Table 2.
Functional groups of differentially expressed genes between mutant strains and ATCC 17978
| Locus tag | log2 (fold change) | log2 (fold change) | Protein name |
|---|---|---|---|
| in IPM-2 m | in IPM-8 m | ||
| Recombinase | |||
| A1S_0015 | 7.74 | 8.92 | Hypothetical protein A1S_0015 |
| A1S_0016 | 7.90 | 8.30 | Site-specific tyrosine recombinase |
| Fatty acid metabolism | |||
| A1S_0106 | -0.23 | -3.05 | Putative enoyl-CoA hydratase/isomerase |
| A1S_0107 | -0.27 | -3.08 | Putative enoyl-CoA hydratase/isomerase family protein |
| A1S_0109 | -3.62 | -6.03 | Homoserine lactone synthase |
| Quorum sensing | |||
| A1S_0112 | -1.86 | -4.76 | Acyl-CoA synthetase/AMP-acid ligases II |
| A1S_0115 | -2.47 | -5.27 | Amino acid adenylation |
| A1S_0116 | -2.97 | -6.01 | RND superfamily transporter |
| A1S_0117 | -1.38 | -2.92 | Hypothetical proteinA1S_0117 |
| A1S_0118 | -2.01 | -4.06 | Hypothetical protein A1S_0118 |
| Transposase | |||
| A1S_0209 | 4.76 | 4.82 | Transposase |
| A1S_0210 | 3.17 | 2.89 | Transposase |
| RND eflux transporter | |||
| A1S_0535 | 4.19 | 0.28 | RND efflux transporter |
| A1S_0536 | 4.93 | 0.86 | Macrolide transport protein |
| A1S_0537 | 4.74 | 0.83 | RND efflux transporter |
| A1S_0538 | 4.48 | 0.39 | RND efflux transporter |
| Transposase and DNA repair | |||
| A1S_0623 | 8.34 | 7.98 | DNA mismatch repair enzyme |
| A1S_0626 | 6.04 | 5.06 | Hypothetical protein A1S_0626 |
| A1S_0627 | 6.20 | 6.38 | Hypothetical protein A1S_0627 |
| A1S_0628 | 6.93 | 6.67 | Putative transposase |
| A1S_0630 | 4.72 | 5.14 | Hypothetical protein A1S_0630 |
| A1S_0631 | 6.12 | 5.52 | Hypothetical protein A1S_0631 |
| A1S_0632 | 7.45 | 7.19 | DNA primase |
| A1S_0633 | 6.13 | 5.74 | Hypothetical protein A1S_0633 |
| A1S_0634 | 5.17 | 4.93 | Hypothetical protein A1S_0634 |
| A1S_0637 | 6.21 | 6.52 | DNA-directed DNA polymerase |
| A1S_0638 | 7.37 | 7.45 | Hypothetical protein A1S_0638 |
| A1S_0640 | 6.91 | 6.41 | Hypothetical protein A1S_0640 |
| A1S_0646 | 7.36 | 7.00 | IcmB protein |
| A1S_0649 | 8.52 | 8.43 | Putative phage primase |
| A1S_0650 | 7.02 | 6.46 | Conjugal transfer protein |
| A1S_0651 | 6.67 | 6.32 | TraB protein |
| A1S_0652 | 8.02 | 7.83 | Putative ferrous iron transport protein A |
| A1S_0661 | 6.22 | 5.70 | Phage integrase family protein |
| A1S_0665 | 6.79 | 6.34 | Conjugal transfer protein TrbJ |
| A1S_0666 | 7.50 | 7.16 | TrbL/VirB6 plasmid conjugal transfer protein |
| A1S_0671 | 7.89 | 6.92 | Protein tyrosine phosphatase |
| CoA synthase/hydratase/lyase | |||
| A1S_1109 | -0.77 | -3.66 | Feruloyl-CoA synthase |
| A1S_1110 | -0.48 | -3.48 | Hydroxybenzaldehyde dehydrogenase |
