(12) Patent Application Publication (10) Pub. No.: US 2011/0078806 A1 JANG Et Al
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US 2011 0078806A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2011/0078806 A1 JANG et al. (43) Pub. Date: Mar. 31, 2011 (54) POLYNUCLEOTIDES AND POLYPEPTIDES (60) Provisional application No. 60/434,166, filed on Dec. IN PLANTS 17, 2002, provisional application No. 60/411,837. filed on Sep. 18, 2002, provisional application No. (75) Inventors: CA-ZHONG JIANG, 60/465,809, filed on Apr. 24, 2003. FREMONT, CA (US); JACQUELINE E. HEARD, STONINGTON, CT (US); Publication Classification OLIVER RATCLIFFE, (51) Int. Cl. OAKLAND, CA (US); ROBERT AOIH I/00 (2006.01) A. CREELMAN, CASTRO CI2N 15/63 (2006.01) VALLEY, CA (US); LUC ADAM, CI2N 15/87 (2006.01) HAYWARD, CA (US); T. LYNNE AOIH 5/00 (2006.01) REUBER, SAN MATEO, CA AOIH 5/02 (2006.01) (US); JOSE LUIS RIECHMANN, AOIH 5/04 (2006.01) PASADENA, CA (US); VOLKER AOIH 5/08 (2006.01) HAAKE, BERLIN (DE); AOIH 5/2 (2006.01) ARNOLD N. DUBELL, SAN AOIH 5/06 (2006.01) LORENZO, CA (US); JAMESS. AOIH 5/10 (2006.01) KEDDIE, SAN MATEO, CA (US); BRADLEY K. SHERMAN, (52) U.S. Cl. ...................... 800/260; 435/320.1; 800/289; BERKELEY, CA (US) 800/290; 800/298; 800/301; 800/305; 800/306; 800/310: 800/312:800/313; 800/314; 800/316; (73) Assignee: MENDEL BIOTECHNOLOGY, 800/317; 800/317.1: 800/317.2: 800/317.3; HAYWARD, CA (US) 800/317.4: 800/320:800/320.1; 800/320.2: 800/320.3: 800/322 (21) Appl. No.: 12/917,303 (22) Filed: Nov. 1, 2010 (57) ABSTRACT The invention relates to plant transcription factor polypep Related U.S. Application Data tides, polynucleotides that encode them, homologs from a (60) Continuation-in-part of application No. 1 1/642,814, variety of plant species, and methods of using the polynucle filed on Dec. 20, 2006, now Pat. No. 7,825,296, which otides and polypeptides to produce transgenic plants having is a division of application No. 10/666,642, filed on advantageous properties compared to a reference plant. Sep. 18, 2003, now Pat. No. 7,196.245, Continuation Sequence information related to these polynucleotides and in-part of application No. 12/077,535, filed on Mar. 17, polypeptides can also be used in bioinformatic search meth 2008. ods and is also disclosed. Patent Application Publication Mar. 31, 2011 Sheet 1 of 10 US 2011/007880.6 A1 : Fagales Cucurbitales Rosaies Fabales Oxalidales Malpighiales Sapindaies s Mavaies Brassicales Mytales - Geraniafes Dipsacales : Asterales Apiales Aquifoliates i Solaales Lamia eS Gentianates Garyales Ericales - Cornates aia Saxifragales - - - - - - - - - - - - - - - - - - - - - - - - - - - - mar CaryophylalesSantaiales Proteates Ranunculates Zingiberates ; Conrnelinates Poales AreCaies Pandarades iiales Dioscoreales Asparagales Alismataies ACOrales Piperales Magnoliales Lau?ales Ceratophylaies FIGURE 1 Patent Application Publication US 2011/007880.6 A1 ZETRIQOIH Patent Application Publication Mar. 31, 2011 Sheet 3 of 10 US 2011/007880.6 A1 | | ||| Figure 3B Patent Application Publication Mar. 31, 2011 Sheet 4 of 10 US 2011/007880.6 A1 Patent Application Publication Mar. 31, 2011 Sheet 5 of 10 US 2011/0078806 A1 S S. SS SS&S r 8& Patent Application Publication Mar. 31, 2011 Sheet 6 of 10 US 2011/007880.6 A1 Y \C \C D D - - sp sep < O \d \d 2 sh sh t t Patent Application Publication Mar. 31, 2011 Sheet 7 of 10 US 2011/007880.6 A1 85. Patent Application Publication Mar. 31, 2011 Sheet 8 of 10 US 2011/007880.6 A1 Patent Application Publication Mar. 31, 2011 Sheet 9 of 10 US 2011/007880.6 A1 Patent Application Publication Mar. 31, 2011 Sheet 10 of 10 US 2011/007880.6 A1 Figure 10A US 2011/007880.6 A1 Mar. 31, 2011 POLYNUCLEOTIDES AND POLYPEPTIDES embodiments of the invention are described below and can be IN PLANTS derived from the teachings of this disclosure as a whole. RELATIONSHIP TO COPENDING SUMMARY OF THE INVENTION APPLICATIONS 0001. This application is a continuation in part application 0007. The present invention is directed to novel recombi of U.S. application Ser. No. 1 1/642,814 (pending), filed Dec. nant polynucleotides, transgenic plants comprising the poly 20, 2006, which is a divisional application of U.S. application nucleotides, and methods for producing the transgenic plants. Ser. No. 10/666,642 (issued as U.S. Pat. No. 7,196,245 on 27 0008. The recombinant polynucleotides may include any Mar. 2007), which claims the benefit of copending U.S. Pro of the following sequences: visional Application No. 60/411,837, filed Sep. 18, 2002, 0009 (a) the nucleotide sequences found in the U.S. Provisional Application No. 60/434,166, filed Dec. 17, sequence listing: 2002, and U.S. Provisional Application No. 60/465,809, filed 0.010 (b) nucleotide sequences encoding polypeptides Apr. 24, 2003. This application is a continuation in part of found in the sequence listing: application Ser. No. 12/077,535 (pending), filed Mar. 17, 0.011 (c) sequence variants that are at least 70% 2008. The contents of all applications herein are incorporated sequence identical to any of the nucleotide sequences of by referenced in their