Genome-wide association studies for yield-related traits in soft red winter wheat grown in Virginia

PloS One
Brian P WardCarl A Griffey

Abstract

Grain yield is a trait of paramount importance in the breeding of all cereals. In wheat (Triticum aestivum L.), yield has steadily increased since the Green Revolution, though the current rate of increase is not forecasted to keep pace with demand due to growing world population and increasing affluence. While several genome-wide association studies (GWAS) on yield and related component traits have been performed in wheat, the previous lack of a reference genome has made comparisons between studies difficult. In this study, a GWAS for yield and yield-related traits was carried out on a population of 322 soft red winter wheat lines across a total of four rain-fed environments in the state of Virginia using single-nucleotide polymorphism (SNP) marker data generated by a genotyping-by-sequencing (GBS) protocol. Two separate mixed linear models were used to identify significant marker-trait associations (MTAs). The first was a single-locus model utilizing a leave-one-chromosome-out approach to estimating kinship. The second was a sub-setting kinship estimation multi-locus method (FarmCPU). The single-locus model identified nine significant MTAs for various yield-related traits, while the FarmCPU model identified 74 significant MTAs...Continue Reading

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Citations

Feb 23, 2020·Frontiers in Plant Science·Jessica SchmidtDelphine Fleury
Apr 29, 2020·PloS One·Dennis N LozadaArron H Carter
Jun 30, 2019·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Saarah KuzayJorge Dubcovsky
Jun 30, 2019·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Kai P Voss-FelsBenjamin Wittkop
Nov 24, 2020·BMC Plant Biology·Kamal KhadkaAlireza Navabi
Feb 16, 2021·Frontiers in Genetics·Samuel B FernandesAlexander E Lipka
Oct 26, 2021·Frontiers in Plant Science·Jessica DelfiniLeandro Simões Azeredo Gonçalves
Jan 14, 2022·PLoS Genetics·Saarah KuzayJorge Dubcovsky

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Methods Mentioned

BETA
Genome
environmental stress
genotyping

Software Mentioned

FarmCPUpp ’
SNPRelate
- GBS
VCFtools
R package ‘ MonoPoly ’
Genome
FaST
PLINK
SynOp
TASSEL

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