Single Nucleotide Polymorphism (SNP) Markers for Phaseolus Vulgaris L. and Methods of Use Thereof In Selection Efficiency with Breeding Strategies

Patent metadata

Field	Value
Publication number	US-2020008380-A1
Application number	US-201916535342-A
Country	US
Kind code	A1
Filing date	Aug 8, 2019
Priority date	Dec 11, 2017
Publication date	Jan 9, 2020
Grant date	—

Abstract

The invention provides processes for marker assisted selection of common beans expressing volatile compounds that provide flavor traits associated with single nucleotide polymorphisms (SNPs) and/or sequences flanking SNPs, as well as allele-specific oligo sequence primers configured to anneal to related SNPs and to report the presence or absence of SNPs with fluorescent signals using a PCR assay, a KASP assay (i.e., modified PCR assay), or other molecular marker assay, e.g., SSR, capable of identifying the presence or absence of SNPs and/or portions of flanking sequences of the SNPs, all of which enhances selection efficiency in common bean breeding strategies.

First claim

1 .- 23 . (canceled)

24 . A method for producing a common bean plant with enhanced flavor traits, the enhanced flavor traits comprising phenotypic expression of a volatile compound comprising 1-penten-3-ol, the method comprising,
providing a first common bean plant having a single nucleotide polymorphism (SNP) identified as SNP 9 having an A or G nucleotide at a position that corresponds to position 24 of SEQ ID NO. 9; providing a second common bean plant that does not have a single nucleotide polymorphism (SNP) that corresponds with expression by the first common bean plant of SNP 9; crossing the first common bean plant with the second common bean plant to produce an F1 generation; and identifying one or more members of the F1 generation for a presence of SNP 9.

25 . The method of claim 24 further comprising selecting a first F1 generation plant and a second F1 generation plant based on the presence of SNP 9, crossing the first F1 generation plant and the second F1 generation plant, and then identifying the presence of SNP 9 in one or more members of a F2 generation.

26 . The method of claim 25 further comprising selecting members of the F2 generation based on the presence of SNP 9 for growth of pedigrees selected for the presence of SNP 9.

27 . The method of claim 25 wherein SNP 9 is associated with phenotypic expression of 1-penten-3-ol in the first common bean plant, in the members of the F1 generation having SNP 9, and in the members of the F2 generation having SNP 9.

28 . The method of claim 27 wherein identifying expression of volatile compound 1-penten-3-ol comprises using a pair of PCR Primers comprising SEQ ID NO: 51 and SEQ ID NO: 52 configured to identify SNP 9.

29 . A method for introgressing a gene associated with phenotypic expression of flavor traits of 1-penten-3-ol expressed in a common bean plant, the method comprising:
screening a population of common bean plants for the presence of SNP 9 with a PCR reaction or a modified PCR reaction with KASP primers, the PCR reaction or modified PCR reaction comprising a primer pair comprising SEQ ID NO: 51 and SEQ ID NO: 52 configured to identify SNP 9; selecting from the population a first common bean plant having SNP 9 associated with the desired flavor traits of 1-penten-3-ol; crossing the first common bean plant with a second common bean plant that may or may not have SNP 9; repeating the steps of selecting and crossing to obtain a progeny common bean plant homozygous for SNP 9; and screening the progeny to confirm presence of SNP 9 in homozygous form to produce a common bean seed.

Assignees

• Univ Oregon State

Inventors

• Wallace Lyle T
• Myers James R

Classifications

• C12Q2600/13

  Plant traits · CPC title

• C12Q1/6895

  for plants, fungi or algae · CPC title

• C12N15/8213

  Targeted insertion of genes into the plant genome by homologous recombination · CPC title

• C12Q2600/156

  Polymorphic or mutational markers · CPC title

• A01H5/02 Primary

  Flowers · CPC title