Sequence determined dna fragments and corresponding polypeptides encoded thereby

Patent metadata

Field	Value
Publication number	US-2018237794-A1
Application number	US-201815877199-A
Country	US
Kind code	A1
Filing date	Jan 22, 2018
Priority date	Sep 30, 2003
Publication date	Aug 23, 2018
Grant date	—

Abstract

The present invention provides DNA molecules that constitute fragments of the genome of a plant, and polypeptides encoded thereby. The DNA molecules are useful for specifying a gene product in cells, either as a promoter or as a protein coding sequence or as an UTR or as a 3′ termination sequence, and are also useful in controlling the behavior of a gene in the chromosome, in controlling the expression of a gene or as tools for genetic mapping, recognizing or isolating identical or related DNA fragments, or identification of a particular individual organism, or for clustering of a group of organisms with a common trait.

First claim

1 . An isolated nucleic acid molecule comprising:
a) a nucleic acid molecule having a nucleotide sequence which encodes an amino acid sequence exhibiting at least 85% sequence identity to an amino acid sequence in Sequence Listing; b) a nucleic acid molecule which is a full complement of a nucleic acid molecule according to paragraph (a); c) any one of the nucleic acid sequences present in the Sequence Listing; d) a nucleic acid molecule which is an interfering RNA to the nucleic acid molecule according to subparagraph (a); or e) a nucleic acid molecule capable of hybridizing to a nucleic acid molecule according to any one of paragraphs (a)-(c), under conditions that permit formation of a nucleic acid duplex at a temperature from about 40° C. and 48° C. below the melting temperature of the nucleic acid duplex.

2 . The isolated nucleic acid molecule according to claim 1 , which has a nucleotide sequence according to any polynucleotide sequence in the Sequence Listing.

3 . The isolated nucleic acid molecule according to claim 1 , wherein said encoded amino acid sequence comprises any polypeptide sequence in the Sequence Listing.

4 . A vector construct comprising:
a) a first nucleic acid molecule having a regulatory sequence capable of causing transcription and/or translation in a plant; and b) a second nucleic acid molecule having the sequence of the isolated nucleic acid molecule according to claim 1 ;
wherein said first and second nucleic acid molecules are operably linked.

5 . The vector construct according to claim 4 , wherein said first nucleic acid molecule is native to said second nucleic acid molecule.

6 . The vector construct according to claim 4 , wherein said first nucleic acid molecule is heterologous to said second nucleic acid molecule.

7 . A host cell comprising an isolated nucleic acid molecule according to claim 1 wherein said nucleic acid molecule is flanked by exogenous sequence.

8 . A host cell comprising a vector construct according to claim 4 .

9 . (canceled)

10 . A method of introducing an isolated nucleic acid molecule into a host cell comprising:
a) providing an isolated nucleic acid molecule according to claim 1 ; and b) contacting said isolated nucleic acid molecule with said host cell under conditions that permit insertion of said nucleic acid molecule into said host cell.

11 . A method of transforming a host cell which comprises contacting a host cell with a vector construct according to claim 4 .

12 . A method for detecting a nucleic acid molecule in a sample which comprises:
a) providing an isolated nucleic acid molecule according to claim 1 ; b) contacting said isolated nucleic acid molecule with a sample under conditions which permit a comparison of the sequence of said isolated nucleic acid molecule with the sequence of DNA in said sample; and c) analyzing the result of said comparison.

13 . A plant, plant cell, plant material or seed of a plant which comprises a nucleic acid molecule according to claim 1 which is exogenous or heterologous to said plant or plant cell.

14 . A plant, plant cell, plant material or seed of a plant which comprises a vector construct according to claim 4 .

15 . A plant that has been regenerated from a plant cell or seed according to claim 14 .

16 . Transgenic progeny of the plant of claim 14 .

17 . Seed from the plant according to claim 13 .

