|Title of Invention||
A DNA FOR SUPRESSING THE EXPRESSION OF AN ENDOGENOUS GENE OF RICE
|Abstract||The present inventors presumed that the sdl gene was the C20 oxidase gene, and isolated and identified the rice counterpart of Arbidopsis C20 oxidase gene. As a result, it was revealed that the rice sdl gene encodes a novel C20 oxidase. Further studies showed that mutation in this gene led to plant semidwarfing. Utilization of the plant sdl gene is expected to increase the yield of plants, particularly useful agricultural crops and ornamental plants, to add aesthetic value to ornamental plants through dwarfing, and also to increase the yield and efficient breeding of dwarfed plants by marker selection.|
The present invention relates to a DNA for suppressing the expression of an endogenous gene for rice plant.
In 1956 in Taiwan, a new rice variety, "Taichung Native 1", gave a high yield that had not been observed with conventional indica varieties. "Taichung Native 1" was bred from a cross between a semidwarf local variety, "Dee-geo-woo-gen", and a disease-resistant gardening variety, "Tsai-yuang-chung". In the late 1960s, a semidwarf variety, "IR8", was similarly bred from a cross between the semidwarf variety "Dee-geo-woo-gen" and an Indonesian high-quality long-culm rice variety, "Peta", at the International Rice Research Institute (IRRI), Philippines. This variety was called "miracle rice", as it dramatically improved the yield per unit area. The spreading of "miracle rice" relieved the food crisis in Asia and gave rise to the "green revolution". The gene that contributed to the high yields of both Taichung Native 1 and IR8 is the semidwarf gene sdl derived from Dee-geo-woo-gen. However, to date, only the approximate chromosomal locus of the sdl gene has been determined (Maeda et al, Breeding Science 47: 317-320,1997).
In general, plants, particularly useful agricultural crops such as rice, must be
cultivated under well-fertilized conditions (i.e., nitrogen-rich conditions) if their yields
are to be enhanced. In such conditions however, plants become so tall that they are
apt to be blown down by typhoons and such, thereby resulting in the reduction of
yields. One method for resolving such problems is to dwarf plants and cultivate them
under well-fertilized conditions. The sdl gene dwarfs plants only slightly and does so
without reducing the number of tillers
or size of the grain, or decreasing the number of seeds. It also prevents plants from falling down under well-fertilized conditions and improves plant shape. In this manner, the sdl _gene results in phenotypes different from those induced by the already-known dwarf genes, dl and d61 (Ashikari M. et al., Proc. Natl. Acad. Sci. USA., 96: ,10284-10289, 1999; Yamamuro C. et al., Plant Cell, 12: 1591-1605, 2000). This improvement in resistance to falling down enables plant cultivation under fertilized conditions; likewise, the improvement of plant shape enhances substance producing capability and distribution ratio of assimilation products into grains and seeds. To date, utilizing these properties, many rice varieties, including IR64 having the largest rice'planted area in the world, have been conferred with phenotypes induced by the sdl gene through back cross to breed novel rice varieties.
On the other hand, with a recent explosive increase in population, grain yields need to be further increased by 50%, so there is an urgent need to breed varieties of various useful crops with high yields. Therefore, in order to increase the yield of various plants, useful agricultural crops, including rice in particular, it is advantageous to utilize the sdl gene that induces stable yield increases under fertilized conditions. However, the isolation and identification of the sdl gene of plants including rice has not yet been reported.
Disclosure of the Invention
The present invention was made in view of these circumstances. An objective of this invention is to provide the sdl gene involved in plant semidwarfing. Furthermore, another objective of the present invention is to provide a method for semidwarfing plants using the sdl gene.
