Table 3.
Genes and transcripts located in the QTL candidate regions for Campylobacter resistance with the highest variation among the two parental lines. (A) Backcross experiment (B) Advanced Intercross Experiment
| Gene | Transcript | Chr | dN/dS | dN/L | exon_rate | intron_rate |
|---|---|---|---|---|---|---|
| A | ||||||
| ENSGALG00000026721 | ENSGALT00000043718 | 7 | 3 | 0.002441 | 0.003247 | No introns |
| FAM134A | ENSGALT00000018495 | 7 | 3 | 0.002098 | 0.002797 | 0.006759 |
| RALB | ENSGALT00000018997 | 7 | 3 | 0.004342 | 0.00519 | 0.00601 |
| IFIH1 | ENSGALT00000018067 | 7 | 2 | 0.000608 | 0.000743 | 0.000568 |
| ARPC2 | ENSGALT00000018675 | 7 | 2 | 0.001768 | 0.002418 | 0.003158 |
| PECR | ENSGALT00000018735 | 7 | 2 | 0.002235 | 0.003007 | 0.006175 |
| LZTR1 | ENSGALT00000046043 | 7 | 2 | 0.002436 | 0.003925 | 0.003483 |
| NIFK | ENSGALT00000019039 | 7 | 2 | 0.002424 | 0.002251 | 0.006897 |
| CCDC14 | ENSGALT00000019150 | 7 | 2 | 0.000729 | 0.001017 | 0.004697 |
| TTC21B | ENSGALT00000038446 | 7 | 1.75 | 0.001702 | 0.002346 | 0.004126 |
| SMARCAL1 | ENSGALT00000018709 | 7 | 1.333333 | 0.001388 | 0.004471 | 0.005288 |
| C16orf96 | ENSGALT00000042897 | 14 | 1.25 | 0.008818 | 0.014139 | 0.00646 |
| COBLL1 | ENSGALT00000018021 | 7 | 1.2 | 0.001736 | 0.003179 | 0.003251 |
| OBSL1 | ENSGALT00000018337 | 7 | 1.142857 | 0.002852 | 0.00482 | 0.009001 |
| SLX4 | ENSGALT00000046089 | 14 | 1 | 0.001744 | 0.004729 | 0.005968 |
| SLC38A11 | ENSGALT00000018002 | 7 | 1 | 0.000749 | 0.003485 | 0.007136 |
| FIGN | ENSGALT00000018023 | 7 | 1 | 0.000446 | 0.000892 | No introns |
| FAP | ENSGALT00000018083 | 7 | 1 | 0.000444 | 0.001297 | 0.002828 |
| ASIC4 | ENSGALT00000018356 | 7 | 1 | 0.001254 | 0.002503 | 0.008669 |
| ZFAND2B | ENSGALT00000044043 | 7 | 1 | 0.002137 | 0.004343 | 0.007585 |
| SLC11A1 | ENSGALT00000018510 | 7 | 1 | 0.00119 | 0.002381 | 0.009314 |
| C16orf96 | ENSGALT00000042897 | 14 | 1.25 | 0.008818 | 0.014139 | 0.00646 |
| ENSGALG00000023695 | ENSGALT00000039593 | 14 | NA | 0.005587 | 0.00534 | 0.002789 |
| RALB | ENSGALT00000018997 | 7 | 3 | 0.004342 | 0.00519 | 0.00601 |
| GJD3 | ENSGALT00000018322 | 7 | NA | 0.003421 | 0.003421 | 0.008052 |
| OBSL1 | ENSGALT00000018337 | 7 | 1.142857 | 0.002852 | 0.00482 | 0.009001 |
| ENSGALG00000026721 | ENSGALT00000043718 | 7 | 3 | 0.002441 | 0.003247 | No introns |
| LZTR1 | ENSGALT00000046043 | 7 | 2 | 0.002436 | 0.003925 | 0.003483 |
| NIFK | ENSGALT00000019039 | 7 | 2 | 0.002424 | 0.002251 | 0.006897 |
| ENSGALG00000023707 | ENSGALT00000039621 | 14 | 0.285714 | 0.002304 | 0.010333 | 0.008303 |
