Patent Grant
9840695
The present invention relates to the modification of fructan biosynthesis in plants and, more particularly, to methods of manipulating fructan biosynthesis in photosynthetic cells, and to related nucleic acids and constructs.
The present invention also relates to increasing plant biomass and, more particularly, to methods of enhancing biomass yield and/or yield stability, including shoot and/or root growth in a plant, and to related nucleic acids and constructs.
Fructans are a type of water-soluble carbohydrate whose primary function is to provide a readily accessible energy reserve for plant growth. Fructans are associated with various advantageous characters in grasses, such as cold and drought tolerance, increased tiller survival, enhanced persistence, good regrowth after cutting or grazing, improved recovery from stress, early spring growth and increased nutritional quality.
Fructan synthesis and metabolism in grasses and cereals is complex. Fructans consist of linear or branched fructose chains attached to sucrose. The chain length of plant fructans ranges from three up to a few hundred fructose units. Different types of fructans can be distinguished based on the linkage types present. In perennial ryegrass three types of fructans have been identified: inulins, inulin neoseries and levan neoseries, with four fructosyltransferse (FT) enzymes involved in this fructan profile.
The enzyme 1-SST (sucrose:sucrose 1-fructosyltransferase) catalyses the first step in fructan biosynthesis while the remaining enzymes elongate the growing fructose chain (1-FFT: fructan:fructan 1-fructosyltransferase, 6G-FFT: 6-glucose fructosyltransferase, and 6-SFT: sucrose:fructose 6-fructosyltransferase). The enzymes 1-FEH or 6-FEH (fructoexohydrolase) reduce fructan chain length by releasing fructose molecules.
Bacteria use only one FT enzyme which contains both 1-SST and 1-FFT activities to synthesize high molecular weight fructan polymers. Most bacterial fructosyltransferases produce levan type fructan (levansucrases), which is characterized by β-2,6 linkages of fructose molecules, although inulosucrases that produce fructans of the inulin type (β-2,1 linkage) have been isolated from a few bacteria.
At least 3 bacterial levansucrases have been expressed in transgenic plants including, the SacB gene from Bacillus subtilis, the SacB gene from Bacillus amyloliquefaciens, and the FTF gene from Streptococcus mutans. Expression of these bacterial levansucrases in plants leads to the synthesis of very high molecular weight fructans of a DP of several thousands (for review see Cairns, 2003).
Fructans represent the major non-structural carbohydrate in 15% of plant species and play a key role in forage quality. Ruminant livestock grazing on high fructan diets show improved animal performance.
In grasses the level and composition of fructans has been increased in stems and leaf sheaths through the engineered expression of FT genes.
However, manipulating biochemical pathways by manipulating the activity of enzymes in the pathways may be difficult because of the ways in which the various enzymes and their substrates may interact.
Thus, it would be desirable to have improved methods of manipulating biochemical pathways, particularly in plants. For example, it would be desirable to have methods of manipulating fructan biosynthesis in plants, including forage grass species such as Lolium, Festuca, and Brachiaria; sugarcane and other grasses; and sorghum and other cereals such as wheat and maize; thereby facilitating the production of, for example:
Nucleic acid sequences encoding some of the enzymes involved in the fructan biosynthetic pathway have been isolated for certain species of plants. For example, PCT/AU01/00705 to the present applicants, describes fructosyltransferase homologues from Lolium and Festuca. However, there remains a need for materials useful in the modification of fructan biosynthesis in plants, and also to engineer fructan accumulation in different parts of the plant.
U.S. provisional patent application 61/097,008 describes constructs useful for modifying fructan biosynthesis in plants. However, those constructs preferably include a fusion gene encoding a translational fusion of two or more fructan biosynthetic enzymes, the genes making up the fusion preferably corresponding to plant fructan biosynthetic genes.
It is an object of the present invention to overcome, or at least alleviate, one or more of the difficulties or deficiencies associated with the prior art.
Applicants have found that it is possible to nutritionally enhance plants eg. forage grasses and/or to increase plant biomass by spatial reprogramming of the fructan-biosynthesis pathway in photosynthetic cells using a construct including a promoter or a functionally active fragment or variant thereof, operatively linked to a gene encoding a bacterial FT enzyme, or a functionally active fragment or variant thereof. Using this process it is possible to drive fructan accumulation in leaf blades, the plant organs that are primarily grazed by livestock, and which may not normally accumulate fructans. Thus, accumulation of fructans, especially those exhibiting a high degree of polymerization (‘high DP fructans’), provides more accessible nutrition for grazing animals. Fructans accumulate in the stems and leaf sheaths, with leaf fructans only forming during periods where CO2 assimilation outperforms growth. Forage grasses may be nutritionally enhanced by expressing fructan genes in photosynthetic cells where sucrose is synthesised, thus driving fructan accumulation preferentially in leaf blades and providing more energy to grazing livestock.
Thus, the present invention provides a method selected from of manipulating fructan biosynthesis in photosynthetic cells of a plant, and/or enhancing productivity of a biochemical pathway in a plant, said method comprising introducing into said plant an effective amount of a genetic construct comprising a promoter operatively linked to a nucleic acid encoding a bacterial fructosyltransferase (FT) enzyme.
