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GWAS Report for SCN 5

Experimental Details

Number of germplasm analyzed	209
Number of loci tested	768
Platform name	GoldenGate assay
Platform details	Illumina GoldenGate assay

Publication for This Experiment

Dissecting the Genetic Basis of Resistance to Soybean Cyst Nematode Combining Linkage and Association Mapping
(Li et al. 2016a)

Plant Genome 2016, 9(2):1-11
10.3835/plantgenome2015.04.0020

Controlled vocabulary terms associated with the QTL Family

SoyBase	SOY:0001335
GO	GO:0009624
TO	TO:0000384

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
SCN 5-g1	Satt184	Gm01	D1a
SCN 5-g2	Satt267	Gm01	D1a
SCN 5-g3	Satt157	Gm02	D1b
SCN 5-g4	Satt216	Gm02	D1b
SCN 5-g5	Satt022	Gm03	N
SCN 5-g6	Satt339	Gm03	N
SCN 5-g7	Satt530	Gm03	N
SCN 5-g8	Satt194	Gm04	C1
SCN 5-g9	Satt565	Gm04	C1
SCN 5-g10	Satt236	Gm05	A1
SCN 5-g11	Satt300	Gm05	A1
SCN 5-g12	Satt281	Gm06	C2
SCN 5-g13	Satt286	Gm06	C2
SCN 5-g14	Satt307	Gm06	C2
SCN 5-g15	Satt346	Gm07	M
SCN 5-g16	Satt590	Gm07	M
SCN 5-g17	Satt390	Gm08	A2
SCN 5-g18	Satt409	Gm08	A2
SCN 5-g19	Satt242	Gm09	K
SCN 5-g20	Satt588	Gm09	K
SCN 5-g21	Satt243	Gm10	O
SCN 5-g22	Gm11:4572326	Gm11	B1
SCN 5-g23	Gm11:11368576	Gm11	B1
SCN 5-g24	Gm11:33391349	Gm11	B1
SCN 5-g25	Satt197	Gm11	B1
SCN 5-g26	Satt279	Gm12	H
SCN 5-g27	Satt442	Gm12	H
SCN 5-g28	Satt146	Gm13	F
SCN 5-g29	Satt586	Gm13	F
SCN 5-g30	Satt168	scaffold_28	F
SCN 5-g31	Satt556	Gm14	B2
SCN 5-g32	Gm15:7288161	Gm15	E
SCN 5-g33	Gm15:13087673	Gm15	E
SCN 5-g34	Gm15:25672764	Gm15	E
SCN 5-g35	Gm15:35031879	Gm15	E
SCN 5-g36	Satt230	Gm07	M
SCN 5-g37	Satt414	Gm16	J
SCN 5-g38	Satt431	Gm16	J
SCN 5-g39	Satt596	Gm16	J
SCN 5-g40	Gm17:6594127	Gm17	D2
SCN 5-g41	Gm17:32522076	Gm17	D2
SCN 5-g42	Gm17:36977039	Gm17	D2
SCN 5-g43	Satt488	Gm17	D2
SCN 5-g44	Satt191	Gm18	G
SCN 5-g45	Satt288	Gm18	G
SCN 5-g46	Gm19:378792	Gm19	L
SCN 5-g47	Gm19:22875803	Gm19	L
SCN 5-g48	Gm19:36986673	Gm19	L
SCN 5-g49	Gm19:41542226	Gm19	L
SCN 5-g50	Satt373	Gm19	L
SCN 5-g51	Satt239	Gm20	I
SCN 5-g52	Satt571	Gm20	I
SCN 5-g53	Sct_189	Gm20	I

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