| CCDC108 | ENSGALT00000018523 | 7 | 0.75 | 0.002268 | 0.005093 | 0.009366 |
| PECR | ENSGALT00000018735 | 7 | 2 | 0.002235 | 0.003007 | 0.006175 |
| TMEM169 | ENSGALT00000038136 | 7 | 1 | 0.002176 | 0.003236 | 0.007113 |
| ZFAND2B | ENSGALT00000044043 | 7 | 1 | 0.002137 | 0.004343 | 0.007585 |
| FAM134A | ENSGALT00000018495 | 7 | 3 | 0.002098 | 0.002797 | 0.006759 |
| CYP27A1 | ENSGALT00000003899 | 7 | 0.75 | 0.001911 | 0.004882 | 0.003762 |
| RACGAP1 | ENSGALT00000018359 | 7 | 0.6 | 0.001808 | 0.004455 | 0.007782 |
| NHEJ1 | ENSGALT00000018498 | 7 | 1 | 0.001795 | 0.011236 | 0.006046 |
| ARPC2 | ENSGALT00000018675 | 7 | 2 | 0.001768 | 0.002418 | 0.003158 |
| SLX4 | ENSGALT00000046089 | 14 | 1 | 0.001744 | 0.004729 | 0.005968 |
| COBLL1 | ENSGALT00000018021 | 7 | 1.2 | 0.001736 | 0.003179 | 0.003251 |
| C16orf96 | ENSGALT00000042897 | 14 | 1.25 | 0.008818 | 0.014139 | 0.00646 |
| MNR2 | ENSGALT00000018518 | 7 | 0 | 0 | 0.012723 | 0.00565 |
| NHEJ1 | ENSGALT00000018498 | 7 | 1 | 0.001795 | 0.011236 | 0.006046 |
| TUBA4A | ENSGALT00000018477 | 7 | 0 | 0 | 0.010549 | 0.004069 |
| ENSGALG00000023707 | ENSGALT00000039621 | 14 | 0.285714 | 0.002304 | 0.010333 | 0.008303 |
| TUBA4A | ENSGALT00000038318 | 7 | 0.058824 | 0.000729 | 0.010204 | 0.017134 |
| HSPBAP1 | ENSGALT00000019085 | 7 | 0.25 | 0.001374 | 0.006512 | 0.006158 |
| C2orf62 | ENSGALT00000029291 | 7 | 0.166667 | 0.000938 | 0.006416 | 0.008264 |
| ABCB6 | ENSGALT00000038272 | 7 | 0.2 | 0.000805 | 0.006006 | 0.007832 |
| ERCC3 | ENSGALT00000018775 | 7 | 0 | 0 | 0.005964 | 0.01652 |
| PLA2R1 | ENSGALT00000033111 | 7 | 0.5 | 0.00138 | 0.005762 | 0.008359 |
| STK16 | ENSGALT00000018480 | 7 | 0 | 0 | 0.005722 | 0.006693 |
| ENSGALG00000023695 | ENSGALT00000039593 | 14 | NA | 0.005587 | 0.00534 | 0.002789 |
| GLB1L | ENSGALT00000018482 | 7 | 0.5 | 0.001586 | 0.005227 | 0.012599 |
| RALB | ENSGALT00000018997 | 7 | 3 | 0.004342 | 0.00519 | 0.00601 |
| CCDC108 | ENSGALT00000018523 | 7 | 0.75 | 0.002268 | 0.005093 | 0.009366 |
| CYP27A1 | ENSGALT00000003899 | 7 | 0.75 | 0.001911 | 0.004882 | 0.003762 |
| EPB41L5 | ENSGALT00000018952 | 7 | 0 | 0 | 0.004822 | 0.006925 |
| OBSL1 | ENSGALT00000018337 | 7 | 1.142857 | 0.002852 | 0.00482 | 0.009001 |
| SPEG | ENSGALT00000043042 | 7 | 0.194444 | 0.000763 | 0.004805 | 0.005843 |
| TUBA4A | ENSGALT00000038318 | 7 | 0.058824 | 0.000729 | 0.010204 | 0.017134 |
| ERCC3 | ENSGALT00000018775 | 7 | 0 | 0 | 0.005964 | 0.01652 |
| GLB1L | ENSGALT00000018482 | 7 | 0.5 | 0.001586 | 0.005227 | 0.012599 |