A. AtRbcS::SPOR-SacB::NOS; B. AtRbcS::SPOR-Lsc::NOS C. AtRbcS:Lp1-SST-SacB::NOS and D. AtRbcS::Lp1-SST-Lsc::NOS.
A. TaRbcS::SPOR-SacB::TaRbcS and B. TaRbcS::SPOR-SacB::TaRbcS+AtMYB32::IPT::35S
A. TaRbcS::SPOR-Lsc::TaRbcS and B. TaRbcS::SPOR-Lsc::TaRbcS+AtMYB32::IPT::35S
A. TaRbcS::Lp1-SST-SacB::TaRbcS and B. TaRbcS::Lp1-SST-SacB::TaRbcS+AtMYB32::IPT::35S
A. TaRbcS::Lp1-SST-Lsc::TaRbcS and B. TaRbcS::Lp1-SST-Lsc::TaRbcS+AtMYB32::IPT::35S
Fructans in forage grasses contribute significantly to the readily available energy in the feed for grazing ruminant animals. The fermentation processes in the rumen require considerable readily available energy. The improvement of the readily available energy in the rumen can increase the efficiency of rumen digestion. An increased efficiency in rumen digestion leads to an improved conversion of the forage protein fed to the ruminant animal into milk or meat, and to a reduction in nitrogenous waste.
Applicants have also found that the methods of the present invention may be facilitated by reprogramming photosynthetic cells for extended life, for example by delaying leaf senescence, to help increase plant biomass.
Applicants have found that a construct including a gene encoding a bacterial FT gene or functionally active fragment or variant thereof, may give superior results to a construct including a fusion gene encoding a translational fusion of two or more fructan biosynthetic enzymes. Use of a bacterial FT gene, for example containing both 1-SST and 1-FFT activities, may be technically less difficult than fusing separate genes, and may result in a construct that is more readily introduced into plants and/or performs better than a construct including fused genes.
For example, by expressing a bacterial FT gene, for example containing both 1-SST and 1-FFT activities, problems associated with differences in the expression patterns of these genes independently integrated into the plant genome may be alleviated, resulting in conversion of the sucrose molecules directly to fructans, those exhibiting a low degree of polymerisation (‘low DP fructans’) and a high degree of polymerization (‘high DP fructans’). Furthermore, the FT protein may form a metabolic channel for the efficient biosynthesis of fructans.
Expression of FT genes in photosynthetic cells leading to the accumulation of low and high DP fructans in photosynthetic cells may lead to a release from inhibition mechanisms of photosynthesis, facilitating solar energy capture and increased CO2 fixation.
Thus, applicants have found that reprogramming photosynthetic cells for extended life and enhanced fructan biosynthesis facilitates solar energy capture and increases plant biomass production including shoot and/or root growth.
Furthermore, since accumulation of low and high DP fructans has been associated with plant's tolerance to abiotic stress such as cold and drought; and since enhanced root growth and delayed leaf senescence has also been implicated in plant's tolerance of drought stress, reprogramming photosynthetic cells for extended life and enhanced fructan biosynthesis may facilitate yield stability and plants' tolerance of abiotic stresses.
Accordingly, in one aspect, the present invention provides a method of manipulating fructan biosynthesis in photosynthetic cells of a plant, said method including introducing into said plant an effective amount of a genetic construct including a promoter, or a functionally active fragment or variant thereof, operatively linked to a nucleic acid encoding a bacterial fructosyltransferase (FT) enzyme, or a functionally active fragment or variant thereof.
By ‘manipulating fructan biosynthesis’ is generally meant increasing fructan biosynthesis in a transformed plant relative to an untransformed control plant. However, for some applications it may be desirable to reduce or otherwise modify fructan biosynthesis in the transformed plant relative to the untransformed control plant. For example, it may be desirable to increase or decrease the activity of certain enzymes in the fructan biosynthetic pathway, in the transformed plant relative to the untransformed control plant.
By ‘photosynthetic cells’ is meant those cells of a plant in which photosynthesis takes place. Such cells generally contain the pigment chlorophyll and are otherwise known as green cells. Most photosynthetic cells are contained in the leaves of plants. Preferably, the genetic construct of the present invention is expressed in bundle sheath cells, more preferably in mesophyll and/or parenchymatous bundle sheath cells.
By ‘an effective amount’ is meant an amount sufficient to result in an identifiable phenotypic trait in said plant, or in a plant, plant seed or other plant part derived therefrom. Such amounts can be readily determined by an appropriately skilled person, taking into account the type of plant, the route of administration and other relevant factors. Such a person will readily be able to determine a suitable amount and method of administration. See, for example, Maniatis et al, Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Laboratory, Cold Spring Harbor, the entire disclosure of which is incorporated herein by reference.
By ‘genetic construct’ is meant a recombinant nucleic acid molecule.
By a ‘promoter’ is meant a nucleic acid sequence sufficient to direct transcription of an operatively linked nucleic acid sequence.
By ‘operatively linked’ is meant that the nucleic acid(s) and a regulatory sequence, such as a promoter, are linked in such a way as to permit expression of said nucleic acid under appropriate conditions, for example when appropriate molecules such as transcriptional activator proteins are bound to the regulatory sequence. Preferably an operatively linked promoter is upstream of the associated nucleic acid.
By ‘upstream’ is meant in the 3′->5′ direction along the nucleic acid.
By ‘nucleic acid’ is meant a chain of nucleotides capable of carrying genetic information. The term generally refers to genes or functionally active fragments or variants thereof and or other sequences in the genome of the organism that influence its phenotype. The term ‘nucleic acid’ includes DNA (such as cDNA or genomic DNA) and RNA (such as mRNA or microRNA) that is single- or double-stranded, optionally containing synthetic, non-natural or altered nucleotide bases, synthetic nucleic acids and combinations thereof.
