TABLE 2.
Genes determined to be differentially regulated between wild-type and ΔpepD strains by microarray analysis
| Locus | Gene | Microarray ratioa | RT-PCR ratiob | Gene productc |
|---|---|---|---|---|
| Rv0079 | 3.0 | 1.5 | Hypothetical protein | |
| Rv0789c | 13.0 | 2.0 | Hypothetical protein | |
| Rv0983 | pepD | 0.1 | N/A | Serine protease |
| Rv0984 | moaB2 | 0.06 | 0.6 | Pterin carbinolamine dehydratase |
| Rv0997 | 8.6 | 2.1 | Hypothetical protein | |
| Rv1057 | 4.6 | 4.0 | Hypothetical protein | |
| Rv1076 | lipU | 0.3 | 0.6 | Possible lipase |
| Rv1221 | sigE | 3.0 | 4.9 | Sigma factor E |
| Rv2031c | hspX | 2.8 | 1.6 | Heat shock protein |
| Rv2784c | lppU | 3.2 | 1.6 | Probably lipoprotein |
| Rv2959c | 4.6 | 1.8 | Possible methyltransferase | |
| Rv2987c | leuD | 4.0 | 2.7 | Isopropylmalate isomerase |
| Rv2988c | leuC | 3.7 | 3.1 | Isopropylmalate isomerase |
| Rv3095 | 3.5 | 6.0 | Hypothetical transcriptional regulatory protein | |
| Rv3135 | PPE50 | 3.0 | 2.3 | PPE family protein |
| Rv3841 | bfrB | 3.0 | 1.3 | Possible bacterioferritin |
a
Microarray ratios were determined using SAM comparing ΔpepD and wild-type (wt) RNA (ΔpepD/wt).
b
RT-PCR ratios for the genes were determined using the ΔCT method to compare RNA levels between strains (ΔpepD/wt). The values were first normalized to the housekeeping sigma factor, sigA.
c
Gene products are annotated based on the Pasteur Institutes' Tuberculist website (http://genolist.pasteur.fr/Tuberculist).