| RUFY4 | ENSGALT00000043062 | 7 | 0.333333 | 0.001133 | 0.003315 | 0.01241 |
| ATG9A | ENSGALT00000019038 | 7 | 0 | 0 | 0.002891 | 0.011987 |
| RPL37A | ENSGALT00000018702 | 7 | 0 | 0 | 0 | 0.011268 |
| C16orf5 | ENSGALT00000012346 | 14 | 0 | 0 | 0.002632 | 0.011263 |
| AAMP | ENSGALT00000018663 | 7 | 0 | 0 | 0.001614 | 0.010427 |
| DES | ENSGALT00000018446 | 7 | 0 | 0 | 0.003731 | 0.010335 |
| CTDSP1 | ENSGALT00000045561 | 7 | 0 | 0 | 0.001002 | 0.010093 |
| ANKZF1 | ENSGALT00000018493 | 7 | 0 | 0 | 0.004431 | 0.010028 |
| IGFBP2 | ENSGALT00000018698 | 7 | 0 | 0 | 0.003279 | 0.009894 |
| CCDC108 | ENSGALT00000018523 | 7 | 0.75 | 0.002268 | 0.005093 | 0.009366 |
| SLC23A3 | ENSGALT00000018510 | 7 | 1 | 0.00119 | 0.002381 | 0.009314 |
| OBSL1 | ENSGALT00000018337 | 7 | 1.142857 | 0.002852 | 0.00482 | 0.009001 |
| ASIC4 | ENSGALT00000018356 | 7 | 1 | 0.001254 | 0.002503 | 0.008669 |
| LY75 | ENSGALT00000018187 | 7 | 0.266667 | 0.000775 | 0.00358 | 0.008563 |
| PLA2R1 | ENSGALT00000033111 | 7 | 0.5 | 0.00138 | 0.005762 | 0.008359 |
| ENSGALG00000023707 | ENSGALT00000039621 | 14 | 0.285714 | 0.002304 | 0.010333 | 0.008303 |
| C2orf62 | ENSGALT00000029291 | 7 | 0.166667 | 0.000938 | 0.006416 | 0.008264 |
| ARHGEF1 | ENSGALT00000045992 | 7 | 0 | 0 | 0.002606 | 0.008085 |
| B | ||||||
| Gene | Transcript | Chr | dN/dS | dN/L | exon rate | intron rate |
| BF2 | ENSGALT00000046170 | 16 | 9 | 0.00878 | 0.009381 | 0.010121 |
| BF2 | ENSGALT00000000139 | 16 | 9 | 0.00885 | 0.009452 | 0.01004 |
| BF2 | ENSGALT00000044107 | 16 | 9 | 0.00858 | 0.013504 | 0.010373 |
| BF2 | ENSGALT00000043207 | 16 | 9 | 0.008515 | 0.013432 | 0.01046 |
| RASSF6 | ENSGALT00000019068 | 4 | 2 | 0.001974 | 0.005961 | 0.006711 |
| BLB1 | ENSGALT00000008925 | 16 | 2 | 0.002994 | 0.002985 | 0 |
| TRIM27 | ENSGALT00000000172 | 16 | 1.666667 | 0.003915 | 0.006672 | 0.007874 |
| TAPBP | ENSGALT00000000203 | 16 | 1.333333 | 0.00312 | 0.005109 | 0.010619 |
| C16orf96 | ENSGALT00000042897 | 14 | 1.25 | 0.008818 | 0.014139 | 0.00646 |
| TNXB | ENSGALT00000000238 | 16 | 1.25 | 0.002016 | 0.003629 | 0.001132 |
| SLX4 | ENSGALT00000046089 | 14 | 1 | 0.001744 | 0.004729 | 0.005968 |
| TAPBP | ENSGALT00000044889 | 16 | 1 | 0.002132 | 0.003899 | 0.010359 |
| SLX4 | ENSGALT00000012367 | 14 | 0.875 | 0.001439 | 0.004358 | 0.006141 |
| ENSGALG00000028367 | ENSGALT00000045620 | 16 | 0.75 | 0.002477 | 0.00578 | 0.013439 |
| TAP2 | ENSGALT00000000237 | 16 | 0.666667 | 0.00382 | 0.009537 | 0.014909 |
| BG1 | ENSGALT00000045385 | 16 | 0.6 | 0.005976 | 0.016882 | 0.010126 |
| TRAP1 | ENSGALT00000012459 | 14 | 0.5 | 0.000965 | 0.003201 | 0.007825 |
