Table 4 Candidate genes involved in transmission phenotype segregated by polymorphisms and differential transcription
From: Comparative genomics and transcriptomics of trait-gene association
Category | FL1 | St.M1 | Product | SNPs | candidate SNPs | SNP location | Homologs2 | BI3 |
|---|---|---|---|---|---|---|---|---|
Differentially transcribed genes | AMF_433 | AM579 | Hypothetical protein | 1 | 0 | Gene | AP, ER, ECh | TM |
AMF_432 | AM579 | Hypothetical protein | 1 | 0 | Gene | AP, ER, ECh, ECa | - | |
AMF_431 | AM580 | Hypothetical protein | 3 | 0 | Gene | AP, ER, ECh, ECa | TM | |
AMF_430 | AM576 | Hypothetical protein | 22 | 0 | Gene | AP, ER, ECh, ECa | TM/DS | |
AMF_429 | AM574 | Hypothetical protein | 15 | 0 | Gene | AP, ER, ECh | TM | |
AMF_798 | AM1055 | Hypothetical protein | 9 | 0 | Gene | AP, ER, ECh, ECa | TM/SP | |
AMF_879 | AM1165 | Hypothetical protein | 14 | 0 | Gene | - | TM | |
AMF_878 | AM1164 | Outer membrane protein 4 | 2 | 0 | Gene | AP | TM/SP | |
AMF_401 | AM540 | Hypothetical protein | 12 | 0 | Gene/Prom | - | TM | |
AMF_258 | AM347 | Hypothetical protein | 19 | 0 | Gene | AP | TM | |
Differentially transcribed genes w/SNPs genescarrying candidate SNPs | AMF_474 | AM632 | Ribosome-associated inhibitor A | 1 | 1 | Promoter | ER, ECh, ECa | - |
AMF_553 | AM748 | NADH Dehydrogenase I chain J | 1 | 1 | Promoter | AP, ER, ECh, ECa | TM | |
AMF_793 | AM1048 | Hypothetical protein | 77 | 2 | Gene/Prom | AP, ER, ECh, ECa | TM/SP | |
AMF_1026 | AM1352 | Hypothetical protein | 18 | 5 | Gene/Prom | AP, ER, ECh | TM/DS | |
Genes carrying candidate SNPs | AMF_051 | AM071 | Hypothetical protein | 5 | 1 | Gene | AP, ER, ECh, ECa | TM |
AMF_197 | AM265 | Hypothetical protein | 19 | 1 | Gene | AP, RB | TM | |
AMF_264 | AM354 | Hypothetical protein | 21 | 2 | Gene | ER, ECh, ECa | TM/DS | |
AMF_265 | AM356 | Hypothetical protein | 65 | 1 | Gene | AP | - | |
AMF_269 | AM368 | Hypothetical protein | 43 | 1 | Gene | RB | TM/DS | |
AMF_480 | AM644 | DNA gyrase B | 14 | 1 | Gene | AP, ER, ECh, ECa, RB, RC, RR | TM | |
AMF_530 | AM712 | Hypothetical protein | 138 | 1 | Gene | - | TM | |
AMF_518 | AM689 | Hypothetical protein | 20 | 1 | Gene | AP | - | |
AMF_547 | AM742 | Hypothetical protein | 1 | 1 | Gene | AP, ER, ECh, ECa | DS | |
AMF_613 | AM823 | Hypothetical protein | 17 | 4 | Gene | AP, ER, ECh, ECa | - | |
AMF_703 | AM919 | Hypothetical protein | 1 | 1 | Gene | AP, ER, ECh, ECa, RB, RC, RR | TM | |
AMF_762 | AM1001 | methionyl-tRNA synthetase | 23 | 1 | Gene | AP, ER, ECh, ECa, RB, RC, RR | TM/DS | |
AMF_764 | AM1005 | aspartokinase | 13 | 1 | Gene | AP, ER, ECh, ECa | TM/DS | |
AMF_824 | AM1091 | D-Ala-D-Ala carboxypeptidase | 33 | 6 | Gene | AP, ER, ECh, ECa, RB, RC, RR | TM/SP | |
AMF_893 | AM1183 | lipoprotein-releasing transmembrane protein | 8 | 3 | Gene | ER, ECh, ECa | TM/DS | |
AMF_1037 | AM345 | Hypothetical protein | 4 | 1 | Gene | - | - |