamprey or shark. For example, all vertebrates are of the same vertebrate species, eg, all mice or all rats.
In any configuration of the invention, the human gene regions or segments may be derived from the same individual or different individuals, or be synthetic (synthetically mutated human gene segments) or represent human consensus sequences.
Techniques for constructing non-human vertebrates and vertebrate cells whose genomes comprise a human immunoglobulin gene segments are well known in the art. For example, reference is made to WO2011004192, U.S. Pat. Nos. 7,501,552, 6,673,986, 6,130,364, WO2009076464 and U.S. Pat. No. 6,586,251, the disclosures of which are incorporated herein by reference in their entirety.
In one example, a non-human vertebrate of any configuration of the invention is able to generate a diversity of at least 1×106 different functional non-mu immunoglobulin sequence combinations.
Human variable regions are suitably inserted upstream of a non-human vertebrate mu constant region, the latter together with downstream human constant region(s) comprising all of the DNA required to encode the full constant region or a sufficient portion of the constant region to allow the formation of an effective non-mu antibody/heavy chain capable of specifically recognising a target antigen.
The endogenous mu non-human vertebrate constant region herein is optionally the endogenous host wild-type constant region located at the wild type locus, as appropriate for the heavy chain. For example, the human constant region DNA is suitably inserted on mouse chromosome 12, immediately downstream of the mouse heavy chain mu constant region, where the vertebrate is a mouse.
In one optional aspect where the vertebrate is a mouse, the insertion of human variable region DNA (V, D and J gene segments) is targeted to the region between the J4 exon and the endogenous Sμ locus in the mouse genome IgH locus, and in one aspect is inserted between coordinates 114,667,090 and 114,665,190, suitably at coordinate 114,667,091, after 114,667,090.
All nucleotide co-ordinates for the mouse are those corresponding to NCBI m37 for the mouse C57BL/6J strain, e.g. April 2007 ENSEMBL Release 55.37h, e.g. NCBI37 July 2007 (NCBI build 37) (e.g. UCSC version mm9 see www.genome.ucsc.edu and http://genome.ucsc.edu/FAQ/FAQ.releases.html) unless otherwise specified. Human nucleotides coordinates are those corresponding to GRCh37 (e.g. UCSC version hg 19, http://genome.ucsc.edu/FAQ/FAQ.releases.html), February 2009 ENSEMBL Release 55.or are those corresponding to NCBI36, Ensemble release 54 unless otherwise specified. Rat nucleotides are those corresponding to RGSC 3.4 Dec. 2004 ENSEMBL release 55.34w, or Baylor College of Medicine HGSC v3.4 Nov. 2004(e.g., UCSC rn4, see www.genome.ucsc.edu and http://genome.ucsc.edu/FAQ/FAQ.releases.html) unless otherwise specified.
In one aspect the host non-human vertebrate mu constant region for forming the chimaeric IgM antibody/heavy chain may be at a different (non endogenous) chromosomal locus. In this case the inserted human DNA, ie, the human variable V,D,J and C gene segments, may then be inserted into the non-human genome at a site which is distinct from that of the naturally occurring heavy locus. Endogenous heavy chain expression is inactivated.
Reference to location of a human variable region, constant region or a gene segment upstream or downstream of an endogenous mu constant region means that there is a suitable relative location of the antibody nucleotide elements to enable formation of mu and then non-mu heavy chains in vivo in the vertebrate. Thus, the inserted human DNA and endogenous constant region and any other endogenous sequences are in operable connection with one another for antibody or antibody chain production.
As a source of human and non-human antibody gene segment sequences, the skilled person will also be aware of the following available databases and resources (including updates thereof) the contents of which are incorporated herein by reference:
The Kabat Database (G. Johnson and T. T. Wu, 2002; World Wide Web (www) kabatdatabase.com). Created by E. A. Kabat and T. T. Wu in 1966, the Kabat database publishes aligned sequences of antibodies, T-cell receptors, major histocompatibility complex (MHC) class I and II molecules, and other proteins of immunological interest. A searchable interface is provided by the Seqhuntll tool, and a range of utilities is available for sequence alignment, sequence subgroup classification, and the generation of variability plots. See also Kabat, E. A., Wu, T. T., Perry, H., Gottesman, K., and Foeller, C. (1991) Sequences of Proteins of Immunological Interest, 5th ed., NIH Publication No. 91-3242, Bethesda, Md., which is incorporated herein by reference, in particular with reference to human gene segments for use in the present invention.
KabatMan (A. C. R. Martin, 2002; World Wide Web (www) bioinf.org.uk/abs/simkab.html). This is a web interface to make simple queries to the Kabat sequence database.
IMGT (the International ImMunoGeneTics Information System®; M.-P. Lefranc, 2002; World Wide Web (www) imgt.cines.fr). IMGT is an integrated information system that specializes in antibodies, T cell receptors, and MHC molecules of all vertebrate species. It provides a common portal to standardized data that include nucleotide and protein sequences, oligonucleotide primers, gene maps, genetic polymorphisms, specificities, and two-dimensional (2D) and three-dimensional (3D) structures. IMGT includes three sequence databases (IMGT/LIGM-DB, IMGT/MHC-DB, IMGT/PRIMERDB), one genome database (IMGT/GENE-DB), one 3D structure database (IMGT/3Dstructure-DB), and a range of web resources (“IMGT Marie-Paule page”) and interactive tools.
V-BASE (I. M. Tomlinson, 2002; World Wide Web (www) mrc-cpe.cam.ac.uk/vbase). V-BASE is a comprehensive directory of all human antibody germline variable region sequences compiled from more than one thousand published sequences. It includes a version of the alignment software DNAPLOT (developed by Hans-Helmar Althaus and Werner Müller) that allows the assignment of rearranged antibody V genes to their closest germline gene segments.