By a ‘nucleic acid encoding a bacterial fructosyltransferase (FT) enzyme’ or ‘bacterial fructosyl transferase gene’ is meant a nucleic acid encoding an enzyme normally present in a bacterium which catalyses the synthesis of oligo- and/or polyfructans by transferring fructosyl moieties from sucrose-containing saccharides to acceptor molecules. The bacterial FT enzyme may include levansucrase activity and/or produce levan type fructan. The bacterial FT enzyme may include inulosucrase activity and/or produce inulin type fructan. A preferred bacterial FT includes both sucrose:sucrose 1-fructosyltransferase (1-SST) and fructan:fructan 1-fructosyltransferase (1-FFT) enzymatic activities. A SacB, Lsc or FTF gene may be used. A SacB or Lsc gene is particularly preferred.
By ‘functionally active fragment or variant’ in relation to a promoter is meant that the fragment or variant (such as an analogue, derivative or mutant) is capable of directing transcription of an operatively linked nucleic acid. Such variants include naturally occurring allelic variants and non-naturally occurring variants. Additions, deletions, substitutions and derivatizations of one or more of the nucleotides are contemplated so long as the modifications do not result in loss of functional activity of the fragment or variant. Preferably the functionally active fragment or variant has at least approximately 80% identity to the relevant part of the above mentioned sequence to which the fragment or variant corresponds, more preferably at least approximately 90% identity, even more preferably at least approximately 95% identity, most preferably at least approximately 98% identity. Preferably the fragment has a size of at least 20 nucleotides, more preferably at least 50 nucleotides, more preferably at least 100 nucleotides, more preferably at least 200 nucleotides, more preferably at least 300 nucleotides.
By ‘functionally active’ in relation to the nucleic acid encoding a bacterial FT enzyme is meant that the fragment or variant (such as an analogue, derivative or mutant) is capable of manipulating fructan biosynthesis in a plant by the method of the present invention, for example by being translated into an enzyme that is able to participate in the fructan biosynthetic pathway. Such variants include naturally occurring allelic variants and non-naturally occurring variants. Additions, deletions, substitutions and derivatizations of one or more of the nucleotides are contemplated so long as the modifications do not result in loss of functional activity of the fragment or variant. Preferably the functionally active fragment or variant has at least approximately 80% identity to the relevant part of the above mentioned sequence to which the fragment or variant corresponds, more preferably at least approximately 90% identity, even more preferably at least approximately 95% identity, most preferably at least approximately 98% identity. Such functionally active variants and fragments include, for example, those having conservative nucleic acid changes.
By ‘conservative nucleic acid changes’ is meant nucleic acid substitutions that result in conservation of the amino acid in the encoded protein, due to the degeneracy of the genetic code and/or in conservative amino acid substitutions of one or more residues in the corresponding amino acid sequence.
By ‘conservative amino acid substitutions’ is meant the substitution of an amino acid by another one of the same class, the classes being as follows:
Other conservative amino acid substitutions may also be made as follows:
Particularly preferred fragments and variants include one or more conserved sucrose binding/hydrolysis domains. Examples of such domains are shown in
Particularly preferred fragments and variants include a catalytic core. By a “catalytic core” is meant an internal region of the polypeptide excluding signal peptide and N- and C-terminal variable regions, which contains conserved sucrose binding and/or hydrolysis domains. An example of a catalytic core is shown in
Particularly preferred fragments and variants include those lacking a signal peptide. By a “signal peptide” is meant an N-terminal signal sequence. An example of a signal peptide is shown in
Particularly preferred fragments and variants have codon usage adapted for plants, including the start of translation for monocots and dicots.
Particularly preferred fragments and variants have cryptic splice sites and/or RNA destabilizing sequence elements inactivated or removed.
Preferably, the nucleic acid encoding a bacterial FT is isolated from or corresponds to a gene or genes from a bacterial species selected from the group consisting of Bacillus, Lactobacillus and Streptococcus, including Bacillus subtilis, Bacillus amyloliquefaciens, Lactobacillus johnsonii and Streptococcus mutans. Even more preferably, the nucleic acid encoding a bacterial FT enzyme is isolated from or corresponds to a SacB gene from Bacillus subtilis or Bacillus amyloliquefaciens, a Lsc gene from Lactobacillus johnsonii or a FTF gene from Streptococcus mutans.
In a particularly preferred embodiment the SacB gene includes a sequence selected from the group consisting of the sequence shown in
In a particularly preferred embodiment the Lsc gene includes a sequence selected from the group consisting of the sequence shown in
Transgenic plants expressing bacterial levansucrases have been reported, in some instances, to display aberrant developmental phenotypes. While applicants do not wish to be restricted by theory, this may arise from inadequate compartmentalization of the levansucrase enzymes and fructan polymers. Cytosolic expression of a bacterial SacB gene in transgenic tobacco and potato plants was shown to be particularly disruptive to plant development (Caimi et al., 1997). However, plants expressing a bacterial fructosyltransferase fused to vacuole-targeting signals accumulate fructans with no discernible effect on plant development (Ebskamp et al., 1994, Ye et al. 2001).
To reduce the possibility of aberrant developmental phenotypes the bacterial FT gene may be modified to alter its targeting signal sequence to direct the bacterial FT proteins to compartments where high fructan levels exist.
