Nucleic acid molecules and other molecules associated with plants and uses thereof for plant improvement

Abstract

Recombinant polynucleotides and recombinant polypeptides useful for improvement of plants are provided. The disclosed recombinant polynucleotides and recombinant polypeptides find use in production of transgenic plants to produce plants having improved properties.

1 ) A recombinant polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582. 
     
     
         2 ) A recombinant polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164. 
     
     
         3 ) A method of producing a plant having an improved property, wherein said method comprises transforming a plant with a recombinant construct comprising a promoter region functional in a plant cell operably joined to a polynucleotide comprising a coding sequence for a polypeptide associated with said property, and growing said transformed plant, wherein said polypeptide is selected from the group consisting of:
 a) a polypeptide useful for improving plant cold tolerance, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   b) a polypeptide useful for manipulating growth rate in plant cells by modification of the cell cycle pathway, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   c) a polypeptide useful for improving plant drought tolerance, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   d) a polypeptide useful for providing increased resistance to plant disease, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   e) a polypeptide useful for galactomannan production, wherein said polynucleotide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   f) a polypeptide useful for production of plant growth regulators, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   g) a polypeptide useful for improving plant heat tolerance, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   h) a polypeptide useful for improving plant tolerance to herbicides, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   i) a polypeptide useful for increasing the rate of homologous recombination in plants,wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   j) a polypeptide useful for lignin production, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   k) a polypeptide useful for improving plant tolerance to extreme osmotic conditions, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   l) a polypeptide useful for improving plant tolerance to pathogens or pests, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   m) a polypeptide useful for yield improvement by modification of photosynthesis, wherein said polynucleotide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   n) a polypeptide useful for modifying seed oil yield and/or content, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   o) a polypeptide useful for modifying seed protein yield and/or content, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   p) a polypeptide encoding a plant transcription factor, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   q) a polypeptide useful for yield improvement by modification of carbohydrate use and/or uptake, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   r) a polypeptide useful for yield improvement by modification of nitrogen use and/or uptake, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171;   s) a polypeptide useful for yield improvement by modification of phosphorus use and/or uptake, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171; and   t) a polypeptide useful for yield improvement by providing improved plant growth and development under at least one stress condition, wherein said polypeptide comprises a sequence identified as such in Table 1 from U.S. Pub. No. 2007/0044171.   
     
     
         4 . An exogenous nucleic acid molecule comprising a polynucleotide, wherein said polynucleotide:
 (a) hybridizes under high-stringency conditions to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, or   (b) exhibits at least about 90% or greater identity to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582.   
     
     
         5 . The exogenous nucleic acid molecule of  claim 4 , wherein said nucleic acid molecule encodes a  Triticum aestivum  protein or fragment thereof. 
     
     
         6 . An exogenous nucleic acid molecule comprising a polynucleotide having at least about 90% sequence identity with a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582. 
     
     
         7 . The exogenous nucleic acid molecule of  claim 6 , wherein said polynucleotide has at least about 95% sequence identity with a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582. 
     
     
         8 . The exogenous nucleic acid molecule of  claim 7 , wherein said polynucleotide has at least about 98% sequence identity with a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582. 
     
     
         9 . The exogenous nucleic acid molecule of  claim 8 , wherein said polynucleotide has at least about 99% sequence identity with a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582. 
     
     
         10 . A recombinant polypeptide, wherein said polypeptide is encoded by a nucleic acid molecule comprising a polynucleotide, wherein said polynucleotide:
 (a) hybridizes under high-stringency conditions to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, or   (b) exhibits at least about 90% or greater identity to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582.   
     
     
         11 . A functional variant of the recombinant polypeptide of  claim 10 , wherein said functional variant comprises at least about 50 consecutive amino acids having at least about 90% identity to about a 50 amino acid polypeptide fragment of said recombinant polypeptide. 
     
     
         12 . A recombinant polypeptide having at least about 90% sequence identity with a recombinant polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164. 
     
     
         13 . The recombinant polypeptide of  claim 12 , wherein said recombinant polypeptide has at least about 95% sequence identity with a recombinant polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164. 
     
     
         14 . A transformed plant comprising a transformed plant cell comprising a recombinant DNA construct which comprises:
 (a) a promoter region functional in a plant cell, operably joined to   (b) a recombinant polynucleotide, wherein said recombinant polynucleotide
 (i) hybridizes under high-stringency conditions to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a fragment of either, or 
 (ii) exhibits at least about 90% or greater identity to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a fragment of either, which is linked to 
   (c) a 3′ non-translated sequence that functions in said plant cell to cause the termination of transcription of said recombinant polynucleotide.   
     
     
         15 . The transformed plant according to  claim 14 , wherein said polynucleotide is a complete complement of a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582 or a fragment thereof. 
     
     
         16 . The transformed plant according to  claim 14 , wherein said plant is selected from the group consisting of soy, maize, cotton and wheat. 
     
     
         17 . A transformed plant comprising a recombinant DNA construct comprising a recombinant polynucleotide that encodes a polypeptide, wherein said polypeptide has at least about 90% sequence identity with an polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164, or a fragment thereof. 
     