Gibberellin (GA), a plant hormone, is involved in a number of growth processes such as germination, stem/leaf elongation, and formation of flower-buds. The GA synthesis pathway has been studied in detail, and some genes that encode enzymes catalyzing GA synthesis have been isolated from Arabidopsis, rice, maize,
pumpkin, and the like. (Hedden and Kamiya, Annu. Rev. Plant Physiol. Plant Mol. Biol. 48: 431-460, 1997). When genes involved in GA synthesis or signal transduction become aberrant, a plant is unable to utilize GA for its growth, and, thus, becomes dwarfed. In fact, many reports have shown that deficiencies in genes involved in GA synthesis or signal transduction cause dwarfed mutants (Hedden and Kamiya, Annu. Rev. Plant Physiol. Plant Mol. Biol. 48: 431-460, 1997). Thus, the present inventors postulated that GA was involved in semidwarfing of rice, and administered GA to an sdl mutant Dee-geo-woo-gen to examine the GA reactivity. As a'result, stem/leaf elongation of Dee-geo-woo-gen was caused by GA administration. Furthermore, C20 oxidase, a GA biosynthesis enzyme, catalyzes the following steps: GA53 - GA44 - GA19 - GA20 and GA12 - GA15 - GA24 - GA9 in the GA biosynthetic pathway. To date, C20 oxidase has been isolated from pumpkin, Arabidopsis, and rice (Lange et al., Proc. Natl. Acad. Sci. USA., 91: 8552-8556, 1994; Phillips et al., Plant physiol. 108: 1049-1057, 1995; Xu et al., Proc. Natl. Acad. Sci. USA., 92: 6640-6644, 1995; Toyomasu et al., Physiol. Plant. 99: 111-118, 1997), and at least three C20 oxidase genes have been reported to be present in the Arabidopsis genome (Phillips et al., Plant Physiol. 108: 1049-1057, 1995).
From the aforementioned knowledge, the present inventors presumed that the sdl gene is a gene involved in GA biosynthesis, in particular, that it is a C20 oxidase gene repeatedly present in plant genomes. If so, this explains why the rice sdl gene does not induce a dramatic dwarfing of plant shape. Therefore, the inventors first aimed to isolate and identify the rice counterpart of Arabidopsis C20 oxidase.
As a result, the present, inventors succeeded in isolating and identifying a novel rice GA C20 oxidase gene. Furthermore, the inventors examined whether the chromosomal locus of this gene is close to the rice sdl locus, and also whether the novel rice GA C20 oxidase gene is mutated in rice semidwarf varieties. In consequence, it was discovered that the chromosomal locus of
the gene is extremely close to that of the rice sdl. In addition, when the nucleotide sequences of the GA C20 oxidase genes in several sdl mutants comprising Dee-geo-woo-gen and corresponding wild types were determined and compared, such GA C20 oxidase genes were mutated in all sdl mutants examined. Therefore, it was revealed for the first time that the rice sdl gene is identical to a gene encoding a novel C20 oxidase, indicating that mutation of the plant sdl gene (C20 oxidase gene) would induce semidwarfing of plants.
The plant sdl gene can be used in the efficient breeding by marker selection. When a variety introduced with the sdl gene is prepared using the conventional cross breeding, for example, when Koshihikari, which is the most widely cultivated rice variety in Japan, is introduced with the sdl gene, it is necessary to prepare Fls by crossing Koshihikari with IR64 or such having the sdl gene, followed by backcrossing the Fls with Koshihikari repeatedly until all the chromosomes other than the sdl gene locus are substituted with those of Koshihikari. Isolation of the sdl gene permits the saving of a great deal of time and labor required for breeding since the use of the sdl gene as a molecular marker allows one to efficiently select individual plants having Koshihikari chromosomes substituted only with the sdl gene. Furthermore, the use of the plant sdl gene permits the production of plant transformants using molecular biological techniques, such as antisense and RNAi methods. It is also expected to enhance the yield of useful agricultural crops, including grains such as wheat, barley, and maize, vegetables, and fruit plants, and furthermore, provide aesthetic values to ornamental plants, such as foliage plants, through dwarfing, resulting in the production of novel varieties.
Accordingly the present invention provides a DNA encoding an RNA which is capable of suppressing the expression of an endogenous gene of rice polypeptide comprising the amino acid sequence of SEQ ID No:4.
Specifically, the present invention relates to the isolation and identification of a gene involved in plant semidwarfing,_and-semidwarfing of plants using the sdl gene, more specifically provides the following:  a DNA according to any one of (a) to (c) for semidwarfing a plant:
(a) a DNA encoding an antisense RNA complementary to a transcriptional product of a plant sdl gene;
(b) a DNA encoding an RNA having a ribozyme activity to specifically cleave the transcriptional product of the plant sdl gene; and
(c) a DNA encoding an RNA inhibiting expression of the plant sdl gene through co-suppression effects;
 the DNA of , wherein said plant sdl gene is the rice sdl gene;
 a vector comprising the DNA of  or ;
 a transformed plant cell retaining the DNA of  or  in an expressible state;
 the transformed plant cell of , wherein said plant is rice;
 a plant transformant comprising the transformed plant cell of  or ;
 a plant transformant that is a descendant or clone of the plant transformant of ;
 the plant transformant of  or , wherein said plant is rice;
 a breeding material of the plant transformant of any one of  to ;
 a method for producing the plant transformant of any one of  to , wherein said method comprises the steps of: introducing the DNA of  or  into a plant cell, and regenerating a plant body from said plant cell;
 a method for semidwarfing a plant, wherein said method comprises the step of suppressing the expression of the endogenous sdl gene in plant cells;
 the method of , wherein suppression of expression is achieved by introducing the DNA of  or  into a plant;
 the method of any one of  to , wherein said plant is rice; and
 a DNA encoding the rice sdl protein.
