Identification of domestication-related loci associated with flowering time and seed size in soybean with the RAD-seq genotyping method

Scientific Reports
Ling ZhouYuan-Ming Zhang

Abstract

Flowering time and seed size are traits related to domestication. However, identification of domestication-related loci/genes of controlling the traits in soybean is rarely reported. In this study, we identified a total of 48 domestication-related loci based on RAD-seq genotyping of a natural population comprising 286 accessions. Among these, four on chromosome 12 and additional two on chromosomes 11 and 15 were associated with flowering time, and four on chromosomes 11 and 16 were associated with seed size. Of the five genes associated with flowering time and the three genes associated with seed size, three genes Glyma11g18720, Glyma11g15480 and Glyma15g35080 were homologous to Arabidopsis genes, additional five genes were found for the first time to be associated with these two traits. Glyma11g18720 and Glyma05g28130 were co-expressed with five genes homologous to flowering time genes in Arabidopsis, and Glyma11g15480 was co-expressed with 24 genes homologous to seed development genes in Arabidopsis. This study indicates that integration of population divergence analysis, genome-wide association study and expression analysis is an efficient approach to identify candidate domestication-related genes.

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Aug 9, 2016·Annual Review of Cell and Developmental Biology·Takehiko Ogura, Wolfgang Busch
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Aug 9, 2020·Frontiers in Plant Science·Mohammad PourkheirandishMohan B Singh
Jan 31, 2017·The New Phytologist·Eric J SedivyYoshie Hanzawa

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Datasets Mentioned

BETA
GSE29163

Methods Mentioned

BETA
genotyping

Software Mentioned

Burrows Alignment Tool ( BWA )
SolexaPipeline
SAS
GATK
BLASTX
STRUCTURE
Genepop
TASSEL

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