Table 3. Quantitative trait loci (QTLs) surpassing the significance threshold (P< 5 × 10−7) for evidence of an association with MAP infection status.
| Phenotype | BTA1 | QTL start (bp) | QTL end (bp) | P-value | SNP position2 | Positional candidate genes in QTL3 | SNPs in QTL |
|---|---|---|---|---|---|---|---|
| ELISA Tissue PCR Tissue Culture (+/-) | 23 | 15,060,376 | 16,864,597 | 1,06E-09 | 15,594,386 | NFYA, TREM1, TREM2, TREML1, TREML2, FOXP4, MDFI, TFEB, PGC, FRS6, USP49, MED20, TOMM6, BYSL,CCND3, TAF8, GUCA1A, MGC137036, C23H6orf132, GUCA1B, MRPS10, TERF1, U6, UBR2, PRPH2, 5S_rRNA, TBCC, BICRAL, RPL7L1, PEX6, MRPL2SRF, PTCRA, MEA1, CNPY3, KLHDC3, GNMT, RRP36, PPP2R5D, CUL7, KLC4, PTK7, CUL9, SLC22A7, DNPH1, TTBK1, CRIP3, ENSBTAG00000021359, ENSBTAG00000050887, ENSBTAG00000038916, ENSBTAG00000054479, ENSBTAG00000053124, ENSBTAG00000052790, ENSBTAG00000051935, ENSBTAG00000051409 | 13 |
| 23 | 18,812,221 | 20,933,699 | 1,26E-09 | 19,329,213 | RUNX2, U6, ENPP4, CLIC5, ENPP5, RCAN2, CYP39A1, SLC25A27, TDRD6, ADGRF5, PLA2G7, ANKRD66, ADGRF1, TNFRSF21, CD2AP, ADGRF2, ADGRF4, OPN5, ENSBTAG00000021415 | 63 | |
| 23 | 21,898,408 | 22,958,623 | 3,19E-09 | 22,401,117 | MMUT, CENPQ, GLYATL3, C23H6orf141, U6, RHAG, CRISP2, CRISP3, CRISP1, 7SK, DEFB114, DEFB110, ENSBTAG00000046237, ENSBTAG00000050850, ENSBTAG00000053808, ENSBTAG00000054396, ENSBTAG00000046711 | 6 | |
| 23 | 11,332,059 | 14,196,234 | 2,32E-08 | 11,900,592 | CMTR1, CCDC167, MDGA1, ZFAND3, BTBD9, GLO1, DNAH8, GLP1R, SAYSD1, KCNK5, KIF6, KCNK16, KCNK17, DAAM2, MOCS1, U6, bta-mir-2377, ENSBTAG00000050874 | 44 | |
| 5 | 35,035,017 | 36,111,179 | 1,35E-07 | 35,577,195 | ANO6, DBX2, NELL2, TMEM117, ENSBTAG00000026249, ENSBTAG00000032150 | 33 | |
| ELISA Tissue PCR Tissue Culture (+/) | 23 | 18,812,221 | 20,933,699 | 1,01E-09 | 19,331,156 | RUNX2, U6, ENPP4, CLIC5, ENPP5, RCAN2, CYP39A1, SLC25A27, TDRD6, ADGRF5, PLA2G7, ANKRD66, ADGRF1, TNFRSF21, CD2AP, ADGRF2, ADGRF4, OPN5, ENSBTAG00000021415 | 63 |
| 23 | 21,898,408 | 22,958,623 | 2,61E-08 | 22,401,993 | MMUT, CENPQ, GLYATL3, C23H6orf141, U6, RHAG, CRISP1, CRISP2, CRISP3, 7SK, DEFB114, DEFB110, ENSBTAG00000046237, ENSBTAG00000050850, ENSBTAG00000053808, ENSBTAG00000054396, ENSBTAG00000046711 | 6 | |
| 23 | 15,094,386 | 16,094,386 | 1,95E-07 | 15,594,386 | TREM1, TREM2, TREML1, TREML2, FOXP4, MDFI, TFEB, PGC, FRS6, USP49, MED20, TOMM6, BYSL, CCND3, TAF8, GUCA1A, MGC137036, C23H6orf132, GUCA1B, MRPS10, TRERF1, ENSBTAG00000050887, ENSBTAG00000038916, ENSBTAG00000054479, ENSBTAG00000053124 | 1 | |
| 23 | 13,196,234 | 14,196,234 | 3,98E-07 | 13,696,234 | KIF6, KCNK16, KCNK17, DAAM2, MOCS1, U6 | 1 | |