More particularly, a chimeric sequence may be created, whereby the N-signal peptide of the bacterial FT gene may be removed and replaced by a sub-cellular targeting sequence, preferably a vacuolar targeting sequence.
In a preferred embodiment, the vacuolar targeting sequence may be from or correspond to a gene encoding a preprosporamin protein, such as SPOR531 of sweet potato.
In a particularly preferred embodiment, the vacuolar targeting sequence may include a sequence selected from the group consisting of the sequence shown in bold underline in
In a particularly preferred embodiment the nucleic acid encoding the bacterial FT enzyme may be a SPOR:SacB chimeric sequence. Preferably the SPOR:SacB chimeric sequence includes a sequence selected from the group consisting of the sequence shown in
In a particularly preferred embodiment the nucleic acid encoding the bacterial FT enzyme may be a SPOR:Lsc chimeric sequence. Preferably, the SPOR:Lsc chimeric sequence includes a sequence selected from the group consisting of the sequence shown in
In a particularly preferred embodiment, the genetic construct includes a sequence selected from the group consisting of the sequences shown in
In another preferred embodiment, a chimeric sequence may be is created, whereby the N-signal peptide of the bacterial FT gene may be removed and replaced by a transmembrane domain of a fructosyltransferase enzyme such as 1-SST.
In a particularly preferred embodiment, the transmembrane domain includes a sequence selected from the group consisting of the sequence shown in underline in
In a particularly preferred embodiment, the genetic construct includes a sequence selected from the group consisting of the sequences shown in
By a ‘chimeric sequence’ is meant a hybrid produced recombinantly by expressing a fusion gene including two or more linked nucleic acids which originally encoded separate proteins, or functionally active fragments or variants thereof.
By a ‘fusion gene’ is meant that two or more nucleic acids are linked in such a way as to permit expression of the fusion protein, preferably as a translational fusion. This typically involves removing the stop codon from a nucleic acid sequence coding for a first protein, then appending the nucleic acid sequence of a second protein in frame. The fusion gene is then expressed by a cell as a single protein. The protein may be engineered to include the full sequence of both original proteins, or a functionally active fragment or variant of either or both.
The genetic construct may also include a nucleic acid sequence encoding a linker between the two linked nucleic acids. A ‘linker’ is any chemical, synthetic, carbohydrate, lipid, polypeptide molecule (or combination thereof) positioned between and joined to two adjacent active fragments in a fusion protein. A preferred linker of the invention is a flexible linker, such as a polypeptide chain consisting of one or more amino acid residues joined by amino acid bonds to the two active fragments. For example, a (Gly4 Ser)3 linker may be positioned between the two active fragments in the fusion protein.
The promoter used in the constructs and methods of the present invention may be a constitutive, tissue specific or inducible promoter. In a preferred embodiment, the promoter may be a light-regulated promoter, more preferably a photosynthetic promoter. By a ‘light regulated promoter’ is meant a promoter capable of mediating gene expression in response to light stimulus. By a ‘photosynthetic promoter’ is meant a promoter capable of mediating expression of a gene encoding a protein involved in a photosynthetic pathway in plants.
Less fructans accumulate in mature leaf blades than in leaf sheaths and stems. In order to specifically increase the level of fructans in leaf blades, a strategic approach has been devised that co-ordinately expresses fructan biosynthesis genes in photosynthetic cells. While applicants do not wish to be restricted by theory, the use of light-regulated or photosynthetic promoters may provide the following advantages:
Particularly preferred light-regulated promoters include a ribulose-1,5-bisphosphate carboxylase/oxygtenase small subunit (RbcS) promoter and a chlorophyll a/b binding protein (CAB) promoter, and functionally active fragments and variants thereof.
The light-regulated promoter may be from any suitable plant species including monocotyledonous plants [such as maize, rice, wheat, barley, sorghum, sugarcane, energy cane, forage grasses (e.g. Festuca, Lolium, Brachiaria, Paspalum, Pennisetum), bioenergy grasses (e.g. switchgrass, Miscanthus)], dicotyledonous plants (such as Arabidopsis, soybean, canola, cotton, alfalfa and tobacco) and gymnosperms.
For transformation of monocots, preferably the light-regulated promoter is isolated from or corresponds to a promoter from a monocot species, more particularly a Triticum or Lolium species, even more particularly Triticum aestivum or Lolium perenne.
For transformation of dicots, preferably the light-regulated promoter is isolated from or corresponds to a promoter from a dicot species, more particularly an Arabidopsis species, even more particularly Arabidopsis thaliana.
In a particularly preferred embodiment, the RbcS promoter includes a sequence selected from the group consisting of the sequence shown in lower case italics in any one of
In another particularly preferred embodiment, the RbcS promoter includes a sequence selected from the group consisting of the sequence shown in lower case italics in any one of
The genetic constructs of the present invention may be introduced into the plants by any suitable technique. Techniques for incorporating the genetic constructs of the present invention into plant cells (for example by transduction, transfection, transformation or gene targeting) are well known to those skilled in the art. Such techniques include Agrobacterium-mediated introduction, Rhizobium-mediated introduction, electroporation to tissues, cells and protoplasts, protoplast fusion, injection into reproductive organs, injection into immature embryos and high velocity projectile introduction to cells, tissues, calli, immature and mature embryos, biolistic transformation, Whiskers transformation, and combinations thereof. The choice of technique will depend largely on the type of plant to be transformed, and may be readily determined by an appropriately skilled person.