The present invention revealed that mutation of the plant sdl gene induces plant semidwarfing- Therefore, it is possible
to produce a semidwarf variety giving stable high yields under fertilized conditions by suppressing expression of the plant sdl gene.
In the context of the present invention, the term "plant semidwarfing" merely refers to a slight dwarfing of plant height without reducing the number*of tillers, the size of grains, or number of seeds. By this semidwarfing, the plant is conferred a resistance to falling-down under fertilized conditions and its shape is improved. As a result, a stable high yield can be obtained.
In the context of the present invention, the expression "plant sdl gene" refers to a gene encoding a plant C20 oxidase, and includes the rice sdl gene (DNA encoding SEQ ID NOs: 3 and 4), Arabidopsis sdl gene (Phillips et al., Plant physiol. 108: 1049-1057, 1995), and sdl genes derived from other plants.
Identification of an unknown "plant sdl gene"_can be performed using hybridization (Southern et al., Journal of Molecular Biology 98: 503, 1975) and polymerase chain reaction (PCR) (Saiki et al., Science 230: 1350-1354, 1985; Saiki et al., Science 239: 487-491, 1988) techniques. That is, one skilled in the art can isolate DNAs highly homologous to the sdl gene from other desired plants and determine their sequences, for example, by using as a probe the nucleotide sequence of rice sdl gene (DNA encoding SEQ ID NOs: 3 and 4), or a portion of it, or by using as a primer oligonucleotides specifically hybridizing to the sdl gene nucleotide sequence.
Hybridization reactions are usually conducted under stringent conditions to isolate such DNAs. Stringent hybridization conditions include conditions such as: 6 M urea, 0.4% SDS, and 0.5x SSC; and those with a similar stringency to that condition. Isolation of DNAs with higher homology may be achieved by performing hybridization under conditions of higher stringency, for example," 6"M urea, 0/4% SDS, and O.lx SSC. Isolated DNAs can be sequenced by known methods.
Whether the isolated DNA is a DNA encoding an sdl protein is commonly judged from the degree of homology between sequences.
Sequence homology can be determined using programs such as BLASTN (nucleic acid sequence level) and BLASTX (amino acid sequence level) (Altschul et al. J. Mol. Biol. 215: 403-410, 1990). Such programs are based on the algorithm "BLAST" described by Karlin and Altschul (Proc. Natl. Acad. Sci. USA 87: 2264-2268, 1990; Proc. Natl, Acad. Sci. USA 90: 5873-5877, 1993). When nucleotide sequences are analyzed according to BLASTN, parameters are set, for example, as score - 100 and word length =12. On the other hand, to analyze amino acid sequences by BLASTX, parameters are set, for example, as score = 50 and word length = 3. Furthermore, when amino acid sequences are analyzed using Gapped BLAST program, analysis can be performed as described by Altschul et al. (Nucleic Acids Res. 25: 3389-3402, 1997). Default parameters of each program are used when BLAST and Gapped BLAST program are used. Specific techniques for such analyses are known in the art (see http://www.ncbi.nlm.nih.gov.).
In this invention, there is no particular limitation on the types of plants to be conferred with a semidwarf property by suppressing the sdl gene expression. Thus, any plants can be semidwarfed, though it is preferable to utilize useful agricultural crops and ornamental plants. Useful agricultural crops include, for example, monocotyledonous plants, such as rice, maize, wheat, and barley, and dicotyledonous plants, such as rapeseed, soybean, cotton, tomato, and potato. Ornamental plants include ornamental flowers, such as chrysanthemum, rose, carnation, and cyclamen.
