Table 2.
Potential candidate genes related to the identified regions associated with endoparasite resistance traits
| BTA | Positiona | No. of associations (total no. of SNP markers)b | Position of maximum association (P-value) | Gene symbol | Referencec |
|---|---|---|---|---|---|
| rFEC-GIN | |||||
| 4 | 93,956,587 – 94,148,561 § | 1 (33) | 94,017,547 (1.97 × 10− 6) * | AHCYL2 | ENSBTAG00000001754 | 532836 |
| 5 | 6,777,101 – 7,678,220 § | 1 (197) | 7,162,997 (3.59 × 10− 6) * | NAV3 | ENSBTAG00000009852 | 528870 |
| 18 | 15,929,200 – 16,156,356 § | 1 (10) | 16,111,659 (2.79 × 10− 6) * | PHKB | ENSBTAG00000004806 | 511783 |
| 22 | 890,106 – 1,107,725 § | 1 (25) | 992,265 (6.41 × 10− 6) * | EGFR | ENSBTAG00000011628 | 407217 |
| 24 | 61,568,972 – 61,792,092 § | 2 (53) | 61,565,663 (1.02 × 10− 5) *# | PHLPP1 | ENSBTAG00000045832 | 615982 |
| rFEC-FH | |||||
| 1 | 50,331,575 – 50,562,844 § | 1 (54) | 50,365,140 (5.38 × 10−6) * | ALCAM | ENSBTAG00000000088 | 281614 |
| rFLC-DV | |||||
| 2 | 113,274,587 – 113,287,683 § | 1 (2) | 113,291,934 (2.10 × 10−9) ** | FAM124B | ENSBTAG00000038700 | 506367 |
| 113,369,961 – 113,487,279 § | 2 (23) | 113,478,686 (6.59 × 10− 7) * | CUL3 | ENSBTAG00000021769 | 534325 | |
| 5 | 1,524,095 – 1,565,010 § | 3 (13) | 1,562,117 (1.07 × 10−6) *# | TPH2 | ENSBTAG00000020792 | 100336620 |
| 6,777,101 – 7,678,220 § | 2 (197) | 6,916,388 (7.69 × 10–8) ** | NAV3 | ENSBTAG00000009852 | 528870 | |
| 65,386,934 – 65,454,111 § | 1 (4) | 65,424,614 (1.29 × 10−6) * | SLC5A8 | ENSBTAG00000011525 | 615734 | |
| 68,385,645 – 68,649,661 § | 2 (72) | 68,420,453 (1.42 × 10− 6) * | CHST11 | ENSBTAG00000010644 | 528860 | |
| 97,079,894 – 97,101,600 § | 1 (13) | 97,105,569 (6.46 × 10− 6) * | EMP1 | ENSBTAG00000036078 | 786490 | |
| 97,262,002 – 97,299,627 § | 1 (9) | 97,265,477 (9.46 × 10− 7) * | FAM234B | ENSBTAG00000014322 | 512120 | |
| 101,572,243 – 101,708,458 § | 4 (17) | 101,571,894 (8.13 × 10−6) *# | RIMKLB | ENSBTAG00000003291 | 538579 | |
| 21 | 12,838,632 – 13,098,198 § | 2 (58) | 12,918,304 (1.73 × 10− 7) ** | MCTP2 | ENSBTAG00000013689 | 532150 |
| 32,107,362 – 32,113,036 | 1 (1) | 32,113,699 (8.56 × 10−6) * | ISL2 | ENSBTAG00000016651 | 786913 | |
| 32,118,844 – 32,548,944 § | 24 (26) | 32,119,934 (8.56 × 10− 6) *# | SCAPER | ENSBTAG00000007382 | 100140107 | |
| 32,577,840 – 32,595,999 § | 2 (2) | 32,580,916 (8.56 × 10−6) *# | RCN2 | ENSBTAG00000015780 | 512717 | |
| 24 | 7,684,880 – 8,100,543 § | 4 (113) | 8,077,784 (2.71 × 10−9) ** | DOK6 | ENSBTAG00000046957 | 100336967 |
| 21,641,932 – 21,691,820 § | 2 (8) | 21,676,840 (5,41 × 10−6) *# | GALNT1 | ENSBTAG00000011206 | 104975742 | |
| 28,992,666 – 29,241,119 | 1 (60) | 29,087,857 (9.04 × 10− 6) * | CDH2 | ENSBTAG00000021190 | 281062 | |
| 26 | 4,520,359 – 5,584,422 § | 1 (170) | 4,781,510 (6.76 × 10−6) * | PCDH15 | ENSBTAG00000045905 | 100140108 |
aGene position (start-end) in NCBI annotation build on assembly UMD 3.1.1 (genes with differing start and/or end positions in NCBI 105 and ENSEMBL 90 are denoted by §)
bNumber of associations that reached the suggestive chromosome-wide significance threshold (pCand, range: p = 7.47 × 10− 6 on BTA 1 to p = 2.18 × 10− 5 on BTA 28) or the Bonferroni-corrected genome-wide significance threshold (pBonf = 4.47 × 10− 7) based on the position of the identified candidate gene ±5 kb up- and downstream
cEnsembl ID | Entrez ID
*above pCand
**above pBonf
#Including several marker associations revealing the same p-value, the association bases on the SNP marker with the lowest base pair position