Cells incorporating the genetic constructs of the present invention may be selected, as described below, and then cultured in an appropriate medium to regenerate transformed plants, using techniques well known in the art. The culture conditions, such as temperature, pH and the like, will be apparent to the person skilled in the art. The resulting plants may be reproduced, either sexually or asexually, using methods well known in the art, to produce successive generations of transformed plants.
The methods of the present invention may be applied to a variety of plants, including monocotyledons [such as grasses (e.g. forage and bioenergy grasses including perennial ryegrass, tall fescue, Italian ryegrass, red fescue, reed canarygrass, big bluestem, cordgrass, napiergrass, wildrye, wild sugarcane, Miscanthus, switchgrass), corn or maize, rice, wheat, barley, sorghum, sugarcane, rye, oat) and energy crops (e.g. energy cane, energy sorghum)], dicotyledons [such as Arabidopsis, tobacco, soybean, canola, alfalfa, potato, cassava, clovers (e.g. white clover, red clover, subterranean clover), vegetable brassicas, lettuce, spinach] and gymnosperms.
In a further aspect of the present invention, there is provided a genetic construct capable of manipulating fructan biosynthesis in photosynthetic cells of a plant, said genetic construct including a light-regulated promoter, or functionally active fragment or variant thereof, operatively linked to a nucleic acid encoding a bacterial FT enzyme, or a functionally active fragment or variant thereof.
In a preferred embodiment, the genetic construct according to the present invention may be a vector.
By a ‘vector’ is meant a genetic construct used to transfer genetic material to a target cell.
The vector may be of any suitable type and may be viral or non-viral. The vector may be an expression vector. Such vectors include chromosomal, non-chromosomal and synthetic nucleic acid sequences, eg. derivatives of plant viruses; bacterial plasmids; derivatives of the Ti plasmid from Agrobacterium tumefaciens; derivatives of the Ri plasmid from Agrobacterium rhizogenes; phage DNA; yeast artificial chromosomes; bacterial artificial chromosomes; binary bacterial artificial chromosomes; vectors derived from combinations of plasmids and phage DNA. However, any other vector may be used as long as it is replicable or integrative or viable in the plant cell.
In a preferred embodiment of this aspect of the invention, the genetic construct may further include a terminator; said promoter, gene and terminator being operably linked.
The promoter, gene and terminator may be of any suitable type and may be endogenous to the target plant cell or may be exogenous, provided that they are functional in the target plant cell.
A variety of terminators which may be employed in the genetic constructs of the present invention are also well known to those skilled in the art. The terminator may be from the same gene as the promoter sequence or a different gene. Particularly suitable terminators are polyadenylation signals, such as the (CaMV)35S polyA and other terminators from the nopaline synthase (nos) and the octopine synthase (ocs) genes.
The genetic construct, in addition to the promoter, the gene and the terminator, may include further elements necessary for expression of the nucleic acid, in different combinations, for example vector backbone, origin of replication (ori), multiple cloning sites, spacer sequences, enhancers, introns (such as the maize Ubiquitin Ubi intron), antibiotic resistance genes and other selectable marker genes [such as the neomycin phosphotransferase (nptII) gene, the hygromycin phosphotransferase (hph) gene, the phosphinothricin acetyltransferase (bar or pat) gene], and reporter genes (such as beta-glucuronidase (GUS) gene (gusA)]. The genetic construct may also contain a ribosome binding site for translation initiation. The genetic construct may also include appropriate sequences for amplifying expression.
In particular, the genetic construct may further include a nucleic acid sequence encoding a linker between the two linked nucleic acids, as hereinbefore described.
Those skilled in the art will appreciate that the various components of the genetic construct are operably linked, so as to result in expression of said nucleic acid. Techniques for operably linking the components of the genetic construct of the present invention are well known to those skilled in the art. Such techniques include the use of linkers, such as synthetic linkers, for example including one or more restriction enzyme sites.
Preferably, the genetic construct is substantially purified or isolated. By ‘substantially purified’ is meant that the genetic construct is free of the genes, which, in the naturally-occurring genome of the organism from which the nucleic acid or promoter of the invention is derived, flank the nucleic acid or promoter. The term therefore includes, for example, a genetic construct which is incorporated into a vector; into an autonomously replicating plasmid or virus; or into the genomic DNA of a prokaryote or eukaryote; or which exists as a separate molecule (eg. a cDNA or a genomic or cDNA fragment produced by PCR or restriction endonuclease digestion) independent of other sequences. It also includes a genetic construct which is part of a hybrid gene encoding additional polypeptide sequence. Preferably, the substantially purified genetic construct is at least approximately 90% pure, more preferably at least approximately 95% pure, even more preferably at least approximately 98% pure.
The term “isolated” means that the material is removed from its original environment (eg. the natural environment if it is naturally occurring). For example, a naturally occurring nucleic acid present in a living plant is not isolated, but the same nucleic acid separated from some or all of the coexisting materials in the natural system, is isolated. Such nucleic acids could be part of a vector and/or such nucleic acids could be part of a composition, and still be isolated in that such a vector or composition is not part of its natural environment.
As an alternative to use of a selectable marker gene to provide a phenotypic trait for selection of transformed host cells, the presence of the genetic construct in transformed cells may be determined by other techniques well known in the art, such as PCR (polymerase chain reaction), Southern blot hybridisation analysis, histochemical assays (e.g. GUS assays), thin layer chromatography (TLC), northern and western blot hybridisation analyses.