Antibodies—Structure and Sequence (A. C. R. Martin, 2002; World Wide Web (www) bioinf.org.uk/abs). This page summarizes useful information on antibody structure and sequence. It provides a query interface to the Kabat antibody sequence data, general information on antibodies, crystal structures, and links to other antibody-related information. It also distributes an automated summary of all antibody structures deposited in the Protein Databank (PDB). Of particular interest is a thorough description and comparison of the various numbering schemes for antibody variable regions.
AAAAA (A Ho's Amazing Atlas of Antibody Anatomy; A. Honegger, 2001; World Wide Web (www) unizh.ch/˜antibody). This resource includes tools for structural analysis, modeling, and engineering. It adopts a unifying scheme for comprehensive structural alignment of antibody and T-cell-receptor sequences, and includes Excel macros for antibody analysis and graphical representation.
WAM (Web Antibody Modeling; N. Whitelegg and A. R. Rees, 2001; World Wide Web (www) antibody.bath.ac.uk). Hosted by the Centre for Protein Analysis and Design at the University of Bath, United Kingdom. Based on the AbM package (formerly marketed by Oxford Molecular) to construct 3D models of antibody Fv sequences using a combination of established theoretical methods, this site also includes the latest antibody structural information.
Mike's Immunoglobulin Structure/Function Page (M. R. Clark, 2001; World Wide Web (www) path.cam.ac.uk/˜mrc7/mikeimages.html) These pages provide educational materials on immunoglobulin structure and function, and are illustrated by many colour images, models, and animations. Additional information is available on antibody humanization and Mike Clark's Therapeutic Antibody Human Homology Project, which aims to correlate clinical efficacy and anti-immunoglobulin responses with variable region sequences of therapeutic antibodies.
The Antibody Resource Page (The Antibody Resource Page, 2000; World Wide Web (www) antibodyresource.com). This site describes itself as the “complete guide to antibody research and suppliers.” Links to amino acid sequencing tools, nucleotide antibody sequencing tools, and hybridoma/cell-culture databases are provided.
Humanization by Design (J. Saldanha, 2000; World Wide Web (www) people.cryst.bbk.ac.uk/˜ubcg07s). This resource provides an overview on antibody humanization technology. The most useful feature is a searchable database (by sequence and text) of more than 40 published humanized antibodies including information on design issues, framework choice, framework back-mutations, and binding affinity of the humanized constructs.
See also Antibody Engineering Methods and Protocols, Ed. Benny K C Lo, Methods in Molecular Biology™, Human Press. Also at World Wide Web (www) blogsua.com/pdf/antibody-engineering-methods-and-protocolsantibody-engineering-methods-and-protocols.pdf
Samples from which B-cells can be obtained include but are not limited to blood, serum, spleen, splenic tissue, bone marrow, lymph, lymph node, thymus, and appendix. Antibodies and immunoglobulin chains can be obtained from each of the previous-mentioned samples and also from the following non-limiting list of B-cells, ascites fluid, hybridomas, and cell cultures.
“Plurality” is used in the ordinary sense of the term and means “at least one” or “more than one”.
“Derived from” is used in the ordinary sense of the term. Exemplary synonyms include “produced as”, “resulting from”, “received from”, “obtained from”, “a product of”, “consequence of”, and “modified from” For example, a human variable region of a heavy chain can be derived from recombination of human VH, D and JH gene segments and this reflects the in vivo recombination of these gene segments in, for example, a transgenic heavy chain locus according to the invention with any accompanying mutation (eg, junctional mutation). A constant region or gene segment sequence is derived from a human individual if, for example it is an identical nucleotide copy of that region or segment as found in the genome of that individual (or found in a ethnic or geographical population of humans of which the individual is a member). Populations and genomic variant immunoglobulin gene sequences can be found, eg, in the 1000 Genomes database or by sampling DNA from humans and sequencing.
In one embodiment in any configuration of the invention, the genome of a or each vertebrate or cell has been modified to prevent or reduce the expression of fully-endogenous antibody or heavy chains. Examples of suitable techniques for doing this can be found in WO2011004192, U.S. Pat. Nos. 7,501,552, 6,673,986, 6,130,364, WO2009/076464, EP1399559 and U.S. Pat. No. 6,586,251, the disclosures of which are incorporated herein by reference. In one embodiment, the non-human vertebrate VDJ region of the endogenous heavy chain immunoglobulin locus, and optionally VJ region of the endogenous light chain immunoglobulin loci (lambda and/or kappa loci), have been inactivated. For example, all or part of the non-human vertebrate VDJ region is inactivated by inversion in the endogenous heavy chain immunoglobulin locus of the mammal, optionally with the inverted region being moved upstream or downstream of the endogenous Ig locus. For example, all or part of the non-human vertebrate VJ region is inactivated by inversion in the endogenous kappa chain immunoglobulin locus of the mammal, optionally with the inverted region being moved upstream or downstream of the endogenous Ig locus. For example, all or part of the non-human vertebrate VJ region is inactivated by inversion in the endogenous lambda chain immunoglobulin locus of the mammal, optionally with the inverted region being moved upstream or downstream of the endogenous Ig locus. In one embodiment the endogenous heavy chain locus is inactivated in this way as is one or both of the endogenous kappa and lambda loci.
Additionally or alternatively, the or each vertebrate has been generated in a genetic background which prevents the production of mature host B and T lymphocytes, optionally a RAG-1-deficient and/or RAG-2 deficient background. See U.S. Pat. No. 5,859,301 for techniques of generating RAG-1 deficient animals.
The term “immunoglobulin” (Ig) is used interchangeably with “antibody” herein.