A plant transformant semidwarfed according to the present invention is created by inserting a DNA that suppresses the expression of the sdl gene into an appropriate vector, introducing this vector into a plant cell, and then regenerating the resulting transformed plant cell. The phrase "suppression of the sdl gene expression" refers to suppression of sdl gene transcription as well as suppression of translation to protein. It also encompasses not only the complete cessation of DNA expression but also a reduction in such expression.
The expression of a specific endogenous gene in plants can
be suppressed using antisense technology methods. „wh i ch-^are ;
commonly used in the art. Ecker et al. were the first to \ demonstrate the antisense effect of an antisense RNA introducer! by electroporation into plant cells using the transient gene expression method (Ecker and Davis (1986) Proc. Natl. Acad. Sci USA 83: 5372). Thereafter, the target gene expression was reportedly reduced in tobacco and petunias by expressing antisense RNAs (Krol et al. (1988) Nature 333: 866). The antisense technique has now been established as a means to suppress target gene expression in plants. Multiple factors cause suppression of target gene expression by an antisense nucleic acid. These include: inhibition of transcription initiation resulting from triple strand formation; suppression of transcription resulting from hybrids formed at the site where the RNA polymerase has formed a local open loop structure; transcription inhibition resulting from hybrid formation with the RNA being synthesized; suppression of splicing resulting from hybrid formation at the junction between an intron and an exon; suppression of splicing resulting from hybrid formation at the site of spliceosome formation; suppression of mRNA translocation from the nucleus to the cytoplasm resulting from hybrid formation with mRNA; suppression of splicing resulting from hybrid formation at the capping site or at the poly A addition site; suppression of translation initiation resulting from hybrid formation at the binding site for the translation initiation factors; suppression of translation resulting from hybrid formation at the site for ribosome binding near the initiation codon; inhibition of peptide chain elongation resulting from hybrid formation in the translated region or at the polysome binding sites of mRNA; and suppression of gene expression resulting from hybrid formation at the sites of interaction between nucleic acids and proteins. These factors suppress the target gene expression by inhibiting the process of transcription, splicing, and/or translation (Hirashima and Inoue, "Shin Seikagaku Jikken Koza (New Biochemistry Experimentation Lectures) 2, Kakusan (Nucleic Acids) IV, Idenshi No Fukusei To
Hatsugen (Replication and Expression of Genes)", Nihon Seikagakukai (The Japanese Biochemical Society) (ed.), Tokyo Kagaku Dozin, pp. 319-347, (1993)).
Accordingly, an antisense sequence of the present invention can suppress the target gene expression by any of the above mechanisms. In one embodiment, if an antisense sequence is designed to be complementary to the untranslated region near the 5' end of the gene's mRNA, it will effectively inhibit translation of a gene. It is also possible to use sequences complementary to the coding regions or to the untranslated region on the 3' side. Thus, the antisense DNA used in the present invention includes DNA having antisense sequences against both the untranslated regions and the translated regions of the gene. The antisense DNA to be used is connected downstream of an appropriate promoter, and, preferably, a sequence containing the transcription termination signal is connected on the 3' side.
Antisense DNA can be prepared based on the sequence information of the DNA according to SEQ ID NO: 3, for example, by the phosphorothioate method (Stein, Nucleic. Acid. Res. 16: 3209-3221, 1988). The prepared DNA can be transfected into the desired plant by known methods. The sequence of the antisense DNA is preferably a sequence complementary to the endogenous gene of the plant to be transformed or a part thereof, but it need not be perfectly (100%) complementary, so long as it can effectively inhibit the gene expression. The transcribed RNA is preferably 90% or more, and even more preferably 95% or more complementary to the transcribed products of the target gene. In order to effectively inhibit the expression of the target gene by means of an antisense sequence, the antisense DNA should be at least 15 nucleotides or more in length, preferably 100 nucleotides or more, and more preferably 500 nucleotides or more. The antisense DNA to be used is generally shorter than 5 kb, and preferably shorter than 2.5 kb.
DNAs encoding ribozymes can be used to suppress the expression of an endogenous gene. A ribozyme is an RNA molecule
that has catalytic activities. There are many ribozymes having various activities. Research on ribozymes as RNA cleaving enzymes has enabled the design of a ribozyme that site-specifically cleaves RNA. While ribozymes such as those of the group I intron-type and MIRNA contained in RnaseP can be large, with 400 nucleotides or more, there are smaller ones as well, including the hammerhead type and the hairpin type that have an activity domain of about 40 nucleotides or more (Koizumi and Ohtsuka (1990) Tanpakushitsu Kakusan Kohso (Protein, Nucleic acid"/ ""and Enzyme) 35: 2191).