entirety. (a) or (b): 0012 (d) orthologous and paralogous nucleotide TECHNICAL FIELD sequences that are at least 70% identical to any of the 0002 This invention relates to the field of plant biology, nucleotide sequences of (a) or (b): and to compositions and methods for modifying the pheno 0013 (e) nucleotide sequence that hybridize to any of type of a plant. the nucleotide sequences of (a) or (b) under Stringent conditions, which may include, for example, hybridiza BACKGROUND OF THE INVENTION tion with wash steps of 6xSSC and 65C for ten to thirty minutes per step; and 0003) A plant's traits, such as its biochemical, develop mental, or phenotypic characteristics, may be controlled 0014 (f) nucleotide sequences encoding a polypeptide through a number of cellular processes. One important way to having a conserved domain required for the function of manipulate that control is through transcription factors— regulating transcription and altering a trait in a trans proteins that influence the expression of a particular gene or genic plant, the conserved domain being at least 70% sets of genes. Transformed and transgenic plants comprise identical with a conserved domain of a polypeptide of cells having altered levels of at least one selected transcription the invention (i.e., a polypeptide listed in the sequence factor, and may possess advantageous or desirable traits. listing, or encoded by any of the above nucleotide Strategies for manipulating traits by altering a plant cell's sequences). transcription factor content can therefore result in plants and 0015 The invention also pertains to transgenic plants that crops with new and/or improved commercially valuable may be produced by transforming plants with any recombi properties. nant polynucleotide of the invention. Due to the function of 0004 Transcription factors can modulate gene expression, these polynucleotides, the transgenic plant will become either increasing or decreasing (inducing or repressing) the altered phenotypically when compared with a wild-type rate of transcription. This modulation results in differential plant. The traits that may be altered by transforming a plant levels of gene expression at various developmental stages, in with one of the present polynucleotides are numerous and different tissues and cell types, and in response to different varied, and may include, for example: exogenous (e.g., environmental) and endogenous stimuli 0016 increased tolerance to various abiotic stresses, throughout the life cycle of the organism. including cold, heat, freezing, low nitrogen and phosphorus 0005 Because transcription factors are key controlling conditions, osmotic stresses such as drought, and high salt elements of biological pathways, altering the expression lev concentrations; els of one or more transcription factors can change entire 0017 increased tolerance to disease, including fungal dis biological pathways in an organism. For example, manipula ease, and particularly Erysiphe, Fusarium, and Botrytis; the tion of the levels of selected transcription factors may result in present polynucleotides may be used to confer increased tol increased expression of economically useful proteins or bio erance to multiple pathogens in transformed plants; molecules in plants or improvement in other agriculturally 0018 altered sensitivity or resistance to treatments that relevant characteristics. Conversely, blocked or reduced include glyphosate, ABA, and ACC, expression of a transcription factor may reduce biosynthesis 0019 altered carbon/nitrogen (C/N) sensing: of unwanted compounds or remove an undesirable trait. 0020 advanced or delayed flowering time; Therefore, manipulating transcription factor levels in a plant offers tremendous potential in agricultural biotechnology for 0021 altered floral characteristics such as flower struc modifying a plant's traits ture, loss of flower determinacy, or reduced fertility; 0006 We have identified polynucleotides encoding tran 0022 altered shoot meristem development, altered stem Scription factors, developed numerous transgenic plants morphology and vascular tissue structure, and altered branch using these polynucleotides, and have analyzed the plants for ing patterns; a variety of important traits. In so doing, we have identified 0023 reduced apical dominance: important polynucleotide and polypeptide sequences for pro 0024 altered trichome density, development, or structure; ducing commercially valuable plants and crops as well as the 0025 altered root development, including root mass, methods for making them and using them. Other aspects and branching and root hairs; US 2011/007880.6 A1 Mar. 31, 2011 0026 altered shade avoidance; growth than the four wild-type seedlings on the right. As 0027 altered seed characteristics such as size, oil content, would be predicted by the osmotic stress assay, G47 plants protein content, development, ripening, germination, or pre showed enhanced Survival and drought tolerance in a soil nyl lipid content; based drought assay, as did G2133, a paralog of G47 (see 0028 altered leaf characteristics, including size, mass, FIGS.