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GWAS Report for Pythium root rot 1

Experimental Details

Number of germplasm analyzed	247
Number of loci tested	1740
Platform name	WGS, USLP 1.0
Platform details	WGS using Illumina sequencing and USLP 1.0 SNP chip

Publication for This Experiment

Molecular characterization of genomic regions for resistance to Pythium ultimum var. ultimum in the soybean cultivar Magellan
(Klepadlo et al. 2019)

Klepadlo et al. Theoret. Appl. Genet. (2019) 132:405–417
10.1007/s00122-018-3228-x

Controlled vocabulary terms associated with the QTL Family

SoyBase	SOY:0001465
TO	TO:0000439

Other traits reported in this paper

• Pythium root rot 2

Comments

Genotyping was carried out using Whole Genome Resequencing and USLP snp chip using a number of phenotypes. All QTL were the same within a modality so only plant stand QTL reported.

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	Original name	LOD	Candidate gene	Chromosome	Linkage Group
Pythium root rot 1-g1	USLP_1.0_Exp1_Gm06	6.6	Glyma03g03815	Gm06	C2
USLP 1.0 Experiment 1 QTL, Plant Stand, Only range reported
Pythium root rot 1-g2	USLP_1.0_Exp1_Gm08	4.4	Glyma03g03870	Gm08	A2
USLP 1.0 Experiment 1 QTL, Plant Stand, Only range reported
Pythium root rot 1-g3	USLP_1.0_Exp1_Gm06	8.1	Glyma03g03920	Gm06	C2
USLP 1.0 Experiment 2 QTL, Plant stand, Only range reported
Pythium root rot 1-g4	USLP_1.0_Exp1_Gm08	6.1	Glyma03g03930	Gm08	A2
USLP 1.0 Experiment 2 QTL, Plant stand, Only range reported

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