Applicant has also found that the methods of the present invention may result in enhanced biomass in the transformed plant relative to an untransformed control plant. This enhanced biomass may in turn be used as a selection tool for identifying transformed plants. This has the advantage that in some circumstances there may be no need to include an antibiotic resistance or other marker to select for transformants, where subsequent removal of such markers (and for the creation of marker-free plants) may present difficulties.
By ‘enhancing biomass’ or ‘enhanced biomass’ is meant enhancement of, increase in, or increased stability of biomass yield, including shoot and/or root growth, in a transformed plant relative to an untransformed control plant. For example, one or more growth characteristics selected from the group consisting of total leaf area, cumulative leaf area, leaf growth dynamics (ie. number of leaves over time), number of shoots, number of tillers, number of roots, root mass or weight, shoot mass or weight, root length, shoot length, stolon length, number of tubers, tuber weight, number of flowers, number of fruits, number of seeds, seed weight, fruit weight, percentage of flowering plants and seed yield per flower or per area sown; may be enhanced, increased or more stable in a transformed plant relative to an untransformed control plant.
This technique is particularly applicable to plants that are substantially genetically uniform or genetically identical or exhibit small phenotype differences in biomass prior to transformation.
Accordingly, in a further aspect of the present invention, there is provided a method of enhancing biomass in a plant, said method including introducing into said plant an effective amount of a genetic construct including a promoter, or a functionally active fragment or variant thereof, operatively liked to a nucleic acid encoding a bacterial FT-enzyme, or a functionally active fragment or variant thereof. Preferably, the promoter is a light regulated promoter.
In a still further aspect of the present invention, there is provided a method of enhancing biomass in a plant, said method including introducing into said plant effective amount of
The genetic constructs may be introduced into the plant by any suitable technique, as hereinbefore described, and may be introduced concurrently, sequentially or separately.
Preferably the genetic construct capable of manipulating fructan biosynthesis is as hereinbefore described.
Preferably the genetic construct capable of manipulating senescence in the plant is capable of manipulating senescence in photosynthetic cells of the plant.
Preferably the genetic construct capable of manipulating senescence includes a myb gene promoter or modified myb gene promoter, or a functionally active fragment or variant thereof, operatively linked to a gene encoding an enzyme involved in biosynthesis of a cytokinin, or a functionally active fragment or variant thereof.
Suitable genetic constructs or vectors are described in International patent application PCT/AU01/01092 and U.S. patent application Ser. No. 11/789,526, the entire disclosures of which are incorporated herein by reference.
“Manipulating senescence” generally relates to delaying senescence in the transformed plant or cells or organs of the transformed plant, eg photosynthetic cells, relative to an untransformed control plant. However, for some applications it may be desirable to promote or otherwise modify senescence in the plant. Senescence may be promoted or otherwise modified for example, by utilizing an antisense gene.
The myb gene promoter may be of any suitable type. Preferably the myb gene promoter is a myb32 gene promoter. Preferably the myb gene promoter is from Arabidopsis, more preferably Arabidopsis thaliana. Most preferably the myb gene promoter includes a nucleotide sequence selected from the group consisting of the sequence shown in Sequence ID No: 1 of PCT/AU01/01092 (SEQ ID NO: 44) and functionally active fragments and variants thereof.
A suitable promoter is described in Li et al., Cloning of three MYB-like genes from Arabidopsis (PGR 99-138) Plant Physiology 121:313 (1999).
By a “modified myb gene promoter” is meant a promoter normally associated with a myb gene, which promoter is modified to delete or inactivate one or more root specific motifs and/or pollen specific motifs in said promoter.
Preferably the modified myb gene promoter is a modified myb32 gene promoter. Preferably the modified myb gene promoter is modified from the myb gene promoter from Arabidopsis, or more preferably Arabidopsis thaliana.
A suitable promoter which may be modified according to the present invention is described in Li et al., Cloning of three MYB-like genes from Arabidopsis (PER 99-138) Plant Physiology 121:313 (1999).
By a “root specific motif” is meant a sequence of 3-7 nucleotides, preferably 4-6 nucleotides, more preferably 5 nucleotides, which directs expression of any associated gene in the roots of a plant.
Preferably the root specific motif includes a consensus sequence ATATT or AATAT.
By a “pollen specific motif” is meant a sequence of 3-7 nucleotides, preferably 4-6 nucleotides, more preferably 4 or 5 nucleotides, which directs expression of an associated gene in the pollen of a plant.
Preferably the pollen specific motif includes a consensus sequence selected from the group consisting of TTTCT, AGAAA, TTCT and AGAA.
A root or pollen specific motif may be inactivated by adding, deleting, substituting or derivatizing one or more nucleotides within the motif, so that it no longer has the preferred consensus sequence.
Preferably the modified myb gene promoter includes a nucleotide sequence selected from the group consisting of the sequences show in Sequence ID Nos: 2, 3 and 4 of U.S. Ser. No. 11/789,526 (SEQ ID NOs: 45-47) and functionally active fragments and variants thereof. By a “gene encoding an enzyme involved in biosynthesis of a cytokinin” is meant a gene encoding an enzyme involved in the synthesis of cytokinins such kinetin, zeatin and benzyl adenine, for example a gene encoding isopentyl transferase (ipt), or ipt-like gene such as the sho gene (eg. from petunia). Preferably the gene is an isopentenyl transferase (ipt) gene or sho gene. In a preferred embodiment, the gene is from a species selected from the group consisting of Agrobacterium, more preferably Agrobacterium tumefaciens; Lotus, more preferably Lotus japonicus; and Petunia, more preferably Petunia hybrida.
