Table 3.
Candidate regions that are specific to the non-infected cohort as identified by ROH analysis.
| Region | OAR | Start | Stop | Size (Mb) | No. of SNPs | No. of genes | Genes | QTL, Trait name |
|---|---|---|---|---|---|---|---|---|
| 1 | 1 | 115,934,737 | 116,254,820 | 0.320 | 77 | 3 | TMCO1, UCK2, FAM78B | FECGEN (QTL #13987), Fecal egg count |
| 2 | 1 | 188,643,068 | 188,643,068 | 0 | 1 | 1 | FYTTD1 | – |
| 3 | 2 | 115,482,173 | 115,484,311 | 0.002 | 4 | – | – | LATRICH_2 (QTL #12898), Adult and Larva count |
| 4 | 2 | 219,142,282 | 219,594,617 | 0.452 | 70 | 17 | RUFY4, CXCR2, CXCR1, ENSOARG00000019495, AAMP, PNKD, TMBIM1, CATIP, SLC11A1, CTDSP1, VIL1, USP37, CNOT9, PLCD4, ZNF142, MIR26B, ENSOARG00000025091 | – |
| 5 | 3 | 109,370,464 | 110,015,860 | 0.645 | 114 | – | – | – |
| 6 | 3 | 183,089,260 | 183,089,260 | 0.000 | 1 | – | – | NFEC (QTL #17188), Nematodirus FEC |
| 7 | 4 | 35,633,277 | 35,680,007 | 0.046 | 9 | – | – | – |
| 8 | 5 | 18,738,106 | 19,307,665 | 0.569 | 92 | 23 | TMPRSS9, SPPL2B, LSM7, LINGO3, PEAK3, ENSOARG00000025297, DOT1L, SEPTIN8, PLEKHJ1, SF3A2, CCNI2, AMH, AP3D1, ENSOARG00000025298, IZUMO4, MOB3A, KIF3A, IL4, IL13, U6, RAD50, OAZ1, MKNK2 | – |
| 9 | 5 | 49,789,923 | 49,930,854 | 0.140 | 66 | 3 | LOC101104745 (PCDHGA1), PCDHGA2, ENSOARG00000000218 | – |
| 10 | 5 | 75,779,568 | 76,035,485 | 0.255 | 55 | ENSOARG00000023647 | – | |
| 11 | 6 | 36,519,290 | 36,522,278 | 0.002 | 2 | 1 | ABCG2 | FECGEN (QTL #16024), Fecal egg count |
| 12 | 10 | 7,142,235 | 7,746,939 | 0.604 | 96 | 4 | ENSOARG00000006632, ENSOARG00000006641, ENSOARG00000026268, ENSOARG00000006647 | – |
| 13 | 10 | 18,948,900 | 19,169,123 | 0.220 | 46 | 2 | ENSOARG00000005934, FNDC3A | – |
| 14 | 10 | 37,089,571 | 37,098,832 | 0.009 | 3 | – | – | FECGEN (QTL #13989), Fecal egg count |
| 15 | 11 | 61,796,516 | 61,834,196 | 0.037 | 10 | 1 | PRKCA | |
| 16 | 12 | 42,716,463 | 43,245,332 | 0.528 | 99 | 4 | ENSOARG00000009688, ENSOARG00000009776, SLC45A1, ENSOARG00000005144 | – |
| 17 | 13 | 45,726,347 | 45,826,963 | 0.100 | 20 | – | – | – |
| 18 | 13 | 47,967,869 | 48,015,537 | 0.047 | 8 | 1 | ENSOARG00000026236 | – |
| 19 | 14 | 35,198,362 | 35,891,080 | 0.692 | 178 | 15 | ZFP90, CDH3, CDH1, TANGO6, PDF, ENSOARG00000003488, CHTF8, UTP4, SNTB2, ENSOARG00000003534, COG8, TMED6, NIP7, TERF2, CYB5B | NFEC (QTL #12893, QTL #12892), Nematodirus FEC |
| 20 | 15 | 3,323,204 | 3,916,206 | 0.593 | 112 | 1 | PDGFD | – |
| 21 | 17 | 61,855,700 | 61,872,737 | 0.017 | 3 | 1 | LOC101115991 | – |
| 22 | 17 | 61,944,419 | 61,970,285 | 0.025 | 5 | 2 | ALDH2, ENSOARG00000025686 | – |
| 23 | 17 | 61,990,418 | 62,003,285 | 0.012 | 3 | 1 | ENSOARG00000025686 | – |