| HLADMB | ENSGALT00000041213 | 16 | 0.5 | 0.002865 | 0.008137 | 0.006479 |
| TCLEC2D | ENSGALT00000000183 | 16 | 0.5 | 0.001789 | 0.005938 | 0.011905 |
| TRIM41 | ENSGALT00000045935 | 16 | 0.5 | 0.001744 | 0.004208 | 0.00173 |
| TRIM27 | ENSGALT00000042650 | 16 | 0.5 | 0.000892 | 0.002676 | 0.003241 |
| BNK | ENSGALT00000000188 | 16 | NA | 0.013462 | 0.011445 | 0.003878 |
| BF2 | ENSGALT00000000139 | 16 | 9 | 0.00885 | 0.009452 | 0.01004 |
| C16orf96 | ENSGALT00000042897 | 14 | 1.25 | 0.008818 | 0.014139 | 0.00646 |
| BF2 | ENSGALT00000046170 | 16 | 9 | 0.00878 | 0.009381 | 0.010121 |
| BF2 | ENSGALT00000044107 | 16 | 9 | 0.00858 | 0.013504 | 0.010373 |
| BF2 | ENSGALT00000043207 | 16 | 9 | 0.008515 | 0.013432 | 0.01046 |
| BG1 | ENSGALT00000045385 | 16 | 0.6 | 0.005976 | 0.016882 | 0.010126 |
| ENSGALG00000023695 | ENSGALT00000039593 | 14 | NA | 0.005587 | 0.00534 | 0.002789 |
| TRIM27 | ENSGALT00000000172 | 16 | 1.666667 | 0.003915 | 0.006672 | 0.007874 |
| TAP2 | ENSGALT00000000237 | 16 | 0.666667 | 0.00382 | 0.009537 | 0.014909 |
| ZNF692 | ENSGALT00000031515 | 16 | 0.454545 | 0.003215 | 0.00949 | 0.01307 |
| Hep21 | ENSGALT00000000164 | 16 | NA | 0.003145 | 0.00316 | 0.008 |
| TAPBP | ENSGALT00000000203 | 16 | 1.333333 | 0.00312 | 0.005109 | 0.010619 |
| BLB1 | ENSGALT00000008925 | 16 | NA | 0.002994 | 0.002985 | 0 |
| HLADMB | ENSGALT00000041213 | 16 | 0.5 | 0.002865 | 0.008137 | 0.006479 |
| DMB2 | ENSGALT00000000222 | 16 | 0.4 | 0.002581 | 0.010393 | 0.014409 |
| ENSGALG00000028367 | ENSGALT00000045620 | 16 | 0.75 | 0.002477 | 0.00578 | 0.013439 |
| ENSGALG00000023707 | ENSGALT00000039621 | 14 | 0.285714 | 0.002304 | 0.010333 | 0.008303 |
| TAPBP | ENSGALT00000044889 | 16 | 1 | 0.002132 | 0.003899 | 0.010359 |
| TNXB | ENSGALT00000000238 | 16 | 1.25 | 0.002016 | 0.003629 | 0.001132 |
| RASSF6 | ENSGALT00000019068 | 4 | 2 | 0.001974 | 0.005961 | 0.006711 |
| BG1 | ENSGALT00000045385 | 16 | 0.6 | 0.005976 | 0.016882 | 0.010126 |
| C16orf96 | ENSGALT00000042897 | 14 | 1.25 | 0.008818 | 0.014139 | 0.00646 |
| BF2 | ENSGALT00000044107 | 16 | 9 | 0.00858 | 0.013504 | 0.010373 |
| BF2 | ENSGALT00000043207 | 16 | 9 | 0.008515 | 0.013432 | 0.01046 |
| BNK | ENSGALT00000000188 | 16 | NA | 0.013462 | 0.011445 | 0.003878 |
| DMB2 | ENSGALT00000000222 | 16 | 0.4 | 0.002581 | 0.010393 | 0.014409 |
| ENSGALG00000023707 | ENSGALT00000039621 | 14 | 0.285714 | 0.002304 | 0.010333 | 0.008303 |
| TAP2 | ENSGALT00000000237 | 16 | 0.666667 | 0.00382 | 0.009537 | 0.014909 |
| LOC422654 | ENSGALT00000041397 | 4 | 0 | 0 | 0.009533 | 0 |
