SoyBase
Follow us on Twitter @SoyBaseDatabase
Integrating Genetics and Genomics to Advance Soybean Research
SoyBase
Follow us on Twitter @SoyBaseDatabase
| Number of germplasm analyzed | 189 |
|---|---|
| Number of loci tested | 52,041 |
| Platform name | SoySNP50K |
| Platform details | SoySNP50K beadchip |
Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V
(Qin et al. 2017a)
PLoS ONE 2017, 12(9), 1-8
10.1371/journal.pone.0184613
| SoyBase | SOY:0001716 |
|---|---|
| TO | TO:0000439 |
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 | LOD | Candidate gene | Chromosome | Linkage Group |
|---|---|---|---|---|---|
| Phytoph 2-g1 | ss715585768 | 4.21 | Glyma.03g042700 | Gm03 | N |
| Phytoph 2-g2 | ss715592224 | 3.53 | Glyma.05g238100 | Gm05 | A1 |
| Phytoph 2-g3 | ss715592229 | 3.53 | Glyma.05g238100 | Gm05 | A1 |
| Phytoph 2-g4 | ss715614941 | 4.13 | Glyma.13g176600 | Gm13 | F |
| Phytoph 2-g5 | ss715614943 | 4.13 | Glyma.13g176600 | Gm13 | F |
| Phytoph 2-g6 | ss715631615 | 3.28 | Glyma.18g261900 | Gm18 | G |
| Phytoph 2-g7 | ss715596704 | 3.25 | Glyma.07g023300 | Gm07 | M |
| Phytoph 2-g8 | ss715586336 | 4.21 | Glyma.03g042700 | Gm03 | N |
| Phytoph 2-g9 | ss715588829 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g10 | ss715588855 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g11.1 | ss715588857 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g11.2 | ss715588858 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g12.1 | ss715588863 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g12.2 | ss715588864 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g13.1 | ss715588866 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g13.2 | ss715588867 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g13.3 | ss715588868 | 4.12 | Glyma.04g190700 | Gm04 | C1 |
| Phytoph 2-g14 | ss715613726 | 3.65 | Glyma.13g030300 | Gm13 | F |
| Phytoph 2-g15 | ss715617288 | 3.65 | Glyma.13g030300 | Gm13 | F |
| Phytoph 2-g16 | ss715585114 | 4.63 | Glyma.03g109900 | Gm03 | N |
| Phytoph 2-g17 | ss715586846 | 4.21 | Glyma.03g042700 | Gm03 | N |
| Phytoph 2-g18 | ss715606847 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g19.1 | ss715606853 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g19.2 | ss715606854 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g19.3 | ss715606855 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g20.1 | ss715606857 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g20.2 | ss715606859 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g21 | ss715606865 | 9.99 | Glyma.10g161500 | Gm10 | O |
| Phytoph 2-g22 | ss715619920 | 4.22 | Glyma.14g087500 | Gm14 | B2 |
| Phytoph 2-g23 | ss715619924 | 4.22 | Glyma.14g087500 | Gm14 | B2 |
| Phytoph 2-g24 | ss715619926 | 4.22 | Glyma.14g087500 | Gm14 | B2 |
| Phytoph 2-g25 | ss715631508 | 3.28 | Glyma.18g254000 | Gm18 | G |
| Phytoph 2-g26 | Gm03:3889598 | 5.12 | Glyma.03g034400 | Gm03 | N |
| Phytoph 2-g27 | Gm05:41615242 | 3.25 | Glyma.05g209300 | Gm05 | A1 |
| Phytoph 2-g28 | Gm05:41648449 | 3.16 | Glyma.05g213400 | Gm05 | A1 |
| Phytoph 2-g29 | Gm13:29036850 | 4.01 | Glyma.13g184800 | Gm13 | F |
| Phytoph 2-g30 | Gm13:29042122 | 4.18 | Gm13 | F | |
| Phytoph 2-g31 | Gm18:54969812 | 5.45 | Gm18 | G | |
| Phytoph 2-g32 | Gm07:185603 | 4.40 | Glyma.07g007800 | Gm07 | M |
| Phytoph 2-g33 | Gm03:4482448 | 3.68 | Glyma.03g037000 | Gm03 | N |
| Phytoph 2-g34 | Gm04:47077729 | 4.36 | Gm04 | C1 | |
| Phytoph 2-g35 | Gm04:47313368 | 5.02 | Gm04 | C1 | |
| Phytoph 2-g36 | Gm04:47321023 | 4.36 | Gm04 | C1 | |
| Phytoph 2-g37 | Gm04:47329974 | 4.36 | Gm04 | C1 | |
| Phytoph 2-g38 | Gm04:47344338 | 4.55 | Gm04 | C1 | |
| Phytoph 2-g39 | Gm04:47346053 | 5.90 | Gm04 | C1 | |
| Phytoph 2-g40 | Gm04:47350352 | 5.21 | Gm04 | C1 | |
| Phytoph 2-g41 | Gm04:47367432 | 4.56 | Gm04 | C1 | |
| Phytoph 2-g42 | Gm04:47371413 | 4.62 | Glyma.04g205200 | Gm04 | C1 |
| Phytoph 2-g43 | Gm13:10487933 | 4.13 | Glyma.13g028100 | Gm13 | F |
| Phytoph 2-g44 | Gm13:9381699 | 4.39 | Gm13 | F | |
| Phytoph 2-g45 | Gm03:31136061 | 3.67 | Glyma.03g149600 | Gm03 | N |
| Phytoph 2-g46 | Gm03:5486669 | 6.90 | Gm03 | N | |
| Phytoph 2-g47 | Gm10:39347529 | 5.88 | Glyma.10g127500 | Gm10 | O |
| Phytoph 2-g48 | Gm10:39354992 | 5.80 | Gm10 | O | |
| Phytoph 2-g49 | Gm10:39358965 | 5.88 | Gm10 | O | |
| Phytoph 2-g50 | Gm10:39364212 | 5.88 | Glyma.10g129400 | Gm10 | O |
| Phytoph 2-g51 | Gm10:39365693 | 5.88 | Glyma.10g184300 | Gm10 | O |
| Phytoph 2-g52 | Gm10:39376495 | 5.88 | Gm10 | O | |
| Phytoph 2-g53 | Gm10:39394332 | 5.88 | Glyma.10g196700 | Gm10 | O |
| Phytoph 2-g54 | Gm14:7839347 | 6.73 | Glyma.14g079500 | Gm14 | B2 |
| Phytoph 2-g55 | Gm14:7853431 | 6.73 | Glyma.14g079600 | Gm14 | B2 |
| Phytoph 2-g56 | Gm18:53821341 | 7.97 | Gm18 | G |
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