An “isolated” antibody or heavy chain is one that has been identified, separated and/or recovered from a component of its production environment (e.g., naturally or recombinantly). Preferably, the isolated polypeptide is free of association with all other components from its production environment, eg, so that the antibody has been isolated to an FDA-approvable or approved standard. Contaminant components of its production environment, such as that resulting from recombinant transfected cells, are materials that would typically interfere with research, diagnostic or therapeutic uses for the antibody, and may include enzymes, hormones, and other proteinaceous or non-proteinaceous solutes. In preferred embodiments, the polypeptide will be purified: (1) to greater than 95% by weight of antibody as determined by, for example, the Lowry method, and in some embodiments, to greater than 99% by weight; (2) to a degree sufficient to obtain at least 15 residues of N-terminal or internal amino acid sequence by use of a spinning cup sequenator, or (3) to homogeneity by SDS-PAGE under non-reducing or reducing conditions using Coomassie blue or, preferably, silver stain. Isolated antibody includes the antibody in situ within recombinant cells since at least one component of the antibody's natural environment will not be present. Ordinarily, however, an isolated polypeptide, chain or antibody will be prepared by at least one purification step.
An “antibody fragment” comprises a portion of an intact antibody, preferably the antigen binding and/or the variable region of the intact antibody. Examples of antibody fragments include dAb, Fab, Fab′, F(ab′)2 and Fv fragments; diabodies; linear antibodies; single-chain antibody molecules and multispecific antibodies formed from antibody fragments.
An antibody that “specifically binds to” or is “specific for” a particular polypeptide, antigen, or epitope is one that binds to that particular polypeptide, antigen, or epitope without substantially binding to other polypeptides, antigens or epitopes. For example, binding to the antigen or epitope is specific when the antibody binds with a KD of 100 μM or less, 10 μM or less, 1 μM or less, 100 nM or less, eg, 10 nM or less, 1 nM or less, 500 pM or less, 100 pM or less, or 10 pM or less. The binding affinity (KD) can be determined using standard procedures as will be known by the skilled person, eg, binding in ELISA and/or affinity determination using surface plasmon resonance (eg, Biacore™ or KinExA™ solution phase affinity measurement which can detect down to fM affinities (Sapidyne Instruments, Idaho)).
“Pharmaceutically acceptable” refers to approved or approvable by a regulatory agency of the USA Federal or a state government or listed in the U.S. Pharmacopeia or other generally recognized pharmacopeia for use in animals, including humans. A “pharmaceutically acceptable carrier, excipient, or adjuvant” refers to an carrier, excipient, or adjuvant that can be administered to a subject, together with an agent, e.g., any antibody or antibody chain described herein, and which does not destroy the pharmacological activity thereof and is nontoxic when administered in doses sufficient to deliver a therapeutic amount of the agent.
In one embodiment of any configuration of the vertebrate or cell of the invention the genome comprises an antibody light chain locus which comprises all or part of the human Igλ locus including at least one human Jλ region and at least one human Cλ region, optionally Cλ6 and/or Cλ7. Optionally, the light chain locus comprises a plurality of human Jλ regions, optionally two or more of Jλ1, Jλ2, Jλ6 and Jκ7, optionally all of Jλ1, Jλ2, Jλ6 and Jλ7. The human lambda immunoglobulin locus comprises a unique gene architecture composed of serial J-C clusters. In order to take advantage of this feature, the invention in optional aspects employs one or more such human J-C clusters. Thus, optionally the light chain locus comprises at least one human Jλ-Cλ cluster, optionally at least Jλ7-Cλ7. The construction of such transgenes is facilitated by being able to use all or part of the human lambda locus such that the transgene comprises one or more J-C clusters in germline configuration, advantageously also including intervening sequences between clusters and/or between adjacent J and C regions in the human locus. This preserves any regulatory elements within the intervening sequences which may be involved in VJ and/or JC recombination and which may be recognised by endogenous AID (activation-induced deaminase).
An aspect provides a nucleotide sequence encoding the antibody or heavy chain of the invention, optionally wherein the nucleotide sequence is part of a vector. Suitable vectors will be readily apparent to the skilled person, eg, a conventional antibody expression vector comprising the nucleotide sequence together in operable linkage with one or more expression control elements.
An aspect provides a pharmaceutical composition comprising the antibody or heavy chain of the invention and a diluent, excipient or carrier, optionally wherein the composition is contained in an IV container (eg, and IV bag) or a container connected to an IV syringe.
An aspect provides the use of the antibody or heavy chain of the invention in the manufacture of a medicament for the treatment and/or prophylaxis of a disease or condition in a human patient.
The skilled person will generally be familiar with standard cloning techniques and recombinant DNA technology—see e.g. Sambrook, J and Russell, D. (2001, 3rd edition) Molecular Cloning: A Laboratory Manual (Cold Spring Harbor Lab. Press, Plainview, N.Y.).
In a further aspect the invention relates to humanised antibodies and antibody heavy chains produced according to the present invention, and use of said antibodies in human medicine. The invention also relates to a pharmaceutical composition comprising such an antibody or heavy chain and a pharmaceutically acceptable carrier or other excipient.
Methods for the generation of both monoclonal and polyclonal antibodies are well known in the art, and the present invention relates to both polyclonal and monoclonal antibodies of fully humanised antibodies and heavy chains produced in response to antigen challenge in a vertebrate, cell or population of non-human vertebrates according to the present invention.
In a further aspect, the invention relates to use of a population of non-human vertebrates of the present invention in the analysis of the likely effects of drugs and vaccines in the context of a human antibody heavy chain repertoire.
The invention also relates to a method for identification or validation of a drug or vaccine, the method comprising delivering the vaccine or drug to a population of vertebrates of the invention and monitoring one or more of: the immune response, the safety profile; the effect on disease.
