Table 3.
Fold change differences in gene expression in M. bovis field isolates 1121, 2451 and 1307 compared to 2122
| Mb CDS | Mtb CDS | Common | 1121/01 | 2451/01 | 1307/01 | Product | Assoc. SNP/InDel | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| |
|
|
7h9 |
RPMI |
4hr MØ |
24 hr MØ |
7h9 |
RPMI |
4hr MØ |
24 hr MØ |
7h9 |
RPMI |
4hr MØ |
24 hr MØ |
|
|
| Mb0038c |
Rv0037c |
|
|
|
|
|
|
4↑ |
3↑ |
3↑ |
|
|
|
|
probable conserved integral membrane protein |
|
| Mb0124c |
Rv0120c |
fusA2 |
|
|
|
|
3↑ |
|
|
|
3↑ |
|
|
|
probable elongation factor |
|
| Mb0258 |
Rv0252 |
nirB |
|
|
|
|
|
|
|
|
9↑ |
12↑ |
21↑ |
9↑ |
nitrite reductase (large subunit) |
sSNP at postn. 303227 in 1307/01 only; C-T; |
| Mb0259 |
Rv0253 |
nirD |
|
|
|
|
|
|
|
|
|
3↑ |
4↑ |
5↑ |
nitrite reductase (small subunit) |
|
| Mb0428c |
Rv0420c |
|
|
|
|
|
|
|
|
|
|
|
|
2↑ |
possible transmembrane protein |
|
| Mb0734 |
Rv0713 |
|
|
|
|
|
|
|
2↑ |
|
|
|
|
|
probable conserved transmembrane protein |
|
| Mb0947c |
Rv0923c |
|
|
|
|
|
2↓ |
|
|
|
2↓ |
|
|
|
conserved hypotheitical protein |
|
| Mb0948c |
Rv0924c |
mntH |
|
|
|
|
|
|
|
|
|
|
|
|
cation uptake system |
|
| Mb1013; Mb1014 |
Rv0987 |
|
|
|
|
|
5↑ |
10↑ |
5↑ |
|
5↑ |
7↑ |
6↑ |
|
probable adhesion component transport ABC transporter |
nSNP at postn. 1104263 in 2451/01 and 1307/01; A-G (STOP to W); sSNP at postn 1103991 in 2451/01 and 1307/01 |
| Mb1015 |
Rv0988 |
|
|
|
|
|
3↑ |
9↑ |
|
|
3↑ |
5↑ |
5↑ |
|
possible conserved exported protein |
|
| Mb1161 |
Rv1130 |
|
|
|
|
|
|
|
|
|
|
|
|
2↓ |
conserved hypothetical protein |
|
| Mb1162 |
Rv1131 |
gltA1 |
|
|
|
|
3↓ |
|
|
|
|
|
|
|
probable citrate synthase |
|
| Mb1554c |
Rv1527c |
pks5 |
|
|
2↓ |
|
|
|
|
|
|
|
|
|
probable polyketide synthase |
|
| Mb1562 |
Rv1535 |
|
|
2↑ |
|
|
|
|
|
|
|
5↑ |
|
|
hypothetical protein |
|
| Mb1619c |
Rv1593c |
|
|
|
|
2↑ |
|
|
|
|
|
|
|
|
conserved hypothetical protein |
|
| Mb1749c |
Rv1720c |
|
|
|
|
|
|
|
|
|
10↑ |
19↑ |
18↑ |
12↑ |
conserved hypothetical protein |
nSNP at postn. 1932704 in 1307/01 only ; C-T (G to D) |
| Mb1750c |
Rv1721c |
|
|
|
|
|
|
|
|
|
6↑ |
3↑ |
9↑ |
5↑ |
conserved hypothetical protein |
|
| Mb1833c |
Rv1804 |
|
|
|
|
|
|
|
|
|
|
|
|
3↓ |
conserved hypothetical protein |
|
| Mb1834c |
Rv1805c |
|
|
|
|
|
|
|
|
|
|
4↑ |
|
|
hypothetical protein |
|
| Mb1835 |
Rv1806 |
PE20 |
|
|
|
|
|
|
|
|
|
3↑ |
|
|
PE family protein |
|
| Mb1885c |
Rv1854c |
ndh |
|
|
|
|
|
|
|
|
|
|
|
3↓ |
probable nadh dehydrogenase |
|
| Mb1914c |
Rv1882c |
|
|
|
|
|
|
6↑ |
3↑ |
6↑ |
|
|
|
|
probable short-chain type dehydrogenase/reductase |
sSNP at postn 2122970 in 2415/01 only: C-T |
| Mb2007c |
Rv1985c |
|
|
|
|
|
|
|
|
|
4↑ |
3↑ |
3↑ |
|
probable transcriptional regulatory protein |
nSNP at postn. 2208296 in 1307/01 only; G-A (Q to Stop) |
| Mb2015c |
RV1992c |
ctpG |
|
|
|
2↓ |
|
|
|
|
|
|
|
3↓ |
probable cation transporter |
|
| Mb2420c |
Rv2398c |
cysW |
|
|
|
|
|
2↓ |
|
|
|
6↓ |
|
|
sulphate transporter |
|
| Mb2421c |
Rv2399c |
cysT |
|
|
|
|
|
2↓ |
|
|
|
4↓ |
|
|
sulphate transporter |
|
| Mb2607 |
Rv2577 |
|
|
|
|
|
9↓ |
5↓ |
7↓ |
12↓ |
10↓ |
7↓ |
7↓ |
13↓ |
conserved hypothetical protein [first part] |
|
| Mb3194 |
Rv3169 |
|
|
|
|
|
|
|
|
|
3↑ |
3↑ |
2↑ |
3↑ |
conserved hypothetical protein |
|
| Mb3477c |
Rv3447c |
|
|
|
|
|
8↓ |
|
3↓ |
10↓ |
9↓ |
2↓ |
|
7↓ |
probable conserved membrane protein |
nSNP at postn. 3812465 in 2451/01 and 1307/01; T-C (S to G) |
| Mb3563c |
Rv3533c |
PPE62 |
|
|
|
|
5↑ |
5↑ |
|
|
|
|
|
|
ppe family protein |
|
| Mb3721c |
Rv3696c |
glpK |
|
|
|
|
|
|
|
|
|
|
3↓ |
|
glycerol kinase |
|
| Mb3803 | Rv3774 | echA21 | 8↑ | 7↑ | 22↑ | possible enoyl-coA hydratase | sSNP at postn. 4155803 in 2415/01 only; G-A | |||||||||
Up and down arrows indicate fold up- and downregulation, respectively, and empty cells indicate no change in expression.