18 . An antibody capable of binding the isolated polypeptide of claim 9 .

19 . A method of modulating plant growth and phenotype characteristics, said method comprising introducing into a plant cell an isolated nucleic acid molecule comprising a nucleotide sequence selected from the group consisting of:
a) a nucleic acid molecule having a nucleotide sequence which encodes an amino acid sequence exhibiting at least 85% sequence identity to an amino acid sequence in Sequence Listing; b) a nucleic acid molecule which is a full complement of a nucleotide sequence according to paragraph (a); c) a nucleic acid molecule having any one of the nucleic acid sequences present in the Sequence Listing; d) a nucleic acid molecule which is an interfering RNA to the nucleotide sequence according to subparagraph (a); or e) a nucleic acid molecule capable of hybridizing to a nucleic acid according to any one of paragraphs (a)-(c), under conditions that permit formation of a nucleic acid duplex at a temperature from about 40° C. and 48° C. below the melting temperature of the nucleic acid duplex.

20 . The method of claim 19 , wherein the modulated plant growth and phenotype characteristics comprise a modulation in in any one of plant size, plant height, plant strength, vegetative growth, color, plant architecture, amount of branching, branching angle, branching length, number or leaves per branch, organ number, organ size, organ shape, leaf shape, leaf structure, leaf size, leaf number, leaf angle, biomass, sterility, seedling lethality, seed weight, seed size, seed color, seed yield, seed germination, seed content, seed structure, seed carbon content, seed nitrogen content, seed fiber content, fruit composition, fruit shape, fruit size, fruit length, fruit yield, silique length, silique shape, flower length, flower shape, flower size, inflorescence length, inflorescence thickness, cotyledon size, cotyledon nuber, cotyledon shape, accelerated crop development or harvest, accelerated flowering time, delayed flowering time, delayed senescence, enhanced drought or stress tolerance, increased chlorophyll content and photosynthetic capacity, increased anthocyanin content, increased root growth, increased nutrient uptake, increased seed weight, increased seed carbon or nitrogen content, increased seed/fruit yield, modified fruit content, enhanced foliage, making nutraceuticals/pharmaceuticals in plants, increase plant size, lethality, low fiber seeds with increased digestibility, ornamental appearance with modified leaves, flowers, color or foliage, sterile plants, enhanced ability to grow in shade, enhanced abiotic stress tolerance, increased tolerance to density and low fertilizer, enhanced tolerance to high or low pH, enhanced tolerance to low nitrogen or phosphate, enhanced tolerance to nutrient limiting conditions, enhanced tolerance to oxidative stress, enhanced chemical composition, altered leaf shape, enhanced abiotic stress tolerance, increased tolerance to cold stress, increased tolerance to heat stress, increased tolerance to salt stress, increased starch content, larger seeds, smaller seeds, fewer or no seeds, shorter plants, enhanced plant strength, increased plant height, modified flower length, longer inflorescences, modified seed fiber content, modified fruit shape, modified fruit composition, modified seed yield, modified plant architecture, modified amount or angle of branching, modified leaf structure, modified seed structure or content, and enhanced shade avoidance as compared to the corresponding characteristic of a control plant that does not comprise said nucleic acid.

Assignees

• Ceres Inc

Inventors

• Alexandrov Nickolai
• Brover Vyacheslav
• Feldmann Kenneth A
• Makarov Vladimir
• Swaller Timothy J
• Nadzan Gregory
• Mascia Peter
• Troukhan Maxim
• Rarang Joel
• Burns James
• Vos Strache Kyle

Classifications

• C12N15/8261 Primary

  with agronomic (input) traits, e.g. crop yield · CPC title

• C07K14/415

  from plants · CPC title

• C12Q1/6895

  for plants, fungi or algae · CPC title

• Y02A40/146

  Genetically Modified [GMO] plants, e.g. transgenic plants · CPC title

• C12Q2600/13

  Plant traits · CPC title