The invention also relates to a kit comprising an antibody, heavy chain or antibody derivative as disclosed herein and either instructions for use of such antibody, derivative or chain or a suitable laboratory reagent, such as a buffer, antibody detection reagent.
The invention also relates to a method for making an antibody, or part thereof, the method comprising providing:
(i) a nucleic acid encoding an antibody or heavy chain, obtained using the vertebrate, cell or population of the present invention; or
(ii) sequence information from which a nucleic acid encoding an antibody or heavy chain, obtained using the vertebrate, cell or population of the present invention can be expressed to allow an antibody or heavy chain to be produced.
In an embodiment, each vertebrate is a non-human vertebrate, mouse or rat, whose genome comprises
(a) said gene locus, wherein the gene locus is a transgenic heavy chain locus (ie, at the endogenous heavy chain locus position); and
(b) an antibody kappa light chain locus transgene and/or an antibody lambda chain locus transgene;
wherein all of the V, D and J in said transgenes are human V, D and J;
wherein endogenous antibody heavy and light chain expression has been inactivated; and
optionally wherein said genome is homozygous for said heavy and light chain loci. This is useful for generating, predictably, only human antibodies and chains in the vertebrate (and population comprising such vertebrates) when all light chain constant regions are human.
In an embodiment, the kappa chain transgenic loci comprises a substantially complete human functional Vκ and Jκ repertoire; and the lambda chain transgene comprises a substantially complete human functional Vλ and Jλ repertoire. “Functional” here acknowledges that Ig gene segment pseudogenes and non-functional human Ig gene segments can be excluded.
In one example the gene locus of the invention is a heavy chain locus which comprises a S-mu switch (eg, endogenous S-mu) 5′ of the endogenous mu constant region and a human gamma constant region3′ of the endogenous mu constant region, with a S-gamma switch (eg, a human or endogenous S-gamma) between the Cmu and Cgamma regions. For example, the C-mu region and switches are mouse 129 C-mu region and switches; or the C-mu region and switches are mouse Black 6 C-mu region and switches. In another embodiment (where the non-human vertebrate species is mouse or rat), S-mu is a rat Smu and the C-mu region is mouse and optionally there is a mouse S-gamma 3′ of the C-mu region.
In one aspect each vertebrate is a mouse whose genetic background is selected from mouse strains C57BL/6, M129 such as 129/SV, BALB/c, and any hybrid of C57BL/6, M129 such as 129/SV, or BALB/c. In an embodiment, each of these vertebrates have the same genetic background but two or more of the vertebrates of the population differ in their human gene segment repertoires (eg, in their human C region gene segment repertoires).
In an embodiment, the J segments of each gene locus of the invention are human JH gene segments; optionally wherein each heavy chain locus comprises a substantially complete functional repertoire of human JH gene segments.
In an embodiment, each gene locus of the invention comprises at least 2, 3, 4, 5 or 6 different human JH gene segments.
In an embodiment, the D segments of each gene locus of the invention are human D gene segments; optionally wherein each heavy chain locus comprises a substantially complete functional repertoire of human D gene segments.
In an embodiment, each gene locus of the invention comprises at least 5, 10, 15, 20, 25, 26 or 27 different human D gene segments.
In an embodiment, the heavy chain loci of said vertebrates comprise identical human D and JH gene segment repertoires, but differ in their VH gene repertoires.
In an embodiment, each heavy chain locus comprises at least two human JH gene segments selected from the group consisting of J1, J2, J3, J4, J5 and J6; optionally all of the gene segments of the group.
In an embodiment, each vertebrate comprises human VH gene segments selected from the group consisting of V6-1, V1-2, V1-3, V4-4, V7-41, V2-5, V3-7, V1-8, V3-9, V3-11, V3-15, V1-18, V3-20, V3-21, V3-23, V1-24, V2-26, V4-28, V3-30, V4-31, V3-33, V4-34, V4-39, V3-43, V1-45, V1-46, V3-48, V3-49, V5-51, V3-53, V1-58, V4-59, V4-61, V3-64, V3-66, V1-69, V2-70, V3-72, V3-73 and V3- 74; wherein the VH gene repertoire comprises a substantially complete human functional VH gene repertoire.
In an embodiment, endogenous antibody heavy chain expression has been inactivated in the vertebrate or cell of the invention. For example, less than 10, 5, 4, 3, 2, 1 or 0.5% of heavy chains are provided by endogenous heavy chains (ie, heavy chains whose variable regions are derived from recombination of non-human vertebrate V, D and J gene segments).
The VL gene segments of a repertoire can, in one embodiment, be recombined VL, ie, provided as part of a variable region sequence derived from the recombination of human VL with JL (eg, where the VI and JL are human).
In an embodiment, the J segments of each transgenic light chain locus are human JL gene segments; optionally wherein each light chain locus comprises a substantially complete functional repertoire of human Jκ or Jλ gene segments (eg, each transgenic locus comprises human Vλ gene segments and Jλ gene segments, optionally a substantially complete functional repertoire of human Jλ gene segments; or each transgenic locus comprises human Vκ gene segments and Jκ gene segments, optionally a substantially complete functional repertoire of human Jκ gene segments).
In an embodiment, the kappa chain repertoire provided by said population comprises a substantially complete repertoire of functional human Vκ gene segments; optionally providing at least 5 different human Jκ gene segments and at least at least 40 different human Vκ gene segments.
In an embodiment, the kappa chain repertoire provided by said population comprises at least 20, 25, 30, 35 or 40 different human Vκ gene segments.
In an embodiment, the lambda chain repertoire provided by said population comprises a substantially complete repertoire of functional human Vλ gene segments; optionally providing at least 5 different human Jλ gene segments and at least 40 different human Vλ gene segments.
