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GWAS Report for Phytoph 3

Experimental Details

Number of germplasm analyzed	2,000
Number of loci tested	42,449
Platform name	SoySNP50K
Platform details	SoySNP50K iSelect SNP Beadchip

Publication for This Experiment

Characterization of Disease Resistance Loci in the USDA Soybean Germplasm Collection using Genome-wide Association Studies
(Chang et al. 2016a)

Chang et al. Phytopathology 2016, 106(10):1139-1151
10.1094/PHYTO-01-16-0042-FI

Controlled vocabulary terms associated with the QTL Family

SoyBase	SOY:0001716
TO	TO:0000439

Other traits reported in this paper

• Bacterial pustule 1
• BSR 1
• Diaporthe stem canker 1
• SDS 2
• Asian Soybean Rust 1
• Reniform nematode 1
• SCN 1
• Bean pod mottle virus 1
• Peanut mottle virus 1
• Soybean mosaic virus 1

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	Chromosome	Linkage Group
Phytoph 3-g1	ss715585493	Gm03	N
Phytoph 3-g2	ss715585633	Gm03	N
Phytoph 3-g3	ss715585710	Gm03	N
Phytoph 3-g4	ss715585729	Gm03	N
Phytoph 3-g5	ss715585731	Gm03	N
Phytoph 3-g6	ss715585740	Gm03	N
Phytoph 3-g7	ss715585768	Gm03	N
Phytoph 3-g8	ss715585797	Gm03	N
Phytoph 3-g9	ss715585805	Gm03	N
Phytoph 3-g10	ss715585823	Gm03	N
Phytoph 3-g11	ss715585847	Gm03	N
Phytoph 3-g12	ss715586320	Gm03	N
Phytoph 3-g13	ss715586333	Gm03	N
Phytoph 3-g14	ss715586346	Gm03	N
Phytoph 3-g15	ss715586376	Gm03	N
Phytoph 3-g16	ss715586408	Gm03	N
Phytoph 3-g17	ss715586443	Gm03	N
Phytoph 3-g18	ss715586684	Gm03	N
Phytoph 3-g19	ss715586702	Gm03	N
Phytoph 3-g20	ss715614850	Gm13	F
Phytoph 3-g21	ss715614911	Gm13	F
Phytoph 3-g22	ss715614930	Gm13	F
Phytoph 3-g23	ss715614952	Gm13	F
Phytoph 3-g24	ss715615279	Gm13	F
Phytoph 3-g25	ss715632317	Gm18	G
Phytoph 3-g26	ss715632325	Gm18	G
Phytoph 3-g27	ss715632331	Gm18	G
Phytoph 3-g28	ss715632336	Gm18	G

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