| 4 | 105,958,204 | 106,999,289 | 7,92E-08 | 106,492,268 | TRBV24-1, TRPV6, TRBV30, TRPV5, KEL, PRSS2, EPHB6, OR9A2, OR9A16, OR9A15, OR6V1, PIP, TAS2R39, TAS2R40, TMEM139, CLCN1, GSTK1, CASP2, FAM131B, ZYX, EPHA1, TAS2R60, OR2R3, OR10AC1, TCAF2, TCAF1, ENSBTAG00000049004, ENSBTAG00000027204, ENSBTAG00000050190, ENSBTAG00000053376, ENSBTAG00000053701, ENSBTAG00000053785, ENSBTAG00000054917, ENSBTAG00000051147, ENSBTAG00000047919, ENSBTAG00000034609, ENSBTAG00000052365, ENSBTAG00000050494, ENSBTAG00000031162 | 93 | |
| 4 | 108,183,737 | 109,219,627 | 3,24E-07 | 108,688,422 | 10 | ||
| 5 | 35,035,017 | 36,331,608 | 1,08E-07 | 35,580,801 | ANO6, DBX2, NELL2, TMEM117, 5S_rRNA, ENSBTAG00000026249, ENSBTAG00000032150 | 35 | |
| 14 | 74,743,059 | 75,743,059 | 9,47E-08 | 75,243,059 | MMP16, CNBD1, ENSBTAG00000051556 | 1 | |
| 24 | 45,728,397 | 46,728,397 | 4,49E-07 | 46,228,397 | EPG5, bta-mir6523a, PSTPIP2, ATP5F1A, HAUS1, U6, C24H1orf25, RNF165, LOXHD1, ST8SIA5, PIAS2, KATNAL2, ENSBTAG00000048422, ENSBTAG00000047360, ENSBTAG00000047547 | 1 | |
| ELISA Tissue Culture (+/) | 23 | 18,812,221 | 20,933,699 | 4,01E-10 | 19,331,156 | RUNX2, U6, ENPP4, CLIC5, ENPP5, RCAN2, CYP39A1, SLC25A27, TDRD6, ADGRF5, PLA2G7, ANKRD66, ADGRF1, TNFRSF21, CD2AP, ADGRF2, ADGRF4, OPN5, ENSBTAG00000021415 | 68 |
| 23 | 21,898,408 | 22,901,993 | 4,06E-08 | 22,401,993 | MMUT, CENPQ, GLYATL3, C23H6orf141, U6, RHAG, CRISP1, CRISP2, CRISP3, 7SK, DEFB114, DEFB110, ENSBTAG00000046237, ENSBTAG00000050850, ENSBTAG00000053808, ENSBTAG00000054396, ENSBTAG00000046711 | 5 | |
| 23 | 15,094,386 | 16,094,386 | 3,39E-07 | 15,594,386 | TREM1, TREM2, TREML1, TREML2, FOXP4, MDFI, TFEB, PGC, FRS6,USP49, MED20, TOMM6, BYSL, CCND3, TAF8, GUCA1A, MGC137036, C23H6orf132, GUCA1B, MRPS10, TRERF1, ENSBTAG00000050887, ENSBTAG00000038916, ENSBTAG00000054479, ENSBTAG00000053124 | 1 | |
| 11 | 91,785,241 | 93,618,888 | 2,24E-08 | 92,308,149 | GGTA1, DAB2IP, NDUFA8, MORN5, LHX6, RBM18, MRRF, PTGS1, bta-mir-10175, OR1L18, OR1L12, OR1L21,OR1L8H, OR1L8, OR1L8C, OR1L8E, OR1L8D, OR1L20, OR1N2, OR1J26, OR1J4E, OR1N1, OR1J2, ENSBTAG00000039201, ENSBTAG00000039186, ENSBTAG00000012827, ENSBTAG00000049150, ENSBTAG00000049268, ENSBTAG00000048686, ENSBTAG00000037739, ENSBTAG00000054916, ENSBTAG00000055261, ENSBTAG00000048884 | 43 | |
| 5 | 35,035,017 | 36,331,608 | 1,80E-08 | 35,580,801 | ANO6, DBX2, NELL2, TMEM117, 5S_rRNA, ENSBTAG00000026249, ENSBTAG00000032150 | 34 | |
| 28 | 42,484,673 | 43,484,698 | 3,23E-07 | 42,984,698 | FRMPD2, MAPK8, ARHGAP22, WDFY4, LRRC18, VSTM4, FAM170B, ENSBTAG00000006042 | 2 | |
