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GWAS Report for Seed weight 3

Experimental Details

Number of germplasm analyzed	169
Number of loci tested	6,000
Platform name	BARCSoySNP6K
Platform details	Illumina BeadChip

Publication for This Experiment

A Genome-Wide Association Study for Agronomic Traits in Soybean Using SNP Markers and SNP-Based Haplotype Analysis
(Contreras-Sota et al. 2017a)

PLoS ONE. 2017, 12(2):e0171105
10.1371/journal.pone.0171105

Supplemental data for the GWAS QTL
trait-associated loci, candidate genes, near-by QTL

Controlled vocabulary terms associated with the QTL Family

SoyBase	SOY:0001629
PO	PO:0009010
TO	TO:0000181

Other traits reported in this paper

• Seed yield 3
• Plant height 3

GWAS QTL

The GWAS QTL can be shown in either the SoyBase CMap Genetic Map Viewer (where it can be compared to the other GWAS and biparental QTL) or in the SoyBase GBrowse Genome Viewer (where it can be compared to the genes in that chromosomal region). When a candidate gene has been identified clicking on the gene name ('Glyma') opens the SoyBase Gene Report page for that gene.

GWAS QTL name	Associated locus	R2	Candidate gene	Chromosome	Linkage Group
Seed weight 3-g1	ss715592623	9.92	LOC100784416	Gm05	A1
Seed weight 3-g2	ss715592632	9.92	Glyma05g09390	Gm05	A1
Seed weight 3-g3	ss715613203	9.92		Gm12	H
Seed weight 3-g4	ss715613207	12.89		Gm12	H
Seed weight 3-g5	ss715613104	12.33		Gm12	H
Seed weight 3-g6	ss715610817	10.08		Gm11	B1
Seed weight 3-g7	ss715598558	9.78	Glyma.07g076800	Gm07	M
Seed weight 3-g8	ss715613203	8.92		Gm12	H

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