Most preferably the gene includes a nucleotide sequence selected from the group consisting of the sequences shown in Sequence ID Nos: 5, 7 and 9 of U.S. Ser. No. 11/789,526 (SEQ ID NOs: 48-50), sequences encoding the polypeptides shown in Sequence ID Nos: 6, 8 and 10 of U.S. Ser. No. 11/789,526 (SEQ ID NOs: 51-53) and functionally active fragments and variants thereof.
The present invention also provides a method of selecting for transformed plants, said method including introducing into said plants an effective amount of a genetic construct including a promoter, or a functionally active fragment or variant thereof, operatively liked to a nucleic acid encoding a bacterial FT enzyme, or a functionally active fragment or variant thereof and selecting plants with enhanced biomass. Preferably the promoter is a light regulated promoter.
In a further aspect of the present invention there is provided a transgenic plant cell, plant, plant seed or other plant part with modified fructan biosynthetic characteristics or enhanced biomass relative to an untransformed control plant; said plant cell, plant, plant seed or other plant part including a genetic construct or vector according to the present invention.
By “modified fructan biosynthetic characteristics” is meant that the transformed plant exhibits increased fructan biosynthesis and/or contains increased levels of soluble carbohydrate relative to an untransformed control plant.
In a preferred embodiment the a transgenic plant cell, plant, plant seed or other plant part with enhanced biomass has an increase in biomass of at least approximately 15%, more preferably at least approximately 25%, more preferably at least approximately 35%, more preferably at least approximately 50% relative to an untransformed control plant.
For example, biomass may be increased by between approximately 15% and 500%, more preferably between approximately 25% and 300%, more preferably between approximately 35% and 200%, more preferably between approximately 50% and 100% relative to an untransformed control plant.
In a preferred embodiment, the transgenic plant cell, plant, plant seed or other plant part with modified fructan biosynthetic characteristics has an increase in soluble carbohydrate of least approximately 15%, more preferably at least approximately 25%, more preferably at least approximately 35%, more preferably at least approximately 50% relative to an untransformed control plant.
For example, soluble carbohydrates may be increased by between approximately 15% and 500%, more preferably between approximately 25% and 300%, more preferably between approximately 35% and 200%, more preferably between approximately 50% and 100% relative to an untransformed control plant.
Preferably the transgenic plant cell, plant, plant seed or other plant part is produced by a method according to the present invention.
The present invention also provides a transgenic plant, plant seed or other plant part derived from a plant cell of the present invention and including a genetic construct or vector of the present invention.
The present invention also provides a transgenic plant, plant seed or other plant part derived from a plant of the present invention and including a genetic construct or vector of the present invention.
Preferably, the transgenic plant cell, plant, plant seed or other plant part is a Lolium species, more preferably Lolium perenne or Lolium arundinaceum.
Preferably, the transgenic plant cell, plant, plant seed or other plant part is a cereal grain, more preferably a Triticum species, more preferably wheat (Triticum aestivum).
For example, the present invention enables the production of transgenic perennial ryegrass plants with increased fructans in leaf blades, vigorous growth and greater tolerance to abiotic stress, for improved nutrition for grazing animals.
The present invention also enables the production of transgenic wheat plants with increased fructans, vigorous growth, and tolerance to abiotic stress, for increased mass of usable carbohydrates, eg. for bio-fuel production or animal feed.
By ‘plant cell’ is meant any self-propagating cell bounded by a semi-permeable membrane and containing a plastid. Such a cell also requires a cell wall if further propagation is desired. Plant cell, as used herein includes, without limitation, algae, cyanobacteria, seeds suspension cultures, embryos, meristematic regions, callus tissue, leaves, roots, shoots, gametophytes, sporophytes, pollen and microspores.
By ‘transgenic’ is meant any cell which includes a DNA sequence which is inserted by artifice into a cell and becomes part of the genome of the organism which develops from that cell. As used herein, the transgenic organisms are generally transgenic plants and the DNA (transgene) is inserted by artifice into either the nuclear or plastidic genome.
The present invention will now be more fully described with reference to the accompanying examples and drawings. It should be understood, however, that the description following is illustrative only and should not be taken in any way as a restriction on the generality of the invention described above.
The bacterial levansucrase (SacB) and inulosucrase (Lsc) nucleotide and protein sequences are provided in
Outlines of these changes are indicated in the following example.
Targeting of Bacterial Ft Genes to Specific Cellular Compartments
To direct the bacterial FT genes away from the cytosol and to compartment where both sucrose and fructan accumulate the coding sequences of SacB and Lsc are modified with a putative vacuolar targeting sequence from the preprosporamin protein (SPOR531) of sweet potato (Ipomoea batatas). The propeptide of a precursor to sporamin is required for targeting of sporamin to the vacuole (Hattori et al., 1985). The vacuolar targeting information of sporamin is encoded in an amino-terminal propeptide and is indicated in
Sequence modification involves the removal of the N-signal peptide from both the SacB and Lsc bacterial fuctan biosynthesis genes and the addition of SPOR531 vacuolar targeting signal (
Prediction of subcellular localisation and topology of the modified proteins using the Secondary Structure Prediction of Membrane Proteins software SOSUI http://bp.nuap.nagoya-u.ac.jp/sosui/ indicates a transmembrane localization triggered by the vacuolar targeting signal (
Addition of Transmembrane Domains from Lp1-SST Protein to Bacterial FT Genes
The SOSUI software was also used to predict the secondary structure of the Lolium perenne 1-SST gene. This structure, indicating a transmembrane domain at the N terminus is indicated in
Sequence modification involves the removal of the N-signal peptide from both the SacB and Lsc bacterial fuctan biosynthesis genes and the addition of the Lp1-SST transmembrane domain (
Synthesis of Expression Constructs
Expression constructs utlising photosyntheic promoters, the modified bacterial fructan biosynthesis genes indicated in Example 2 and the NOS terminator sequence for transformation into dicot plants is artificially synthesised.
