TABLE 3.
Genes identified by microarray analysis as showing lower transcript levels in the ΔhrcA straina
| Geneb | Differential expression in L. monocytogenes parent strain vs ΔhrcA strain
|
Protein function (specific gene name) | |
|---|---|---|---|
| Adjusted P value | Fold changec | ||
| lmo0001 | 0.0134 | 1.5 | Chromosomal replication initiation protein (dnaA) |
| lmo0044 | 0.0162 | 1.5 | Ribosomal protein S6 (rpsF) |
| lmo0045 | 0.0003 | 1.8 | Single-strand binding protein (ssb) |
| lmo0046 | 0.0042 | 1.5 | Ribosomal protein S18 (rpsR) |
| lmo0223 | 0.0366 | 1.5 | Cysteine synthase (cysK) |
| lmo0248 | 0.0004 | 1.9 | Ribosomal protein L11 (rplK) |
| lmo0249 | 0.0005 | 2.1 | Ribosomal protein L1 (rplA) |
| lmo0726 | 0.0012 | 1.9 | Unknown |
| lmo0727 | 0.0004 | 1.9 | Similar to l-glutamine-d-fructose-6-phosphate aminotransferase |
| lmo1059 | 0.0501 | 1.5 | Unknown |
| lmo1268 | 0.0003 | 1.7 | ATP-dependent Clp protease ATP-binding subunit ClpX (clpX) |
| lmo1469 | 0.0036 | 1.8 | 30S ribosomal protein S21 (rpsU) |
| lmo1468 | 0.0016 | 1.5 | Unknown |
| lmo1523 | 0.0006 | 1.5 | Similar to (p)ppGpp synthetase (relA) |
| lmo1542 | 0.0017 | 1.6 | Ribosomal protein L21 (rplU) |
| lmo1541 | 0.0273 | 1.8 | Unknown |
| lmo1657 | 0.0042 | 1.6 | Translation elongation factor (tsf) |
| lmo1658 | 0.0209 | 1.5 | 30S ribosomal protein S2 (rpsB) |
| lmo1683 | 0.0036 | 1.8 | Similar to transcription regulators (Fur family), PerR in B. subtilis |
| lmo1785 | 0.0008 | 1.7 | Translation initiation factor IF-3 (infC) |
| lmo1784 | 0.0017 | 1.6 | Ribosomal protein L35 (rpmI) |
| lmo1859 | 0.0021 | 1.6 | Similar to transcriptional regulator, PilB family |
| lmo1879 | 0.0209 | 1.5 | Similar to cold shock protein (cspD) |
| lmo1921 | 0.0079 | 1.6 | Unknown |
| lmo1956 | 0.0003 | 2.1 | Transcriptional regulator, Fur family (fur) |
| lmo2048 | 0.0006 | 1.7 | Unknown |
| lmo2047 | 0.0013 | 1.6 | Ribosomal protein L32 (rpmF) |
| lmo2055 | 0.0007 | 1.6 | Unknown |
| lmo2054 | 0.0032 | 1.5 | Unknown |
| lmo2261 | 0.0042 | 1.6 | Unknown |
| lmo2340 | 0.0002 | 1.6 | Similar to Erwinia chrysanthemi IndA protein |
| lmo2362 | 0.0032 | 1.8 | Amino acid antiporter (gadC) |
| lmo2363 | 0.0010 | 2.3 | Glutamate decarboxylase (gadB) |
| lmo2426 | 0.0032 | 1.7 | Unknown |
| lmo2478 | 0.0005 | 1.6 | Thioredoxin reductase (trxB) |
| lmo2597 | 0.0048 | 1.9 | Ribosomal protein L13 (rplM) |
a
All genes that showed evidence for lower transcript levels in the ΔhrcA strain in the microarray comparison are listed (adjusted P value of <0.05; n-fold change of ≥1.5); as HrcA is a negative regulator, genes downregulated in the ΔhrcA strain are most likely indirectly affected by HrcA.
b
Putative operons are in bold font; gene names correspond to the gene designations for L. monocytogenes strain EGD-e (as listed on the ListiList server http://genolist.pasteur.fr/ListiList/).
c
Positive changes indicate genes that have higher transcript levels in the L. monocytogenes parent strain.