TABLE 5.
Positively regulated σB-dependent genes present in lineage I but not in lineage II
| Genea | Productb | Fold changec |
Adjusted P valued |
||
|---|---|---|---|---|---|
| Lineage I | Lineage II | Lineage I | Lineage II | ||
| lmo0130 | Ser/Thr protein phosphatase family protein | 2.1 | 1.3 | 0.0046 | 0.0764 |
| lmo0188 | Dimethyladenosine transferase (16S rRNA dimethylase) | 1.7 | 1.1 | 0.0348 | 0.3556 |
| lmo0217 | Similar to B. subtilis DivIC protein | 1.8 | 1.2 | 0.0167 | 0.0230 |
| lmo0239 | Hypothetical protein | 1.9 | 1.1 | 0.0244 | 0.4018 |
| lmo0315 | Similar to thiamine biosynthesis protein | 2.5 | 1.0 | 0.0395 | 0.9741 |
| lmo0640 | Similar to oxidoreductase | 1.8 | 1.2 | 0.0081 | 0.0748 |
| lmo0958 | Transcriptional regulator, GntR family | 1.7 | 1.4 | 0.0082 | 0.0100 |
| lmo0959 | Llm protein | 1.8 | 1.1 | 0.0398 | 0.3736 |
| lmo1076 | N-Acetylmuramoyl-l-alanine amidase, family 4 | 1.6 | 1.2 | 0.0264 | 0.2002 |
| lmo1237 | Similar to glutamate racemase | 1.7 | 1.0 | 0.0324 | 0.8658 |
| lmo1255 | PTS, trehalose-specific, IIBC component | 2.7 | 1.3 | 0.0227 | 0.0495 |
| lmo1293 | Similar to glycerol-3-phosphate dehydrogenase | 1.8 | 0.5 | 0.0200 | 0.0026 |
| lmo1348 | Similar to aminomethyltransferase | 1.7 | 0.9 | 0.0447 | 0.1346 |
| lmo1357 | Acetyl-coenzyme A carboxylase, biotin carboxylase | 1.9 | 1.3 | 0.0290 | 0.0092 |
| lmo1389 | Similar to sugar ABC transporter, ATP-binding protein | 2.2 | 1.2 | 0.0020 | 0.0868 |
| lmo1390 | Similar to ABC transporter (permease proteins) | 2.2 | 1.2 | 0.0041 | 0.0399 |
| lmo1391 | Putative ABC transporter, permease protein | 1.8 | 1.2 | 0.0187 | 0.2869 |
| lmo1538 | Similar to glycerol kinase | 2.9 | 0.7 | 0.0001 | 0.0195 |
| lmo1539 | Similar to glycerol uptake facilitator | 3.9 | 0.7 | 0.0000 | 0.0746 |
| lmo1542 | Ribosomal protein L21 | 1.5 | 1.4 | 0.0354 | 0.0355 |
| lmo1570 | Highly similar to pyruvate kinases | 1.8 | 1.1 | 0.0227 | 0.7807 |
| lmo1658 | 30S ribosomal protein S2 | 2.2 | 1.3 | 0.0029 | 0.0530 |
| lmo1849 | Similar to metal cation ABC transporter, ATP-binding protein | 2.3 | 1.0 | 0.0224 | 0.8362 |
| lmo1956 | Similar to transcriptional regulator (Fur family) | 2.0 | 1.0 | 0.0148 | 0.9788 |
| lmo1998 | Similar to opine catabolism protein | 5.3 | 0.7 | 0.0467 | 0.0471 |
| lmo2000 | PTS, mannose/fructose/sorbose family, IID component | 13.5 | 0.9 | 0.0019 | 0.7744 |
| lmo2001 | PTS, IIC component | 10.4 | 0.7 | 0.0089 | 0.0102 |
| lmo2004 | Transcriptional regulator, GntR family | 3.8 | 0.9 | 0.0379 | 0.4411 |