| ZNF692 | ENSGALT00000031515 | 16 | 0.454545 | 0.003215 | 0.00949 | 0.01307 |
| BF2 | ENSGALT00000000139 | 16 | 9 | 0.00885 | 0.009452 | 0.01004 |
| BF2 | ENSGALT00000046170 | 16 | 9 | 0.00878 | 0.009381 | 0.010121 |
| HLADMB | ENSGALT00000041213 | 16 | 0.5 | 0.002865 | 0.008137 | 0.006479 |
| DMB2 | ENSGALT00000041214 | 16 | 0 | 0 | 0.008121 | 0.011547 |
| TAP1 | ENSGALT00000045907 | 16 | 0.230769 | 0.001726 | 0.006978 | 0.010147 |
| TRIM27 | ENSGALT00000000172 | 16 | 1.666667 | 0.003915 | 0.006672 | 0.007874 |
| IL4I1 | ENSGALT00000000109 | 16 | 0.428571 | 0.001912 | 0.006361 | 0.005435 |
| RASSF6 | ENSGALT00000019068 | 4 | 2 | 0.001974 | 0.005961 | 0.006711 |
| TCLEC2D | ENSGALT00000000183 | 16 | 0.5 | 0.001789 | 0.005938 | 0.011905 |
| ENSGALG00000028367 | ENSGALT00000045620 | 16 | 0.75 | 0.002477 | 0.00578 | 0.013439 |
| TAP2 | ENSGALT00000000237 | 16 | 0.666667 | 0.00382 | 0.009537 | 0.014909 |
| DMB2 | ENSGALT00000000222 | 16 | 0.4 | 0.002581 | 0.010393 | 0.014409 |
| ENSGALG00000028367 | ENSGALT00000045620 | 16 | 0.75 | 0.002477 | 0.00578 | 0.013439 |
| ZNF692 | ENSGALT00000031515 | 16 | 0.454545 | 0.003215 | 0.00949 | 0.01307 |
| TCLEC2D | ENSGALT00000000183 | 16 | 0.5 | 0.001789 | 0.005938 | 0.011905 |
| DMB2 | ENSGALT00000041214 | 16 | 0 | 0 | 0.008121 | 0.011547 |
| CXCLi1 | ENSGALT00000019072 | 4 | 0 | 0 | 0.001606 | 0.011457 |
| C16orf5 | ENSGALT00000012346 | 14 | 0 | 0 | 0.002632 | 0.011263 |
| TAPBP | ENSGALT00000000203 | 16 | 1.333333 | 0.00312 | 0.005109 | 0.010619 |
| BF2 | ENSGALT00000043207 | 16 | 9 | 0.008515 | 0.013432 | 0.01046 |
| BF2 | ENSGALT00000044107 | 16 | 9 | 0.00858 | 0.013504 | 0.010373 |
| TAPBP | ENSGALT00000044889 | 16 | 1 | 0.002132 | 0.003899 | 0.010359 |
| TAP1 | ENSGALT00000045907 | 16 | 0.230769 | 0.001726 | 0.006978 | 0.010147 |
| BG1 | ENSGALT00000045385 | 16 | 0.6 | 0.005976 | 0.016882 | 0.010126 |
| BF2 | ENSGALT00000046170 | 16 | 9 | 0.00878 | 0.009381 | 0.010121 |
| BF2 | ENSGALT00000000139 | 16 | 9 | 0.00885 | 0.009452 | 0.01004 |
| BMA1 | ENSGALT00000000214 | 16 | 0.25 | 0.001274 | 0.005488 | 0.010015 |
| C4 | ENSGALT00000044830 | 16 | 0.421053 | 0.001616 | 0.005525 | 0.008507 |
| DNASE | ENSGALT00000039621 | 14 | 0.285714 | 0.002304 | 0.010333 | 0.008303 |
| TRAP1 | ENSGALT00000012459 | 14 | 0.5 | 0.000965 | 0.003201 | 0.007825 |
| RASSF6 | ENSGALT00000019068 | 4 | 2 | 0.001974 | 0.005961 | 0.006711 |
Non synonymous SNVs/synonymous SNVs(dN/dS); non synonymous SNVs/CDS length (dN/L); NA = no synonymous SNV present; with bold is the rate based on which the genes were ranked