The use of a photosynthetic promoter expresses the genes in tissues that accumulate fructans, while the modified sequences target the protein to specific plant cell compartments.
The Ribulose-1,5-bisphosphate carboxylase/oxygenase Small subunit (RbcS) is a well-characterised light-regulated gene in higher plants. A 1700 bp fragment of the Arabidopsis thaliana Ribulose-1,5-bisphosphate carboxylase/oxygenase Small subunit (AtRbcS) promoter sequence has previously been cloned. Primers are designed to amplify a smaller fragment containing the TATA signal from the AtRbcS promoter for use in expression vectors.
The newly predicted sequences for the modified bacterial fructan biosynthetic genes are be artificially synthesised altering codon usage for expression in plants, as well as removing cryptic splice sites and RNA destabilizing sequence elements, to optimise their performance in the plant cell.
Generation of Constructs Containing Modified Bacterial FT Genes Driven by an Arabidopsis Photosynthetic Promoter for Transformation of Dicots
Each synthesised expression cassette is placed in a Gateway enabled pDONOR vector for recombination into the final destination vector for transformation into plants.
A Gateway enabled destination vector, containing the 35Sp:hph:35St selectable marker cassette has been generated, pPZP200_35Sp_hph_35St_R4/R3 (
Gateway LR recombination reactions produce the following destination vectors for transformation into dicots:
AtRbcS::SPOR-SacB::NOS (
AtRbcS::SPOR-Lsc::NOS (
AtRbcS::Lp1-SST-SacB::NOS (
AtRbcS::Lp1-SST-Lsc::NOS (
Synthesis of Expression Constructs
Expression constructs utilising the bread wheat photosyntheic promoter (TaRbcsp), the modified bacterial fructan biosynthesis genes, indicated in Example 2, and the TaRbcS terminator sequence for transformation into monocot plants are artificially synthesised. The use of a photosynthetic promoter expresses the genes in tissues that accumulate fructans, while the modified sequences target the protein to specific plant cell compartments.
The bread wheat (Triticum aestivum), TaRbcS regulatory sequences (promoter and terminator) have previously been cloned (Zeng, et al., 1995; Sasanuma, 2001). A 695 bp promoter fragment from sequence previously published containing the TATA signal from the TaRbcS gene (NCBI accession number AB042069) is amplified for use in expression vectors.
The newly predicted sequences for the modified bacterial fructan biosynthetic genes are artificially synthesised altering codon usage for expression in plants, as well as removing cryptic splice sites and RNA destabilizing sequence elements, to optimise their performance in the plant cell.
Using the methods outlined above expression cassettes are synthesised to generate transgenic plants that contain both fructan biosynthetic genes and the LXR™ technology. LXR™ technology is based on an expression cassette containing one candidate gene (IPT) for delayed leaf senescence under the control of the AtMYB32 gene promoter. The expression cassette AtMYB3p::IPT::35St is described in International patent application PCT/AU01/01092. The phenotype of transgenic LXR™ plants includes a decrease in leaf yellowing and chlorophyll loss associated with plant age leading to an increased photosynthetic ability resulting in improved tillering and vegetative biomass.
Integration of the two technologies leads to an increased expression of fructans via an extension of activation of the photosynthetic promoters and may have significant impact on the efficacy of a variety of applications by increasing the range of productivity in plants.
Generation of Constructs Containing Modified Bacterial FT Genes Driven by a Triticum Photosynthetic Promoter for Transformation of Monocots
Each synthesised expression cassette is placed in a Gateway enabled pDONOR vector for recombination into the final destination vector for transformation into plants.
A Gateway enabled destination vector, containing the Ubi::bar::NOS selectable marker cassette has been generated, pBS::Ubi::bar::NOS_R4/R3 (
TaRbcS::SPOR-SacB::TaRbcS (
TaRbcS::SPOR-SacB::TaRbcS+AtMYB32::IPT::35S (
TaRbcS::SPOR-Lsc::TaRbcS (
TaRbcS::SPOR-Lsc::TaRbcS+AtMYB32::IPT::35S (
TaRbcS::Lp1-SST-SacB::TaRbcS (
TaRbcS::Lp1-SST-SacB::TaRbcS+AtMYB32::IPT::35S (
TaRbcS::Lp1-SST-Lsc::TaRbcS (
TaRbcS::Lp1-SST-Lsc::TaRbcS+AtMYB32::IPT::35S (
This application claims the benefit of U.S. Provisional Application 61/173,272 filed Apr. 28, 2009 which application is incorporated herein by reference in its entirety. This application is related to U.S. Provisional Application No. 61/097,008 and the PCT application claiming priority therefrom, which applications are incorporated herein by reference in their entirety.
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