Table 2.
Sorghum SNPs showing significant genome-wide associations with S. hermonthica resistance determined using traits of mean number of attachments, mean length and mean biomass (FDR correction at ∝0.05). SNPs within genes are presented with their annotations in order of chromosomal location. AF: allele frequency; AdjP: P-value after FDR adjustment. *represent SNPs common to QTL detected in Haussmann et al., 2004). Letters after SNP positions represent trait to detect the SNP: a = attachment, b = length, c = biomass
| Chr | Position | AF | AdjP | Gene ID | Annotation |
|---|---|---|---|---|---|
| 1 | 66423166c* | 0.25 | 3.03E-03 | Sobic.001G375900 | Hypothetical protein |
| 1 | 66995004a* | 0.38 | 2.20E-02 | Sobic.001G382000 | Serine/threonine-protein kinase AtPK19 |
| 2 | 1990072a* | 0.5 | 3.00E-03 | Sobic.002G021700 | F-box proteins |
| 2 | 10791041a* | 0.17 | 3.99E-04 | N/A | N/A |
| 2 | 61226505a* | 0.18 | 2.90E-03 | Sobic.002G220700 | Uncharacterized protein |
| 2 | 75881569a* | 0.14 | 2.90E-03 | N/A | N/A |
| 2 | 69292723a* | 0.17 | 5.29E-05 | Sobic.002G321300 | ABCG transporter |
| 2 | 59157949b* | 0.46 | 2.52E-04 | Sobic.002G201600 | PMT2 Methyltransferase |
| 3 | 58064948a | 0.13 | 4.00E-03 | Sobic.003G241300 | Isoflavon reductase |
| 4 | 3830076b | 0.09 | 2.83E-03 | obic.004G047001 | NA |
| 4 | 50695987a | 0.31 | 4.00E-04 | N/A | Ethylene responsive element binding factor 4 |
| 4 | 52466133b | 0.45 | 5.12E-02 | N/A | Uncharacterized protein |
| 4 | 64068558c | 0.1 | 2.00E-05 | Sobic.004G020200 | Cytosine-5- -Methyltransferase 3-Related |
| 4 | 51292838c | 0.14 | 1.84E-03 | Sobic.004G163700 | N/A |
| 4 | 53412080b | 0.43 | 1.69E-02 | Sobic.004G181500 | DNA repair protein |
| 4 | 438979c | 0.43 | 2.57E-03 | Sobic.004G005100 | Zinc finger with peptidase domain protein |
| 4 | 5610661b | 0.13 | 6.98E-03 | Sobic.004G068800 | N/A |
| 4 | 50512606b | 0.17 | 1.89E-05 | Sobic.004G158901 | Ethylene-responsive transcription factor ERF113 |
| 5 | 1591316c | 0.12 | 3.28E-03 | Sobic.005G017700 | Hypothetical protein |
| 5 | 33845800c | 0.07 | 1.00E-03 | N/A | N/A |
| 5 | 37742821c | 0.06 | 7.48E-05 | N/A | N/A |
| 5 | 52091605c | 0.13 | 1.92E-04 | N/A | N/A |
| 5 | 16194394c | 0.27 | 1.96E-03 | Sobic.005G099000 | Xylanase inhibitor 1 |
| 6 | 6412692b | 0.25 | 3.31E-02 | N/A | N/A |
| 6 | 28486530b | 0.38 | 3.31E-02 | N/A | N/A |
| 6 | 35866190b | 0.48 | 5.20E-02 | N/A | N/A |
| 6 | 45280156b | 0.16 | 2.46E-05 | N/A | Hypothetical protein |
| 6 | 52535510b | 0.24 | 4.94E-02 | N/A | N/A |
| 6 | 60968111b | 0.29 | 5.85E-03 | N/A | Secondary wall NAC transcription factor 4 |
| 6 | 1389246b | 0.33 | 4.90E-02 | Sobic.006G009400 | Peroxiredoxin1 (Prx1) |
| 6 | 54417370b | 0.2 | 3.54E-04 | Sobic.006G190000 | Downy mildew resistant 6 (DMR6) |
| 7 | 413066a | 0.12 | 4.40E-02 | Sobic.007G004500 | HSP60 |
| 7 | 7777464b | 0.24 | 2.99E-02 | Sobic.007G070000 | Uncharacterized protein |
| 7 | 8351776b | 0.22 | 4.50E-04 | N/A | N/A |
| 7 | 16156498b | 0.08 | 2.52E-04 | N/A | N/A |
| 7 | 51452375b | 0.13 | 7.49E-14 | N/A | N/A |
| 7 | 51462880b | 0.18 | 7.49E-14 | N/A | N/A |
| 9 | 5732771a* | 0.39 | 1.80E-03 | Sobic.009G056400 | Fasciclin-like arabinogalactan protein 11 |
| 10 | 2576197b | 0.19 | 3.02E-02 | Sobic.010G032000 | Early nodulin 93 |
| 10 | 3821956b* | 0.07 | 1.15E-07 | Sobic.010G049100 | Acyl coa oxidase 1 |