In an embodiment, the lambda chain repertoire provided by said population comprises at least 20, 25, 30, 35 or 40 different human Vλ gene segments.
In an embodiment, each light chain locus of the vertebrate or cell comprises at least 2, 3, 4, 5 or 6 different human Jκ or Jλ gene segments.
In an embodiment, the light chain loci of said vertebrate or cell comprise identical human JL gene segment repertoires, but differ in their VL gene repertoires.
In an embodiment, endogenous antibody kappa and/or lambda light chain expression has been inactivated in the vertebrate or cell.
In an embodiment, said transgenic light chain loci of the vertebrate or cell are kappa light chain loci (at the endogenous kappa loci, ie, corresponding to the position of a kappa locus in a wild-type non-human vertebrate genome). For example, a transgenic kappa locus can comprise human Vκ gene segments and Jκ gene segments upstream of a constant region (eg, a CH, Cλ or Cκ gene segment; optionally which is an endogenous or human gene segment). For example, a transgenic kapppa locus can comprise human Vλ gene segments and Jλ gene segments upstream of a constant region (eg, a CH, Cλ or Cκ gene segment; optionally which is an endogenous or human gene segment).
In an embodiment, said transgenic light chain loci of the vertebrate or cell are lambda light chain loci (at the endogenous lambda loci, ie, corresponding to the position of a lambda locus in a wild-type non-human vertebrate genome). For example, a transgenic lambda locus can comprise human Vκ gene segments and Jκ gene segments upstream of a constant region (eg, a CH, Cλ or Cκ gene segment; optionally which is an endogenous or human gene segment). For example, a transgenic lambda locus can comprise human Vλ gene segments and Jλ gene segments upstream of a constant region (eg, a CH, Cλ or Cκ gene segment; optionally which is an endogenous or human gene segment).
For selection of antibodies and heavy chains in the methods of the invention, examples of a desirable antibody/chain characteristic are affinity for binding a predetermined antigen or epitope (eg, as determined by surface plasmon resonance), completion with a known antibody for binding to a predetermined antigen or epitope, epitopic specificity of the antibody (eg, as determined by X-ray crystallography, competition with a known antibody for antigen binding wherein the known antibody specifically binds to the antigen (eg, as determined by surface plasmon resonance, eg, Biacore™), performance in ELISA or another immunoassay, a desirable biophysical characteristic (eg, melting temperature, pl, solution state, degree of aggregation, storage profile etc). In an embodiment, affinity is determined by surface plasmon resonance.
Methods of immunisation for use in the invention are well known to the skilled person and may involve a classic prime-boost regime, RIMMS or any other protocol. An adjuvant may be administered with the antigen, as is known in the art.
The invention provides a pharmaceutical composition comprising an antibody or heavy chain selected as described above or a derivative thereof that binds said antigen, together with a pharmaceutically acceptable diluent, carrier or excipient.
Examples of derivative antibodies/chains (according to any aspect herein) are antibodies/chains that have one or more mutations compared to the isolated antibody or chain (eg, to improve antigen-binding affinity and/or to enhance or inactivate Fc function) Such mutants specifically bind the antigen. Mutation or adaptation to produce a derivative includes, eg, mutation to produce Fc enhancement or inactivation. A derivative can be an antibody following conjugation to a toxic payload or reporter or label or other active moiety.
In an embodiment of any configuration, the vertebrate is (or vertebrates of the populatio are) naïve (ie, not immunised with a predetermined antigen, as the term is understood in the art; for example, such a vertebrate that has been kept in a relatively sterile environment as provided by an animal house used for R&D). In another example, the vertebrates have been immunised with a predetermined antigen, eg, an antigen bearing a human epitope. In another example, the population comprises naïve and immunised vertebrates.
In an embodiment of the population or method, the vertebrates have been immunised with the same antigen (eg, a human antigen).
In an embodiment of the population or method, the vertebrates are naïve.
In an embodiment of the population or method, the vertebrates have a common collection of light chain loci. For example, the kappa chain loci alleles are identical in the vertebrates and/or the lambda chain loci alleles are identical in the vertebrates. This simplifies construction of vertebrate variants for producing the population and also simplifies breeding.
In an embodiment, the method comprises comprising selecting one or more antibody heavy chains (eg, as part of an antibodies) from said population or repertoire according to a desired characteristic (eg, affinity for biding an antigen).
In one example, the cell is a B-cell, hybridoma, ES cell or iPS cell. ES cells and iPS cells can be used to develop corresponding non-human vertebrates (vertebrates of the invention).
In an embodiment, the vertebrate species is selected from human, mouse, rat, rabbit, guinea pig, chicken, a fish, a bird, a reptile, a Camelid, bovine, chimpanzee, a non-human primate and a primate.
In an embodiment, the vertebrate is a mouse or rat.
Aspects of the invention are as follows:—
It will be understood that particular embodiments described herein are shown by way of illustration and not as limitations of the invention and (unless the context states otherwise) embodiments can be applied to any of the configurations of the invention described herein. The principal features of this invention can be employed in various embodiments without departing from the scope of the invention. Those skilled in the art will recognize, or be able to ascertain using no more than routine study, numerous equivalents to the specific procedures described herein. Such equivalents are considered to be within the scope of this invention and are covered by the claims. All publications and patent applications mentioned in the specification are indicative of the level of skill of those skilled in the art to which this invention pertains. All publications and patent applications are herein incorporated by reference to the same extent as if each individual publication or patent application was specifically and individually indicated to be incorporated by reference. The use of the word “a” or “an” when used in conjunction with the term “comprising” in the claims and/or the specification may mean “one,” but it is also consistent with the meaning of “one or more,” “at least one,” and “one or more than one.” The use of the term “or” in the claims is used to mean “and/or” unless explicitly indicated to refer to alternatives only or the alternatives are mutually exclusive, although the disclosure supports a definition that refers to only alternatives and “and/or.” Throughout this application, the term “about” is used to indicate that a value includes the inherent variation of error for the device, the method being employed to determine the value, or the variation that exists among the study subjects.