The self-cleavage domain of a hammerhead type ribozyme cleaves at the 3' side of C15 of the sequence G13U14C15. Formation of a nucleotide pair between U14 and A at the ninth position is considered to be important for the ribozyme activity. Furthermore, it has been shown that the cleavage also occurs when the nucleotide at the 15th position is A or U instead of C (Koizumi et al. (1988) FEBS Lett. 228: 225). If the substrate binding site of the ribozyme is designed to be complementary to the RNA sequences adjacent to the target site, one can create a restriction-enzyme-like RNA cleaving ribozyme which recognizes the sequence UC, UU, or UA within the target RNA (Koizumi et al. (1988) FEBS Lett. 239: 285; Koizumi and Ohtsuka (1990) Tanpakushitsu Kakusan Kohso (Protein, Nucleic acid, and Enzyme), 35: 2191; Koizumi et al. (1989) Nucleic Acids Res. 17: 7059).
The hairpin type ribozyme is also useful in the present invention. A hairpin type ribozyme can be found, for example, in the minus strand of the satellite RNA of tobacco ringspot virus (Buzayan (1986) Nature 323: 349). This ribozyme has also been shown to target-specifically cleave RNA (Kikuchi and Sasaki (1992) Nucleic Acids Res. 19: 6751; Kikuchi (1992) Kagaku To Seibutsu (Chemistry and Biology) 30: 112).
A ribozyme designed to cleave the target is fused with a promoter, such as the cauliflower mosaic virus 35S promoter, and with a transcription termination sequence, so that it will be transcribed in plant cells. However, if extra sequences have been added to the 5' end or the 3' end of the transcribed RNA,
the ribozyme activity can be lost. In this case, one can place an additional trimming ribozyme, which functions in cis to perform the trimming on the 5' or the 3' side of the ribozyme portion, in order to precisely cut the ribozyme portion from the transcribed RNA containing the ribozyme (Taira et al. (1990) Protein Eng. 3: 733; Dzaianott and Bujarski (1989) Proc. Natl. Acad. Sci. USA 86: 4823; Grosshands and Cech (1991) Nucleic. Acids. Res. 19: 3875; Taira et al. (1991) Nucleic. Acid. Res. 19: 5125). Multiple sites within a target gene can be cleaved by arranging these structural units in tandem to achieve greater effects (Yuyama et al., Biochem. Biophys. Res. Commun. 186: 1271 (1992)). Using such ribozymes, it is possible to specifically cleave the transcription products of a target gene of the present invention, thereby suppressing the expression of the gene.
Endogenous gene expression can also be suppressed by co-suppression, through transformation with a DNA having a sequence identical or similar to the target gene sequence. "Co-suppression" refers to the phenomenon wherein, when a gene having a sequence identical or similar to the target endogenous gene sequence is introduced into plants by transformation, expression of both the introduced exogenous gene and the target endogenous gene becomes suppressed. Although the detailed mechanism of co-suppression is not fully understood, it is frequently observed in plants (Curr. Biol. 7: R793, 1997.Curr. Biol. 6: 810, 1996). For example, if one wishes to obtain a plant body in which the sdl gene is co-suppressed, the plant in question can be transformed with a vector DNA designed to express the sdl gene or DNA having a similar sequence to select a plant having a property of the sdl mutant, i.e. a semidwarfed plant, among the resultant plants. The gene to be used for co-suppression need not be completely identical to the target gene, but it should have at least 70% or more, preferably 80% or more, and more preferably 90% or more (e.g. 95% or more) sequence identity thereto.
In addition, endogenous gene expression in the present
invention can also be suppressed by transforming the plant with a gene having the dominant negative phenotype of the target gene. A gene having the dominant negative phenotype refers to a gene which, when expressed, can eliminate or reduce the activity of the wild type endogenous gene inherent to the plant.
The present invention also provides vectors comprising DNAs capable of suppressing the expression of an above-described endogenous gene, transformed plant cells retaining such DNAs in an expressible state, plant transformants comprising the transformed plant cells, plant transformants that are progenies or clones of the above plant transformants, and breeding material from the plant transformants.
Furthermore, this invention relates to a method for producing an aforementioned plant transformant, comprising the steps of: introducing a DNA capable of suppressing the expression of an endogenous gene into plant cells; and regenerating a plant from the plant cells.