| lmo2020 | Similar to cell division initiation protein (septum placement) | 2.5 | 1.4 | 0.0096 | 0.0014 |
| lmo2038 | UDP-N-acetylmuramoylalanyl-d-glutamate-2,6-diaminopimelate ligase | 2.9 | 1.2 | 0.0124 | 0.0404 |
| lmo2058 | Similar to heme O oxygenase | 2.1 | 1.2 | 0.0462 | 0.1411 |
| lmo2101 | Pyridoxine biosynthesis protein | 2.4 | 1.1 | 0.0011 | 0.5643 |
| lmo2102 | Unknown | 1.9 | 1.2 | 0.0066 | 0.0845 |
| lmo2118 | Similar to phosphoglucomutase | 1.5 | 0.9 | 0.0367 | 0.6917 |
| lmo2167 | Metallo-beta-lactamase family protein | 2.0 | 1.2 | 0.0201 | 0.1227 |
| lmo2208 | Hydrolase, haloacid dehalogenase-like family | 2.0 | 1.0 | 0.0153 | 0.9761 |
| lmo2216 | Similar to histidine triad (HIT) protein | 1.7 | 1.3 | 0.0444 | 0.0018 |
| lmo2217 | Similar to unknown protein | 1.5 | 1.4 | 0.0329 | 0.0010 |
| lmo2223 | Conserved hypothetical protein | 2.0 | 1.4 | 0.0136 | 0.0056 |
| lmo2232 | CBS domain protein | 2.5 | 1.2 | 0.0123 | 0.1146 |
| lmo2240 | Similar to ABC transporter (ATP-binding protein) | 1.7 | 1.1 | 0.0137 | 0.4621 |
| lmo2397 | Similar to NifU protein | 1.8 | 1.2 | 0.0244 | 0.3112 |
| lmo2415 | Similar to ABC transporter, ATP-binding protein | 2.0 | 1.0 | 0.0254 | 0.8350 |
| lmo2507 | Highly similar to the cell division ATP-binding protein FtsE | 2.7 | 1.3 | 0.0290 | 0.0181 |
| lmo2547 | Highly similar to homoserine dehydrogenase | 1.5 | 0.9 | 0.0341 | 0.6523 |
| lmo2633 | Ribosomal protein S10 | 1.6 | 1.0 | 0.0187 | 0.8983 |
| lmo2660 | Similar to transketolase | 1.7 | 0.9 | 0.0305 | 0.1802 |
| lmo2664 | Similar to sorbitol dehydrogenase | 2.2 | 1.1 | 0.0027 | 0.7538 |
| lmo2665 | Similar to PTS galactitol-specific enzyme IIC component | 2.9 | 1.0 | 0.0064 | 0.9200 |
| lmo2666 | Similar to PTS galactitol-specific enzyme IIB component | 2.9 | 0.7 | 0.0004 | 0.0005 |
| lmo2667 | Similar to PTS galactitol-specific enzyme IIA component | 2.3 | 0.8 | 0.0015 | 0.0316 |
| lmo2668 | Similar to transcriptional antiterminator (BglG family) | 2.2 | 0.7 | 0.0014 | 0.0058 |
| lmo2758 | Similar to inosine monophosphate dehydrogenase | 1.7 | 1.1 | 0.0239 | 0.5999 |
| lmo2791 | Partition protein, ParA homolog | 1.9 | 1.0 | 0.0260 | 0.7694 |
| lmoh7858_0080.5 | Hypothetical protein | 3.2 | 1.0 | 0.0002 | 0.9174 |
a
Gene names are based on the L. monocytogenes EGDe locus. Bold type indicates putative operons.
b
Common names of the products are based on the EGDe annotation.
c
Changes in the transcript level in the parent strain compared to the transcript level in the ΔsigB strain. A ≥1.5-fold change was considered significant.
d
An adjusted P value of <0.05 was considered significant.