| 14 | 74,743,059 | 75,743,059 | 1,38E-07 | 75,243,059 | MMP16, CNBD1, ENSBTAG00000051556 | 1 | |
| 4 | 105,958,204 | 106,999,289 | 1,35E-07 | 106,492,268 | TRBV24-1, TRPV6, TRBV30, TRPV5, KEL, PRSS2, EPHB6, OR9A2, OR9A16, OR9A15, OR6V1, PIP, TAS2R39, TAS2R40, TMEM139, CLCN1, GSTK1, CASP2, FAM131B, ZYX, EPHA1, TAS2R60, OR2R3, OR10AC1, TCAF2, TCAF1, ENSBTAG00000049004, ENSBTAG00000027204, ENSBTAG00000050190, ENSBTAG00000053376, ENSBTAG00000053701, ENSBTAG00000053785, ENSBTAG00000054917, ENSBTAG00000051147, ENSBTAG00000047919, ENSBTAG00000034609, ENSBTAG00000052365, ENSBTAG00000050494, ENSBTAG00000031162 | 84 | |
| ELISA Tissue PCR (+/) | 23 | 18,812,221 | 22,958,623 | 3,77E-09 | 19,331,156 | RUNX2, U6, ENPP4, CLIC5, ENPP5, RCAN2, CYP39A1, SLC25A27 TDRD6, ADGRF5 PLA2G7, ANKRD66,ADGRF1, TNFRSF21, CD2AP, ADGRF2, ADGRF4, OPN5, PTCHD, OR9G1, OR5M10C, 5S_rRNA, MEP1A, MMUT, CENPQ, GLYATL3, C23H6orf141,U6 RHAG, CRISP1, CRISP2, CRISP3, 7SK, DEFB114, DEFB110, ENSBTAG00000046237, ENSBTAG00000050850, ENSBTAG00000053808, ENSBTAG00000054396, ENSBTAG00000046711, ENSBTAG00000021415, ENSBTAG00000038677, ENSBTAG00000054235 | 61 |
| 23 | 15,094,386 | 16,094,386 | 2,66E-07 | 15,594,386 | TREM1, TREM2, TREML1, TREML2, FOXP4, MDFI, TFEB, PGC, FRS6, USP49, MED20, TOMM6, BYSL, CCND3, TAF8, GUCA1A, MGC137036, C23H6orf132, GUCA1B, MRPS10, TRERF1, ENSBTAG00000050887, ENSBTAG00000038916, ENSBTAG00000054479, ENSBTAG00000053124 | 1 | |
| 4 | 105,958,204 | 107,001,103 | 5,82E-08 | 106,492,268 | TRBV24-1, TRPV6, TRBV30, TRPV5, KEL, PRSS2, EPHB6, OR9A2, OR9A16, OR9A15, OR6V1, PIP, TAS2R39, TAS2R40, TMEM139, CLCN1, GSTK1, CASP2, FAM131B, ZYX, EPHA1, TAS2R60, OR2R3, OR10AC1, TCAF2, TCAF1, ENSBTAG00000049004, ENSBTAG00000027204, ENSBTAG00000050190, ENSBTAG00000053376, ENSBTAG00000053701, ENSBTAG00000053785, ENSBTAG00000054917, ENSBTAG00000051147, ENSBTAG00000047919, ENSBTAG00000034609, ENSBTAG00000052365, ENSBTAG00000050494, ENSBTAG00000031162 | 96 | |
| 5 | 35,080,801 | 36,080,801 | 4,92E-07 | 35,580,801 | DBX2, NELL2, TMEM117 | 1 | |
| 12 | 67,715,495 | 68,715,495 | 3,73E-07 | 68,215,495 | GPC6 | 1 | |
| 14 | 74,743,059 | 75,743,059 | 3,61E-07 | 75,243,059 | MMP16, CNBD1, ENSBTAG00000051556 | 1 |
1QTL location.
2 SNP location in the genome assembly.
3 Positional candidate genes are defined as genes that are located within 50 kb on either side of the identified QTL. When combinations of diagnostics tests were used, animals were considered cases when they were positive to all the tests and controls when they were negative to any (+/) or all of them (+/-).