Table 3. Significant SNPs associated with tocochromanols, and annotated sequences known or predicted to be associated with the tocochromanol biosynthesis pathway that occurred within 2 cM of a significant marker.
| SNP Marker orAnnotated Genome Sequence | Chromosome/ Region* | Position (cM)** | Position (bp)*** | Morex Contig Number | Sequence Annotation |
|---|---|---|---|---|---|
| MLOC_16149 | 1H-A | 108 | 430,628,647–430,636,996 | 157254 | Resembles genes encoding HGGT and VTE2, and enzymes upstream of geranylgeranyl diphosphate biosynthesis |
| 11_20021 | 1H-A | 110 | Unknown | 48282 | SNP Marker |
| 11_10586 | 1H-B | 128 | 447,413,118 | 171284 | SNP Marker |
| MLOC_72891 | 6H-A | 56 | 84,648,047–84,652,085 | 62562 | Resembles genes encoding enzymes upstream of geranylgeranyl diphosphate biosynthesis |
| MLOC_44750 | 6HA | 58 | 145,761,890–145,768,330 | 275292 | Resembles genes encoding enzymes upstream of geranylgeranyl diphosphate biosynthesis |
| 12_30802 | 6H-A | 58 | 164,529,448 | 1592014 | SNP Marker |
| MLOC_66290 | 6H-A | 59 | 265,678,548–265,680,735 | 51352 | Resembles genes encoding enzymes upstream of geranylgeranyl diphosphate biosynthesis |
| 12_30637 | 6H-B | 71 | 432,652,993 | 1559740 | SNP Marker |
| MLOC_13082 | 6H-B | 71 | 437,175,681–437,178,395 | 1564754 | Resembles gene encoding VTE4 |
| 12_30296 | 7H-A | 1 | 2,219,656 | 178733 | SNP Marker |
| 11_21201 | 7H-B | 95 | Unknown | 45924 | SNP Marker |
| 11_20311 | 7H-B | 96 | Unknown | 1566790 | SNP Marker |
| 11_21209 | 7H-C | 136 | 570,924,522 | 1579096 | SNP Marker |
| MLOC_37476 | 7H-C | 138 | 575,423,330–575,428,610 | 25484480 | Resembles genes encoding enzymes upstream of geranylgeranyl diphosphate, and VTE2-1 |
| 11_10861 | 7H-C | 139 | Unknown | 7405 | SNP Marker |
| 11_10797 | 7H-C | 141 | 577,196,196 | 354235 | SNP Marker |
| 12_10973 | 7H-C | 142 | 578,753,062 | 77635 | SNP Marker |
| MLOC_12567 | 7H-C | 145 | 584,322,177–584,325,723 | 1563577 | HGGT |
| 11_10885 | 7H-C | 145 | 584,352,965 | 2547604 | SNP Marker |
*Regions, as defined in text, refer to chromosome regions with different QTLs/candidate genes. **Linkage map positions (Muñoz-Amatriaín et al. 2011).
***Genome sequence positions, (International Barley Genome Sequencing Consortium 2012).