As used in this specification and claim(s), the words “comprising” (and any form of comprising, such as “comprise” and “comprises”), “having” (and any form of having, such as “have” and “has”), “including” (and any form of including, such as “includes” and “include”) or “containing” (and any form of containing, such as “contains” and “contain”) are inclusive or open-ended and do not exclude additional, unrecited elements or method steps
The term “or combinations thereof” as used herein refers to all permutations and combinations of the listed items preceding the term. For example, “A, B, C, or combinations thereof” is intended to include at least one of: A, B, C, AB, AC, BC, or ABC, and if order is important in a particular context, also BA, CA, CB, CBA, BCA, ACB, BAC, or CAB. Continuing with this example, expressly included are combinations that contain repeats of one or more item or term, such as BB, AAA, MB, BBC, AAABCCCC, CBBAAA, CABABB, and so forth. The skilled artisan will understand that typically there is no limit on the number of items or terms in any combination, unless otherwise apparent from the context.
Any part of this disclosure may be read in combination with any other part of the disclosure, unless otherwise apparent from the context.
All of the compositions, populations, vertebrates, antibodies, repertoires and/or methods disclosed and claimed herein can be made and executed without undue experimentation in light of the present disclosure. While the compositions and methods of this invention have been described in terms of preferred embodiments, it will be apparent to those of skill in the art that variations may be applied to the compositions and/or methods and in the steps or in the sequence of steps of the method described herein without departing from the concept, spirit and scope of the invention. All such similar substitutes and modifications apparent to those skilled in the art are deemed to be within the spirit, scope and concept of the invention as defined by the appended claims.
The present invention is described in more detail in the following non limiting prophetic Examples.
Methods of replacing endogenous antibody gene segments with corresponding human gene segments harboured by BACs are generally known in the art, eg, as disclosed in WO02066630, WO2011163311 & WO2011163314 (Regeneron). These methods use standard homologous recombination. As an alternative, recombinase mediated cassette exchange (RMCE; see WO2011004192 & WO2011158009 (Kymab Limited)) can be used with cre-lox-mediated, transposon-mediated (eg, using piggyBac) or homologous recombination-mediated deletion of endogenous non-mu constant region sequences, in order to replace endogenous non-mu with human constant region gene segments.
Modified BACs with human C gene segments, for example created using the methods described in Example 1, can be used to alter the genome of non-human mammals (eg, mice or rats). These alterations can result in an intact Ig heavy chain locus in which normal immunoglobulin gene segment recombination results in VDJ combinations which includes human VH, D and JH gene segments. An example of how to insert human V, D and J gene segments into a non-human vertebrate genome is disclosed in the Regeneron and Kymab PCT applications cited above. These methods are also useful for inserting human C region sequences.
Standard recombineering methods can be used to introduce human C gene segments and regions into BACs for use in inserting non-human vertebrate genomic DNA into the genome of a non-human vertebrate embryonic stem cell (ES cell), eg, using standard homologous recombination or RMCE. In one embodiment, as a first step a genomic fragment containing a human constant region nucleotide sequence (encoding one or more human constant domains) of a human genomic sequence is inserted into a bacterial artificial chromosome (BAC) vector by standard techniques. Preferably, such a BAC, which can range in size from 20-kb to 200-kb or more, can be isolated from commercially available libraries of BACs (eg, Caltec A, B, C or D human BAC library or RPCI-11 human BAC library, Invitrogen) by standard techniques including sequence searches or by hybridization to bacterial colonies containing BACs to identify those with a BAC of interest.
In the present example, a BAC is chosen that contains a human gamma-1 constant region nucleotide sequence comprising from the CH1 gene segment to the polyA immediately 5′ of M2 of a human genomic sequence. Using conventional techniques, the endogenous gamma-1 constant region gene segments can be replaced by the corresponding human gamma-1 constant region gene segments. In this example, two steps are required. The first step replaces the C domain coding exon of an endogenous C gene segment with a positive-negative selection operon, in this example, an operon encoding an ampicillin resistance gene (Amp) and a streptomycin-sensitizing ribosomal protein (rpsL). Certain strains of bacteria can be selected for the absence of the rpsL gene by resistance to streptomycin. Short stretches of DNA homologous to sequences flanking the endogenous C gene exon are placed 5′ and 3′ of the rpsL-Amp operon. In the presence of appropriate recombination factors per standard recombineering techniques (eg, homologous recombination) recombination between the operon fragment and the BAC will result in replacement of the endogenous C gene exon with the operon which are selected by resistance to ampicillin. The second step uses the same homologous sequences in order to replace the inserted operon with a corresponding human C gene segment. Successful integrations of the human gene segment are selected in bacteria that become resistant to streptomycin due to the loss of the operon, specifically the rpsL portion.
In this example, the two step process as described can be repeated for each of the endogenous C gene segments until the desired endogenous non-mu constant region has been humanised by replacement of endogenous constant region gene segments with human counterparts. The method can be used similarly to replace an entire endogenous non-mu constant region (including gene segments and inter-gene segment sequences) with the corresponding human non-mu constant region sequence; or just the endogenous C gene segments of the non-mu constant region can be placed (leaving endogenous inter-gene segment sequences in place between the human C gene segments).
As is standard, genetically-manipulated stem cells can be inserted into blastocysts and implanted into foster mothers in order to give rise to live-born progeny animals bearing human C gene segments in heavy chain loci according to the invention. Standard breeding can yield progeny that are homozygous for the heavy chain locus of the invention and in which endogenous heavy chain expression (ie, chains comprising endogenous variable regions) has been inactivated using conventional techniques.
