Table 2.
Defining SNP characteristics for Catalonia M. bovis clades obtained through WGS and SNP analysis.
| Clade | Classification by [29] | Defining SNP | Product/Gene/Locus Tag | No. of Isolates | Consensus SNPs | Associated Genes * | |
|---|---|---|---|---|---|---|---|
| I | 9 | NC_002945.4:57046 | G > C | Probable conserved transmembrane protein, None, BQ2027_MB0052 | 11 | 38 | cmaA2, ecccb1, lpq, lipU, gabD2, mycp2, argS, gdh, phoH1, fadD36, dppD, smc |
| II | 29 | NC_002945.4:1969776 | C > T | Probable oxidoreductase, None, BQ2027_MB1780 | 31 | 5 | pks7 |
| III | 11 | NC_002945.4:3209992 | C > T | Phenolpthiocerol synthesis type-I polyketide synthase, ppsA, BQ2027_MB2956 | 18 | 1 | fadD34 |
| IV | 13 | NC_002945.4:1814064 | C > T | Probable integral membrane cytochrome D ubiquinol oxidase (subunit II), cydB, BQ2027_MB1648C | 5 | 3 | eccb2 |
| V | 14 | NC_002945.4:139460 | C > T | No annotated product | 7 | 1 | No annotated gene |
| VI | 12 | NC_002945.4:1254487 | C > T | Probable transcriptional regulator protein, None, BQ2027_MB1160C | 35 | 4 | eccb2, esxL |
| VII | 21 | NC_002945.4:3353644 | A > C | Alpha (1 → 4) glucosyltransferase, None, BQ2027_MB3058 | 16 | 96 | chaA, ctaB, dnaE1, esxQ, fadD23, fadD34, fadE22b, fadE24, fas, htpG, infB, kdpD, lipN, lppC, lppL, lppOb, ltp3, mdh, mmsA, mntH, murD, nadA, oplA, pca, pepE, pepR, pks12, ks8, PPE55a, PPE55b, PPE70, pptt, proA, purB, recC, rpsl, sigJ, sigL, thyx, truB, ugpB, vapc22, secY, pks6b, mmpL11, gyrA |
* Genes obtained from [26].