Number of germplasm analyzed | 2,000 |
---|---|
Number of loci tested | 42,449 |
Platform name | SoySNP50K |
Platform details | SoySNP50K iSelect SNP Beadchip |
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
SoyBase | SOY:0001335 |
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GO | GO:0009624 |
TO | TO:0000384 |
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 | Associated locus | Candidate gene | Chromosome | Linkage Group |
---|---|---|---|---|---|
SCN 1-g1 | Soybean cyst nematode | ss715585930 | Glyma03g32710 | Gm03 | N |
SCN 1-g2 | Soybean cyst nematode | ss715587144 | Glyma04g02030 | Gm04 | C1 |
SCN 1-g3 | Soybean cyst nematode | ss715596418 | Glyma07g15737 | Gm07 | M |
SCN 1-g4 | Soybean cyst nematode | ss715597063 | Glyma07g26831 | Gm07 | M |
SCN 1-g5 | Soybean cyst nematode | ss715597387 | Glyma07g31270 | Gm07 | M |
SCN 1-g6 | Soybean cyst nematode | ss715604895 | Glyma09g40353 | Gm09 | K |
SCN 1-g7 | Soybean cyst nematode | ss715608711 | Glyma10g10040 | Gm10 | O |
SCN 1-g8 | Soybean cyst nematode | ss715606985 | Glyma10g31610 | Gm10 | O |
SCN 1-g9 | Soybean cyst nematode | ss715607371 | Glyma10g35560 | Gm10 | O |
SCN 1-g10 | Soybean cyst nematode | ss715610297 | Glyma11g34961 | Gm11 | B1 |
SCN 1-g11 | Soybean cyst nematode | ss715614441 | Glyma13g22631 | Gm13 | F |
SCN 1-g12 | Soybean cyst nematode | ss715614679 | Glyma13g24140 | Gm13 | F |
SCN 1-g13 | Soybean cyst nematode | ss715614683 | Glyma13g24150 | Gm13 | F |
SCN 1-g14 | Soybean cyst nematode | ss715619560 | Glyma14g40360 | Gm14 | B2 |
SCN 1-g15 | Soybean cyst nematode | ss715622290 | Glyma15g40260 | Gm15 | E |
SCN 1-g16 | Soybean cyst nematode | ss715632607 | Glyma18g01360 | Gm18 | G |
SCN 1-g17 | Soybean cyst nematode | ss715632750 | Glyma18g01510 | Gm18 | G |
SCN 1-g18 | Soybean cyst nematode | ss715628786 | Glyma18g02140 | Gm18 | G |
SCN 1-g19 | Soybean cyst nematode | ss715629308 | Glyma18g02700 | Gm18 | G |
SCN 1-g20 | Soybean cyst nematode | ss715629914 | Glyma18g03240 | Gm18 | G |
SCN 1-g21 | Soybean cyst nematode | ss715630294 | Glyma18g04540 | Gm18 | G |
SCN 1-g22 | Soybean cyst nematode | ss715628444 | Glyma18g11790 | Gm18 | G |
SCN 1-g23 | Soybean cyst nematode | ss715633078 | Glyma19g01580 | Gm19 | L |
SCN 1-g24 | Soybean cyst nematode | ss715637107 | Glyma20g02910 | Gm20 | I |
SCN 1-g25 | Soybean cyst nematode | ss715638409 | Glyma20g33531 | Gm20 | I |
Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||