As mentioned above, one technique to integrate modified BACs with human C gene segments into a genome is sequential recombinase mediated cassette exchange (sRMCE). The technique is described in WO2011004192 (Kymab Limited), which is incorporated here in its entirety by reference.
sRMCE provides for a locus modified with a ‘landing pad’ inserted at a specific location. This insertion can either be de novo via homologous recombination or as a consequence of a previous BAC insertion. In this example, the landing pad is inserted in the mouse IgH locus (in a mouse ES cell) 3′ of the mouse C-mu region. In the present example, the insertion is between the mouse C-mu and mouse C-gamma regions (eg, between mouse Cmu and Cdelta or between mouse Cdelta and mouse gamma-1). Using standard sRMCE with serial BACs, a human gamma-1 constant region is built up in the genome of the ES cell (and optionally the mouse gamma-1 constant region or all mouse non-mu constant regions are deleted or replaced similarly with the corresponding human constant region sequences). In another example, serial BACs are used with sRMCE to insert the entire human sequence from the human delta or gamma-3 constant region to (and including) the human gamma A2 constant region. The mouse constant region from delta or gamma-1 to (and including) alpha is deleted (or just the mouse gamma constant regions are deleted). BAC insertion via SRMCE techniques are also used for the addition of human VH, DH and J gene segments immediately downstream of the 3′-most mouse JH gene segment. Endogenous mouse VDJ is inactivated or deleted.
An alternative embodiment is to replace the endogenous mouse C gamma-1 with a ‘landing pad’ via homologous recombination. Using standard sRMCE a construct containing human C gamma-1 exons 1 to 4, fused to mouse C gamma-1 transmembrane and cytoplasmic exons, replaces the endogenous C gamma-1 segments. The construct is assembled by PCR from human and mouse BACS exploiting a conserved SPGK amino acid motif at the 3′ end of exon 4 in both human and mouse C gamma-1, which aids construction using PCR. The rationale for using a chimeric C gamma-1 construct is that the secretory form of IgG1 is fully human whilst the membrane-bound form of IgG1 maintains normal mouse signalling.
A further embodiment would be to use the same landing pad and a similar human-mouse C gamma-1 construct described previously, but in this example the construct lacks human C gamma-1 exon 1 and so ablates heavy and light chain pairing, thus a heavy-chain only IgG1 is expressed.
ES cell clones with correct insertions are selected from a pool of clones without insertions or with non-productive insertions by resistance to puromycin as described in WO2011004192. Resistance to puromycin results from the juxtaposition of an active promoter element, PGK, with the puroTK coding region. Correct insertions are verified by standard techniques including PCR of junctions, PCR of internal elements, Southern blotting, comparative genomic hybridization (CGH), sequencing and etc. In the example, as described in WO2011004192, correct lox2272-lox2272 and loxP-loxP recombination also results in two intact sets of piggyBac elements that did not exist prior to insertion. An intact piggyBac element is comprised of a set of inverted repeats which are depicted in the figure by “PB5′” and “PB3′”. An appropriated oriented set of piggyBac elements are the substrate of piggyBac transposase which can catalyse recombination between the elements, resulting in deletion of intervening sequences as well as both elements. The DNA remaining after a piggyBac transposition is left intact and is lacking any remnant of the piggyBac element. In the example, ES cell clones with successful piggyBac transposition are selected by loss of the active puroTK element which renders the cells resistant to the drug FIAU.
In an alternative method, it is possible to use standard homologous recombination using BACs instead of RMCE (eg, see the techniques disclosed in the Regeneron and Ablexis PCT applications mentioned above). In this case, vectors would be constructed in which each vector comprises a stretch of genomic human constant region DNA flanked by homology arms. The homology arms would have the sequence of the DNA in the recipient ES cell genome that flanks the insertion site (for example, flanking a mouse constant region sequence to be replaced by insertion of the human DNA). Using serial homologous recombination steps (optionally using BACS with overlapping homology arms as described in WO2009076464) the human constant region(s) can be built up in a process that replaces mouse constant region DNA. Alternatively, insertion of human DNA can be in a separate step from deletion of mouse constant region DNA (eg, using site-specific recombination such as cre-lox or transposon-mediated deletion such as using piggyBac).
The final product is an ES cell whose genome comprises a transgenic IgH locus with a plurality of human VH, D and JH gene segments upstream of a mouse S-mu switch, mouse mu constant region, a gamma switch (optionally the mouse S-gamma is retained, or the human S-gamma can be inserted together with the other human gamma constant region sequences) and a human gamma constant region (eg, at least a human gamma-1 constant region). Expression of mouse variable regions is inactivated (eg, by inversion of the mouse V, D, J as described in WO2011004192 or by deletion of all or part (eg, the J gene segments) of the mouse IgH variable region gene segments. Using standard techniques progeny mice are developed from the transgenic ES cells (the mice being preferably homozygous for the transgenic heavy chain locus). As is well known to those skilled in the art, an ES cell clone can be used to create a line of genetically modified mice via injection of said cells into a mouse blastocyst embryo, transferring the injected embryo to a suitable recipient and breeding the chimeric offspring that result. The modified gene locus can be propagated through breeding and made either heterozygous or homozygous depending on the genetic cross.