DNAs of this invention can be introduced into plant cells by methods known to one skilled in the art, such as the Agrobacterium-mediated transfer method, the electroporation method, and the particle bombardment method.
As the above-described Agrobacterium method, for example, the method of Nagel et al. (Microbiol. Lett. 67: 325, 1990) may be used. According to this method, a recombinant vector is transformed into Agrobacterium bacterial cells, and then the transformed Agrobacterium is introduced into plant cells by known methods, such as the leaf disk method. The above-described vector, for example, comprises a promoter that allows the DNA of this invention to be expressed after its introduction into a plant. In general, the DNA of this invention is localized downstream of such a promoter, and furthermore a terminator lies downstream of the DNA. Recombinant vectors used for such a transformation are appropriately selected by one skilled in the art, depending on the transformation method or the type of a plant. The aforementioned promoters include, for example, the CaMV35S promoter derived from cauliflower mosaic
virus and ubiquitin promoter of maize (Unexamined Published Japanese Patent Application No. (JP-A) Hei2-79983).
Furthermore, the above-described terminators include one derived from the cauliflower mosaic virus and one derived from the nopaline synthase gene. However, the invention is not limited thereto; any promoters or terminators that can function in plants may be used.
In addition, the plant into which a DNA of this invention is introduced may be an explanted graft. Alternatively, cultured cells may be prepared from these plants, and such DNA may be introduced into the cultured cells. In the context of the present invention, the term "plant cells" includes, for example, cells from leaves, roots, stems, flowers, seed scutellum, calluses, and culture cell suspensions.
Furthermore, for efficiently selecting plant cells transformed by introduction of a DNA of this invention, the above-described recombinant vectors preferably contain an appropriate selection marker gene, or are preferably introduced into plant cells together with a plasmid vector comprising such a selection marker gene. Selection marker genes used herein include, for example, the hygromycin phosphotransferase gene resistant to the antibiotic hygromycin, the neomycin phosphotransferase gene resistant to kanamycin or gentamycin, and the acetyltransferase gene resistant to a herbicide, phosphinothricin.
Plant cells introduced with recombinant vectors are plated and cultured on known selection media comprising an appropriate selection drug, which varies according to the type of introduced selection marker gene. As a result, transformed plant cultured cells can be obtained.
Plants can then be regenerated from the plant cells transformed with the DNA according to the present invention. Plant regeneration can be performed by known methods depending on the type of the plant cell (Toki et al., (1995) Plant Physiol. 100:1503-1507). For example, transformation and regeneration methods for rice plants include: (1) introducing genes into
protoplasts using polyethylene glycol, and regenerating the plant body (suitable for indica rice varieties) (Datta et al., (1995) in "Gene Transfer To Plants", Potrykus I and Spangenberg Eds., pp66-74); (2) introducing genes into protoplasts using electric pulse, and regenerating the plant body (suitable for japonica rice varieties)(Toki et al. (1992) Plant Physiol. 100: 1503-1507); (3) introducing genes directly into cells through particle bombardment, and regenerating the plant body (Christou et al. (1991) Bio/Technology, 9: 957-962); and (4) introducing genes using Agrobacterium, and regenerating the plant body (Hiei et al. (1994) Plant J. 6: 271-282). These methods are already established and widely used in the art. Accordingly, such methods can be suitably used in the present invention.
A plant body regenerated from transformed cells is then cultured in a conditioned medium. When the acclimatized regenerated plant body is subsequently cultivated under the usual culture condition, a semidwarf plant body is obtained, which then matures and fruits to yield seeds.
Herein, the presence of the introduced foreign DNA can be confirmed in the plant transformant which has been regenerated and cultivated as mentioned above, by the known PCR or Southern hybridization methods, or through nucleotide sequence analysis of the DNA in the plant body.
In this case, DNA extraction from the plant transformant can be conducted according to the known method of J. Sambrook et al. (Molecular Cloning, 2nd ed, Cold Spring Harbor Laboratory Press, 1989).
When a foreign gene comprising a DNA of this invention present in the regenerated plant body is analyzed using PCR method, amplification reaction is performed using as a template the DNA extracted from the regenerated plant body as described above. Furthermore, synthetic oligonucleotides having nucleotide sequences appropriately selected according to those of the DNA of this invention or the DNA modified by this invention can be used as primers to perform amplification reaction in a reaction solution comprising the mixture of such
oligonucleotides. In the amplification reaction, amplified products of DNA fragments comprising a DNA sequence of this invention can be obtained by repeating the denaturation, annealing, and elongation reactions of DNA several ten times. When a reaction solution comprising amplification products is, for example, electrophoreses on agarose gel, various amplified DNA fragments are fractionated to confirm how that DNA fragment corresponds to the DNA of this invention.
