TABLE 2.
Haplotype blocks used as fixed effects in GS models for GY in B-5IR and B2-IR environments. The favorable haplotype(s) is underscored.
| Bed-5IR | Bed-2IR | |||||||
| Haplotype blocks | Haplotypes | Favorable allele effect on mean GY (kg/ha) | Haplotype blocks | Haplotypes | Favorable allele effect on mean GY (kg/ha) | |||
| HB1.10 (1A) S1A_535441795, S1A_535441797 |
AC GA |
EYT2011-12 8,664 8,544 |
EYT2014-15 5,600 5,446 |
HB2.23 (1B) S1B_678416771, S1B_678416817 |
AG GA |
EYT2012-13 4,834 4,663 |
EYT2013-14 3,707 3,636 |
|
| HB2.5 (1B) S1B_20269363, S1B_20287464 |
AC GA |
EYT2011-12 8,581 8,793 |
EYT2014-15 5,593 5,678 |
HB4.30 (2A) S2A_211705334, S2A_211705336 |
CC TT |
EYT2014-15 4,439 4,586 |
EYT2015-16 3,163 3,228 |
|
| HB4.38 (2A) S2A_748528721, S2A_748528738 |
AA GA GG |
EYT2012-13 7,744 7,962 7,571 |
EYT2013-14 6,189 6,149 5,962 |
EYT2014-15 5,594 5,464 5,285 |
HB5.1 (2B) S2B_8754756, S2B_8754774 |
GT TC TT |
EYT2011-12 3,690 3,873 3,902 |
EYT2014-15 4,491 4,588 4,737 |
| HB4.50 (2A) S2A_779846680, S2A_779846718 |
AA GG |
EYT2012-13 7,587 7,781 |
EYT2013-14 6,056 6,296 |
HB5.53 (2B) S2B_795302376, S2B_795302390 |
AT CC |
EYT2013-14 3,662 3,774 |
EYT2014-15 4,582 4,585 |
|
| HB5.11 (2B) S2B_71692883, S2B_71692929 |
CC GT |
EYT2013-14 6,148 5,964 |
EYT2014-15 5,485 5,716 |
HB7.19 (3A) S3A_651647755, S3A_651647756 |
CG TC |
EYT2013-14 3,684 3,774 |
EYT2014-15 4,509 4,659 |
|
| HB5.19 (2B) S2B_142247929 S2B_142247930 |
CA TG |
EYT2011-12 8,617 8,476 |
EYT2014-15 5,645 5,369 |
HB8.2 (3B) S3B_7031744, S3B_7031759 |
CC TT |
EYT2013-14 3,770 3,624 |
EYT2014-15 4,560 4,411 |
|
| HB5.21 (2B) S2B_178761042, S2B_178771120 |
CC CT GC |
EYT2012-13 7,750 7,780 7,634 |
EYT2013-14 6,000 6,226 6,086 |
HB8.28 (3B) S3B_755079571, S3B_755079586 |
CA TT |
EYT2011-12 3,726 3,585 |
EYT2014-15 4,649 4,513 |
|
| HB11.3 (4B) S4B_4128125, S4B_4128135 |
CG GC |
EYT2012-13 7,799 7,677 |
EYT2015-16 6,949 7,153 |
HB14.16 (5B) S5B_387952822, S5B_387952832 |
CA TT |
EYT2013-14 3,646 3,754 |
EYT2015-16 3,168 3,239 |
|
| HB14.38 (5B) S5B_571861468, S5B_571861476 |
GA TG |
EYT2011-12 8,476 8,768 |
EYT2013-14 6,016 6,180 |
HB17.1 (6B) S6B_3567046, S6B_3567059, S6B_3567083 |
CAA CAC TTC |
EYT2013-14 3,723 |
||
| HB19.8 (7A) S7A_36087756, S7A_36087757, S7A_36096388 |
AGA AGG GAG |
EYT2011-12 8,569 8,191 8,687 |
EYT2013-14 5,859 5,894 6,166 |
HB19.39 (7A) S7A_675454642, S7A_675454643 |
CT TG |
EYT2013-14 3,729 3,671 |
EYT2015-16 3,157 3,266 |
|
| HB20.12 (7B) S7B_160614818, S7B_160614819 |
CG TA |
EYT2011-12 8,690 8,558 |
EYT2014-15 5,689 5,554 |
|||||
| HB20.41 (7B) S7B_724005624, S7B_724005636, S7B_724005641 |
ATA GCG GTG |
EYT2013-14 5,989 6,157 6,263 |
EYT2014-15 5,413 5,615 5,678 |
|||||
The markers included in haplotype blocks are shown under block names. The number in marker name represents physical positions of SNPs based on wheat reference genome vs. 1.0.