The human variable region gene segments are positioned such that they can participate in the recombination events associated with B cell maturation yielding VDJ gene segments and mouse C-mu constant domains. Isotype switching to a human constant region (eg, C gamma-1) will yield transcripts that encode fully human, mature heavy chains comprising human variable regions (with somatic hypermutation caused by mouse AID) and human constant domains. Productive transcripts will be expressed by the progeny mice (ie, the mouse's in vivo antibody-producing machinery is harnessed to select for productive transcripts that can be expressed) and the skilled person will know at the outset that all gamma-1 type chains will be human (where the heavy chain loci have been humanised to include human gamma-1 constant region and exclude mouse gamma-1 constant region). Commercially-available antibodies can be used to select and isolated specific human IgG isotypes (eg, rabbit anti-human IgG1, Catalogue Number: AP20578PU-N from Acris Antibodies GmbH; mouse anti-human IgG2, Catalogue Number: AM08152AP-N from Acris Antibodies GmbH; mouse anti-human IgG3, Catalogue Number: MCA516P or sheep-anti human Ig3, Catalogue Number: AP05355HR-N from AbD Serotec; mouse anti-human IgG4, Catalog NumberMCA2098P from AbD Serotec). For example, progeny mice are immunised with a human target antigen or a viral or bacterial antigen and IgG1 antibodies are selected for antigen binding isolated. These will have fully human heavy chains and be specific for the target antigen. If the progeny mice are engineered (using standard techniques, eg, as disclosed in the Kymab Limited or Regeneron PCT applications disclosed above) to include humanised light chain loci (eg, kappa and/or lambda light chain loci in which the mouse constant and variable regions have been deleted or inactivated and there has been inserted human light chain variable region VL and JL gene segments and optionally also human constant regions) the isolated IgG1 antibodies will have fully human variable region and, if the light chain loci bear only human constant region genes, the IgG1 antibodies will be fully human, well expressed and selected by an in vivo system. Additionally, they will specifically bind target antigen when the mice have been immunised and IgG1 have been selected against said target. This represents a reliable and much simpler technique for obtaining fully human antibodies (or antibodies with fully human heavy chains) than as presently possible with the multi-step methods of the art which rely on in vitro manipulation and selection using antibody engineering to humanise antibodies.
In a variation, light chain expression is inactivated in progeny mice, eg, by deletion of the mouse kappa (and optionally also lambda) variable region or part thereof (eg, JL gene segments) or by deletion of kappa (and optionally also lambda) constant regions in the light chain loci. In this case, human gamma constant regions are inserted (eg, for all IgG subtypes, or at least for IgG1), in which the human CH1 gene segments (and optionally hinge regions) are omitted. In the mouse mu constant region, CH1 can be retained (eg, see WO2011072204, the disclosure of which is incorporated herein by reference). These mice produce heavy-chain only antibodies (H2 antibodies) lacking CH1 domains and devoid of light chains. These heavy-chain only antibodies are fully human (human variable and constant domains, eg human gamma-1 constant domains when the heavy chain loci in the mice have been humanised by insertion of human gamma-1 constant regions and inactivation or deletion of mouse gamma-1 constant regions). Following immmunisation with a human target antigen or a viral or bacterial antigen, heavy chain-only antibodies can be selected that are specific for the antigen of interest, fully human, well expressed and selected by an in vivo system.
| Number | Date | Country | Kind |
|---|---|---|---|
| 1207814.3 | May 2012 | GB | national |
| 1208708.6 | May 2012 | GB | national |
| 1216795.3 | Sep 2012 | GB | national |
This application is a Divisional application of U.S. application Ser. No. 16/353,870, filed on Mar. 14, 2019, which is a Continuation of U.S. application Ser. No. 14/498,685 filed Sep. 26, 2014, now U.S. Pat. No. 10,251,377, issued Apr. 9, 2019, which is a Continuation of PCT/GB2013/050683 filed Mar. 18, 2013, which claims priority to U.S. application Ser. No. 13/433,084 filed Mar. 28, 2012, U.S. application Ser. No. 13/434,361 filed Mar. 29, 2012, GB Application No. 1207814.3 filed May 4, 2012, GB Application No. 1208708.6 filed May 17, 2012 and GB Application No. 1216795.3 filed Sep. 20, 2012, the contents of all of which are herein incorporated by reference in their entirety. The present invention relates to the humanisation of antibodies and heavy chains in a way that produces useful human heavy chain repertoires by harnessing endogenous control of junctional mutation and affinity maturation in the context of desired constant regions in vivo in non-human vertebrate systems. To this end, the invention provides non-human vertebrates, cells, populations and methods useful for humanising chimaeric antibodies and heavy chains in vivo. Using the present invention it is possible straightforwardly and rapidly to obtain antigen-specific antibodies and heavy chains that are fully human (ie, comprising human variable and constant regions) and have undergone junctional mutation and affinity maturation in vivo by harnessing a mouse or other non-human vertebrate system. Furthermore, such antibodies and heavy chains are humanised—and selected—totally in vivo, and as such the present invention harnesses in vivo filtering for expressibility (and provides possibly for aspects of affinity and biophysical characteristics to be factored into in vivo selection) in the context of the desired human variable and constant region pairings. This is avoids problems of down-grading antibody characteristics when humanising the constant region of chimaeric antibodies and heavy chains in vitro. Thus, the present invention allows the skilled person to select antibodies and heavy chains directly in the format that they will be used for subsequent human therapeutic and prophylactic use.
| Number | Date | Country | |
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| Parent | 16353870 | Mar 2019 | US |
| Child | 17707060 | US |
| Number | Date | Country | |
|---|---|---|---|
| Parent | 14498685 | Sep 2014 | US |
| Child | 16353870 | US | |
| Parent | PCT/GB13/50683 | Mar 2013 | US |
| Child | 14498685 | US |
| Number | Date | Country | |
|---|---|---|---|
| Parent | 13434361 | Mar 2012 | US |
| Child | PCT/GB13/50683 | US | |
| Parent | 13433084 | Mar 2012 | US |
| Child | 13434361 | US |