Once a transformed plant, in which a DNA of the present invention is introduced into the chromosome, is obtained, it is possible to gain descendants from that plant body by sexual or vegetative propagation. Alternatively, plants can be mass-produced from breeding materials (for example, seeds, fruits, ears, tubers, tubercles, tubs, callus, and protoplast) obtained from the original transformed plant, as well as its descendants or clones. Plant cells transformed with a DNA of the present invention, plant bodies including these cells, descendants and clones of the plant, as well as breeding materials obtained from the plant, its descendant, and clones, are all comprised in the present invention.
In the present invention, plant semidwarfing can be induced by suppressing the expression of the sdl gene as described above Semidwarfed plants produced by the method of this invention are expected to, for example, be useful as agricultural crops that can stably give high yields, and also provide novel aesthetic values to ornamental plants.
Furthermore, this invention provides a DNA encoding the rice sdl protein. The sdl DNA may be used in the plant growth promotion, especially in enhancement of the stem/leaf elongation Preparation of a plant transformant using a DNA encoding the rice sdl protein can be performed by the above-described method. Namely, such preparation can be carried out by inserting the DNA into the aforementioned vector, introducing the resulting recombinant vector into plant cells, and regenerating a plant body from the transformed plant cells. Furthermore, based on the DNA sequence encoding the rice sdl'protein of this invention
it is possible to prepare DNA encoding antisense RNA, DNA encoding RNA having the ribozyme activity and further DNA encoding RNA having co-suppression effects and so on, which are used to suppress the expression of the plant sdl gene. DNAs thus prepared can be used to induce plant semidwarfing.
The "rice sdl protein".in the present invention comprises not only a protein of SEQ ID NO: 4 but also rice-derived proteins functionally equivalent to that protein. Such proteins include both those which are artificially prepared and those endogenously present in rice. Herein, the term "functionally equivalent" indicates that the protein of interest has the GA synthesis activity and stem/leaf elongation activity when introduced into plants. Such proteins include mutants, homologues, and variants of the protein according to SEQ ID NO: 4.
Proteins functionally equivalent to the rice sdl protein can be prepared using, for example, a mutagenesis method known to one skilled in the art for introducing mutation(s) in the amino acid sequence of a protein [e.g. site-directed mutagenesis method (Ausubel et al., Current Protocols in Molecular Biology edit. Publish. Johon Wily & Sons Section 8: 1-8.5, 1987)]. Furthermore, endogenous proteins in rice produced by amino acid mutation(s) arising nature can be isolated based on DNA of SEQ ID NO: 3, using hybridization techniques, gene amplification techniques (PCR), and the like.
Proteins having the amino acid sequence of SEQ ID NO: 4 in which one or more amino acids are substituted, deleted, inserted, and/or added, are included in this invention so long as they have a function equivalent to that of the rice sdl protein. The number of mutations in the protein is typically 30 amino acids or less, preferably 10 amino acids or less, more preferably 5 amino acids or less (for example, 3 amino acids or less); however, there is no limitation in the number and site of mutations so long as the protein function is retained. From the aspect of retaining the protein function, an amino acid for substitution preferably has a similar property to that of amino
acid being substituted. For example, since Ala, Val, Leu, lie, Pro, Met, Phe, and Trp are all classified into non-polar amino acids, they are likely to have similar properties each other. Furthermore, non-charged amino acids include Gly, Ser, Thr, Cys, Tyr, Asn, and Gin. In addition, acidic amino acids are exemplified by Asp and Glu, j-while basic amino acids by Lys, Arg, and His.
In this invention, there is no particular limitation on the type of DNAs encoding a rice sdl protein, so long as they are capable of encoding the above-described protein; they may be genomic DNAs, chemically synthesized DNAs or cDNA. In addition, DNAs of this invention comprise those having arbitrary nucleotide sequences based on degeneracy of genetic codes, so long as they are capable of encoding a rice sdl protein. DNAs encoding a rice sdl protein of this invention can be isolated as described above, by standard methods such as hybridization techniques using the DNA sequence of SEQ ID NO: 3 or its portion as probes and gene amplification methods (PCR) using primers designed based on information on such DNA sequences. These probes and primers can be easily prepared by one skilled in the art using known techniques, based on the DNA encoding the rice sdl protein of this invention.
