Table 5.
Differential expression of RNA transcripts as detected by a tiled oligonucleotide microarray
| Transcript | No. Probes | Position | Size | cds | Strand* | 1121/01 | 2451/01 | 1307/01 | CDS Product | SNP |
|---|---|---|---|---|---|---|---|---|---|---|
| T1 |
3 |
303138-303295 |
157 |
Mb0258/nirB |
A |
|
|
3↑ |
nitrite reductase (large sub-unit) |
|
| T2 |
5 |
303260-303515 |
255 |
Mb0258/nirB |
S |
|
|
5↑ |
nitrite reductase (large sub-unit) |
sSNP at 303227; C-T in 1307/01 only |
| T3 |
2 |
1105085-1105193 |
108 |
Mb1014 |
A |
|
3↑ |
3↑ |
probable adhesion component of ABC transporter |
|
| T4 |
2 |
1105158-1105315 |
157 |
Mb1014 |
A |
|
3↑ |
3↑ |
probable adhesion component of ABC transporter |
|
| T5 |
3 |
1105158-1105315 |
157 |
Mb1014 |
S |
|
3↑ |
3↑ |
probable adhesion component of ABC transporter |
|
| T6 |
5 |
1778876-1779131 |
255 |
Mb1618c |
A |
9↑ |
|
|
possible secreted lipase |
sSNP at 1778879; C-T in 1121/01 only |
| T7 |
2 |
1840174-1840282 |
108 |
Mb1672c |
S |
|
|
4↓ |
hypothetical protein |
|
| T8 |
3 |
1932158-1932315 |
157 |
tRNA-Pro |
S |
|
|
3↑ |
proline tRNA |
|
| T9 |
5 |
1932452-1932707 |
255 |
Mb1749c |
S |
|
|
4↑ |
toxin component of toxin-antitoxin system |
nSNP at 1932704; C-T (G to D) in 1307/01 only |
| T10 |
5 |
1932746-1933075 |
329 |
Mb1750c |
S |
|
|
7↑ |
anti-toxin component of toxin-antitoxin system |
|
| T11 |
6 |
2122959-2123263 |
304 |
Mb1914c |
A |
|
12↑ |
|
probable short-chain type dehydrogenase/reductase |
sSNP at 2122970; C-T in 2451/01 only |
| T12 |
2 |
2324463-2324571 |
108 |
Mb2110 |
S |
|
|
3↑ |
hypothetical protein (frame-shifted in 2122/97) |
|
| T13 |
2 |
2328944-2329052 |
108 |
Mb2116c/pepE |
S |
|
2↓ |
3↓ |
probable dipeptidase |
|
| T14 |
2 |
2329483-2329591 |
108 |
Mb2117 |
A |
|
10↓ |
10↓ |
5′-3′ exonuclease |
nSNP at 2329583; A-G (comp. strand; I to T) in 2451/01 only |
| T15 |
3 |
2868310-2868467 |
157 |
Mb2607 |
A |
|
6↓ |
8↓ |
hp (frame-shifted in 2122/97) |
|
| T16 |
2 |
2868506-2868614 |
108 |
Mb2607 |
A |
|
7↓ |
7↓ |
hp (frame-shifted in 2122/97) |
nSNP at 2868616; A-G (stop to W) in 2451/01 and 1307/01; |
| T17 |
2 |
3075740-3075848 |
108 |
|
I |
|
5↑ |
6↑ |
|
|
| T18 |
2 |
3075887-3075995 |
108 |
|
I |
|
5↑ |
6↑ |
|
|
| T19 |
2 |
3076622-3076730 |
108 |
|
I |
|
4↑ |
4↑ |
|
|
| T20 |
2 |
3076769-3076877 |
108 |
|
I |
|
5↑ |
5↑ |
|
|
| T21 |
2 |
3078728-3078836 |
108 |
|
I |
|
6↑ |
7↑ |
|
|
| T22 |
2 |
3079169-3079277 |
108 |
|
I |
|
4↑ |
6↑ |
|
|
| T23 |
2 |
3079903-3080011 |
108 |
|
I |
|
6↑ |
7 |
|
|
| T24 |
2 |
3844577-3844685 |
108 |
Mb3509c |
S |
|
3↑ |
3↑ |
possible acyltransferase (frame-shifted in 2122/97) |
|
| T25 |
6 |
4155501-4155805 |
304 |
Mb3803/echA21 |
A |
|
5↑ |
|
possible enoyl-coA hydratase |
sSNP at 4155803; C-T (comp. strand) in 2451/01 only |
| T26 | 2 | 4316987-4317095 | 108 | Mb3927c | A | 3↑ | chp (frame-shifted in H37Rv) |
Up and down arrows indicate fold up- and downregulation, respectively, and empty cells indicate no change in expression.
*Strand, A indicates antisense, S, sense and I, intergenic.