Table 2.
SNP–trait associations (STAs) and genes corresponding to STAs identified in the NAM_Tifrunner population
| SNP | Position in diploid genomes | STA in QTL region | Trait | Year | P val | Gene ID | Position of genes in tetraploid genome (AABB) | Function | |||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Chr | Position | Chr | Start | End | |||||||
| Affx‐152078443 | A05 | 61633387 | qPW_A05‐1 | SW | 2016 | 9.2 | Aradu.398CK | Ahy05 | 69058788 | 69056547 | Leucine‐rich repeats |
| Affx‐152026623 | A05 | 93303050 | qPW_A05‐2 | SW, PW | 2015, 2016 | 10.3 | Aradu.V498C | Ahy05 | 99487216 | 99488936 | Nucleoside triphosphatases |
| Affx‐152044207 | A05 | 93522747 | qPW_A05‐2 | SW, PW | 2015, 2016 | 13.4 | Aradu.L6QML | Ahy05 | 99718318 | 99718870 | myb transcription factor |
| Affx‐152034807 | A05 | 95201614 | qPW_A05‐2 | SW, PW | 2015, 2016 | 17.5 | Aradu.H6YZR | Ahy05 | 101322384 | 101321914 | Protein kinase superfamily protein |
| Affx‐152037557 | A05 | 95646799 | qPW_A05‐2 | SW, PW | 2015, 2016 | 17.1 | Aradu.5R3CV | Ahy05 | 101804803 | 101804290 | Unknown protein |
| Affx‐152068240 | A05 | 95688122 | qPW_A05‐2 | SW, PW | 2015, 2016 | 17.4 | Aradu.4D2H2 | Ahy05 | 37914722 | 37914949 | Sphingolipid transporter |
| Affx‐152060972 | A05 | 97867243 | qPW_A05‐3 | SW, PW | 2015, 2016 | 9.2 | Aradu.217QF | Ahy05 | 104262628 | 104264458 | Pentatricopeptide repeats (PPR) |
| Affx‐152029724 | A06 | 101049365 | qPW_A06 | SW, PW | 2015, 2016 | 5.4 | Aradu.0Y2ZI | Ahy06 | 106073906 | 106074903 | Concanavalin A‐like lectin/glucanase |
| Affx‐152072200 | A06 | 101055956 | qPW_A06 | SW, PW | 2015, 2016 | 6.4 | Aradu.Z1KSU | Ahy06 | 106081510 | 106081280 | Unknown protein |
| Affx‐152042916 | A06 | 101212919 | qPW_A06 | SW, PW | 2015, 2016 | 10.4 | Aradu.X5WFU | Ahy06 | 106322915 | 106323963 | Transcription factor jumonji |
| Affx‐152034258 | A06 | 101214044 | qPW_A06 | SW, PW | 2015, 2016 | 9.9 | Aradu.X5WFU | Ahy06 | 106322915 | 106323963 | Transcription factor jumonji |
| Affx‐152044720 | A06 | 101300979 | qPW_A06 | SW, PW | 2015, 2016 | 7.7 | Aradu.5LG80 | Ahy06 | 106389203 | 106388512 | Plastid‐lipid‐associated protein (PAP) |
| Affx‐152041119 | A06 | 101302040 | ‐ | SW, PW | 2015, 2016 | 9.3 | Aradu.FL7G4 | Ahy07 | 5968474 | 5968026 | Plastid‐lipid‐associated protein (PAP) |
| Affx‐152058135 | A09 | 71878357 | ‐ | SW | 2016 | 7.4 | Aradu.20W1Q | Ahy09 | 72158341 | 72158836 | Basic leucine zipper |
| Affx‐152072236 | B05 | 17051675 | qPW_B05 | SW, PW | 2015, 2016 | 12.2 | Araip.22PIW | Ahy15 | 17648595 | 17650297 | Acyl‐CoA synthetase |
| Affx‐152073838 | B05 | 93426656 | qPW_B05 | SW, PW | 2015, 2016 | 13.9 | Araip.N2NX2 | Ahy15 | 99201207 | 99201565 | GDP‐fucose protein O fucosyltransferase |
| Affx‐152075875 | B06 | 125101917 | qPW_B06‐2 | PW | 2015 | 5.3 | Araip.YL4Q6 | Ahy16 | 138952178 | 138951677 | Uncharacterized protein |
| Affx‐152035548 | B06 | 125236516 | qPW_B06‐2 | SW, PW | 2015, 2016 | 9.3 | Araip.DII6F | Ahy16 | 139079635 | 139080408 | Transcription factor jumonji |
| Affx‐152033888 | B07 | 119939393 | qPW_B07‐2 | SW | 2016 | 5.1 | Araip.Z2RR8 | Ahy17 | 128309992 | 128309051 | Protein kinase family protein |
| Affx‐152067055 | B07 | 1931980 | qPW_B07‐1 | PW | 2016 | 5.6 | Araip.H8C7N | Ahy17 | 2860547 | 2863439 | C2H2‐like zinc finger protein |
| Affx‐152054860 | B07 | 1941111 | qPW_B07‐1 | PW | 2016 | 5.8 | Araip.G1WAG | Ahy17 | 2870129 | 2869673 | Heat‐shock protein binding |
| Affx‐152028948 | B07 | 1944622 | qPW_B07‐1 | PW | 2016 | 5.4 | Araip.05GH3 | Ahy17 | 2877877 | 2878795 | Mitochondrial transcription termination |
| Affx‐152043830 | B07 | 1945325 | qPW_B07‐1 | PW | 2016 | 5.7 | Araip.R0K9W | Ahy17 | 2877794 | 2876876 | CCCH‐type zinc finger protein |
| Affx‐152069626 | B07 | 648238 | ‐ | PW | 2016 | 6.8 | Araip.Y2DTS | Ahy17 | 1514508 | 1513921 | Polygalacturonase |