Brief Description of the Drawings
Fig. 1 is a diagram showing mutation sites of the sdl gene in Dee-geo-woo-gen, Calrose 76, and Reimei.
Best Mode for Carrying out the Invention
Herein below, the present invention is more specifically described using Examples. However, the present invention should not to be construed as being limited thereto. [Example 1]
Based on the sequence of the Arabidopsis C20 oxidase gene,
primers OsC20U (5'- ccgctcgccgagaagcgccg -3'/SEQ ID NO: l) and OsC20L (5'- atgaaggtgtcgccgatgtt -3'/SEQ ID NO: 2) were designed. PCR was performed with the Nipponbare rice genomic DNA as a
template, aiming to isolate the GA C20 oxidase gene of rice. As a result, an amplification product of 618 bp was obtained, and sequenced to reveal that it is a novel GA oxidase gene of rice. GAC20 belongs to the 2-oxoglutarate-dependent dioxygenase (2-ODD) family, conserving the functionally essential domain (NYYPXCXXP) for binding to 2-oxoglutarate. Furthermore, GAC20 also conserves three histidine residues to bind the Fe ion and the LPWKET domain that may be involved in GA binding. The rice GAC20 gene shows a 50% homology to that of Arabidopsis. [Example 2]
Linkage analysis for the chromosomal locus of this novel GAC20 oxidase gene using BIL (1998; TAG 96: 997-1003, Mapping quantitative trait loci controlling seed dormancy and heading date in rice, Oryza sativa L., using backcross inbred lines.) revealed that the gene is located at about 155 cM on Rice Chromosome 1. This locus is extremely close to the locus of the sdl gene, a fact which strongly indicates a possibility that the rice C20 oxidase gene is identical to the sdl gene. [Example 3]
A genomic library was constructed from the wild type Nipponbare, and genome clones comprising the GAC2 0 oxidase gene were isolated using plaque hybridization methods to determine the whole nucleotide sequence of the gene (SEQ ID NO: 3). The deduced amino acid sequence of GAC20 oxidase is set forth in SEQ ID NO: 4. [Example 4]
Nucleotide sequences of GAC20 oxidase gene in the sdl mutant Dee-geo-woo-gen and the corresponding wild type Woo-gen were determined for comparison. It was thus discovered that a nucleotide sequence of 38 6 bp extending from exon 1 to exon 2 was deleted in Dee-geo-woo-gen. Nucleotide sequences of GAC20 oxidase gene in other sdl mutants were also determined. As a result, in an sdl mutant Calrose 76, one nucleotide (cytosine) in exon 2 was replaced by thymine, and on the amino acid level, leucine was substituted with phenylalanine. Similarly in an sdl mutant Reimei, one nucleotide (guanine) in exon 3 was changed to
cytosine, and on the amino acid level, aspartic acid was substituted with histidine (Fig. 1).
The present invention provides a plant sdl gene and a method for utilizing the gene to semidwarf plants. It is highly expected that utilization of plant sdl genes would enable the enhancement of the yield of plants, particularly useful agricultural crops and ornamental plants, add aesthetic value to ornamental plants through dwarfing, and furthermore, increase the yield and efficient breeding of dwarfed plants by marker selection.
1. A DNA encoding an RNA which is capable of suppressing the expression of an
endogenous gene of rice polypeptide comprising the amino acid sequence of SEQ ID
2. The DNA as claimed in claim 1, wherein said RNA is an antisense RNA
complementary to a transcriptional product of the endogenous gene of rice encoding a
polypeptide comprising the amino acid sequence of SEQ ID NO: 4.
3. A cDNA encoding a polypeptide comprising the amino acid sequence of SEQ
4. A DNA encoding an RNA which is capable of suppressing the expression of an
endogenous gene of rice polypeptide substantially as hereinbefore described and
exemplified with reference to the accompanying drawing.
|Indian Patent Application Number||83/CHENP/2004|
|PG Journal Number||28/2010|
|Date of Filing||14-Jan-2004|
|Name of Patentee||HONDA MOTOR CO., LTD|
|Applicant Address||1-1, AOYAMA 2-CHOME, MINATO-KU, TOKYO 107-8556, JAPAN|
|PCT International Classification Number||C12N 15/53|
|PCT International Application Number||PCT/JP02/05678|
|PCT International Filing date||2002-06-07|