     
         18 . A transformed seed comprising a transformed plant cell comprising a recombinant DNA construct which comprises:
 (a) a promoter region functional in a plant cell, operably joined to   (b) a recombinant polynucleotide, wherein said recombinant polynucleotide
 (i) hybridizes under high-stringency conditions to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, or 
 (ii) exhibits at least about 90% or greater identity to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, which is linked to 
   (c) a 3′ non-translated sequence that functions in said plant cell to cause the termination of transcription of said recombinant polynucleotide.   
     
     
         19 . The transformed seed according to  claim 18 , wherein said polynucleotide is a complete complement of a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582. 
     
     
         20 . The transformed seed according to  claim 19 , wherein said seed is selected from the group consisting of soy, maize, cotton and wheat seed. 
     
     
         21 . A transformed seed comprising a transformed plant cell comprising an exogenous nucleic acid molecule comprising a recombinant polynucleotide that encodes a polypeptide, wherein said polypeptide has at least about 90% sequence identity with an polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164. 
     
     
         22 . A method of producing a genetically transformed plant, comprising the steps of:
 (a) inserting into the genome of a plant cell a recombinant polynucleotide comprising:
 (i) a promoter region functional in said plant cell, operably joined to 
 (ii) a polynucleotide that
 (A) hybridizes under high-stringency conditions to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, or 
 (B) exhibits at least about 90% or greater identity to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, which is linked to 
 
 (iii) a 3′ non-translated sequence that functions in said plant cell to cause the termination of transcription of said polynucleotide, 
   (b) obtaining a transformed plant cell with said recombinant polynucleotide, wherein said recombinant polynucleotide is transcribed and results in expression of one or more proteins; and   (c) regenerating from said transformed plant cell a genetically transformed plant.   
     
     
         23 . A method for decreasing expression of a protein in a plant cell comprising growing a transformed plant cell containing a polynucleotide wherein the non-transcribed strand of said polynucleotide encodes a protein or fragment thereof, and wherein the transcribed strand of said polynucleotide is complementary to a polynucleotide selected from the group consisting of SEQ ID NO:1 through SEQ ID NO: 105,582, a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a fragment of either, and whereby said transcribed strand decreases or supresses expression of said protein. 
     
     
         24 . A method for increasing expression of a protein in a plant cell comprising growing a transformed plant cell containing a polynucleotide that encodes a protein or fragment thereof, wherein said polynucleotide is selected from the group consisting of SEQ ID NO:1 through SEQ ID NO: 105,582, a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582 and a fragment of either, and whereby said polynucleotide increases expression of said protein. 
     
     
         25 . A method of producing a plant containing reduced levels of a protein comprising:
 (a) transforming a plant cell with a polynucleotide selected from the group consisting of SEQ ID NO:1 through SEQ ID NO: 105,582, a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a fragment of either, wherein said polynucleotide is transcribed and results in decreased expression or cosuppression of endogenous protein synthesis activity, and   (b) regenerating said plant comprising said plant cell and producing subsequent progeny from said plant.   
     
     
         26 . A method of growing a transgenic plant comprising
 (a) planting a transformed seed comprising a polynucleotide selected from the group consisting of SEQ ID NO:1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, and   (b) growing a plant from said seed.   
     
     
         27 . A method of producing a genetically transformed plant, comprising the steps of
 (a) inserting into the genome of a plant cell a recombinant polynucleotide comprising:
 (i) a promoter region functional in said plant cell, operably joined to 
 (ii) a polynucleotide that
 (A) hybridizes under high-stringency conditions to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, or 
 (B) exhibits at least about 90% or greater identity to a polynucleotide selected from the group consisting of SEQ ID NO: 1 through SEQ ID NO: 105,582, and a complete complement of SEQ ID NO: 1 through SEQ ID NO: 105,582, which is linked to 
 
 (iii) a 3′ non-translated sequence that functions in said plant cell to cause the termination of transcription of said polynucleotide, 
   (b) obtaining a transformed plant cell with said recombinant polynucleotide, wherein said recombinant polynucleotide is transcribed and results in expression of one or more proteins; and   (c) regenerating from said transformed plant cell a genetically transformed plant.   
     
     
         28 . A method for increasing expression of a protein in a plant cell comprising growing a transformed plant cell containing a polynucleotide that encodes a protein or fragment thereof, wherein said polynucleotide encodes a polypeptide, wherein said polypeptide has at least about 90% sequence identity with an polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164, or a fragment thereof, and whereby said polynucleotide increases expression of said protein. 
     
     
         29 . A method of producing a plant containing reduced levels of a protein comprising:
 (a) transforming a plant cell with a recombinant polynucleotide encoding a polypeptide having at least about 90% sequence identity with an polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164, or a fragment thereof, wherein said recombinant polynucleotide is transcribed and results in decreased expression or cosuppression of endogenous protein synthesis activity, and   (b) regenerating said plant comprising said plant cell and producing subsequent progeny from said plant.   
     
     
         30 . A method of growing a transgenic plant comprising
 (a) planting a transformed seed comprising a polynucleotide encoding a polypeptide having at least about 90% sequence identity with an polypeptide selected from the group consisting of SEQ ID NO: 105,583 through SEQ ID NO: 211,164, or a fragment thereof, and   (b) growing a plant from said seed.