| A1S_1111 | -0.41 | -4.66 | P-hydroxycinnamoyl CoA hydratase/lyase |
| A1S_1112 | -0.53 | -3.19 | Putative 3-hydroxyphenylpropionic transporter MhpT |
| Lipase | |||
| A1S_1121 | 4.63 | 2.24 | Lipase/esterase |
| A1S_1122 | 3.36 | 0.67 | Putative short-chain dehydrogenase |
| A1S_1123 | 2.77 | 0.59 | Putative flavin-binding monooxygenase |
| Bacterial secretion system, OOP family | |||
| A1S_1272 | -3.30 | -3.31 | Putative transcriptional regulator |
| A1S_1296 | -3.49 | -3.45 | Hypothetical protein A1S_1296 |
| A1S_129 | -2.42 | -2.77 | Hypothetical protein A1S_1297 |
| A1S_1305 | -2.59 | -2.36 | Putative outer membrane lipoprotein |
| A1S_1307 | -3.03 | -2.35 | Putative ClpA/B-type chaperone |
| A1S_1308 | -2.93 | -3.06 | Hypothetical protein A1S_1308 |
| A1S_1309 | -3.75 | -2.86 | Hypothetical protein A1S_1309 |
| A1S_1310 | -2.91 | -2.58 | Hypothetical protein A1S_1310 |
| Homologous recombination; Biosynthesis of secondary metabolites | |||
| A1S_1511 | -0.58 | 3.30 | Biotin synthase |
| A1S_1512 | 0.96 | 5.28 | Putative ferredoxin |
| A1S_1513 | 0.27 | 3.71 | Hypothetical protein A1S_1513 |
| A1S_1514 | 1.61 | 4.81 | Holliday junction nuclease |
| A1S_1515 | 0.24 | 3.04 | Hypothetical protein A1S_1515 |
| A1S_1516 | 2.80 | 6.15 | Putative antibiotic resistance |
| A1S_1517 | 3.79 | 8.36 | Beta-lactamase OXA-95 |
| Multidrug efflux pump; Aminobenzoate degradation | |||
| A1S_1750 | 2.52 | 0.26 | AdeB |
| A1S_1857 | 3.29 | 0.51 | Vanillate O-demethylase oxidoreductase |
| A1S_1858 | 3.32 | 0.36 | Short-chain dehydrogenase/reductase SDR |
| A1S_1860 | 2.74 | -2.86 | Ring hydroxylating dioxygenase Rieske (2Fe-2S) protein |
| A1S_1861 | 3.70 | 0.53 | Benzoate dioxygenase large subunit |
| A1S_1863 | 3.84 | -1.41 | Hypothetical protein A1S_1863 |
| A1S_1864 | 4.73 | -1.58 | Acyl-CoA dehydrogenase-like protein |
| A1S_1865 | 4.25 | -2.30 | Glu-tRNA amidotransferase |
| A1S_1867 | 3.71 | 0.03 | Major facilitator transporter |
| Csu Operon | |||
| A1S_2213 | -2.06 | -3.63 | CsuE |
| A1S_2214 | -2.40 | -3.86 | CsuD |
| A1S_2215 | -3.14 | -4.57 | CsuC |
| A1S_2216 | -2.73 | -4.45 | CsuB |
| A1S_2217 | -2.53 | -4.18 | CsuA |
| A1S_2218 | -3.89 | -5.88 | CsuA/B |
| ABC transporters | |||
| A1S_2531 | 3.20 | 0.22 | Sulfate transport protein |
| A1S_2533 | 3.21 | 1.45 | Putative esterase |
| A1S_2534 | 3.34 | 2.02 | Sulfate transport protein |
| Others | |||
| A1S_0032 | 7.09 | 0.49 | Putative signal peptide |
| A1S_0033 | 5.60 | 1.73 | Putative signal peptide |
| A1S_0058 | -2.62 | -1.47 | Glycosyltransferase |
| A1S_0087 | -3.76 | -4.52 | Short-chain dehydrogenase/reductase SDR |
| A1S_0097 | -2.79 | -0.41 | Hypothetical protein A1S_0097 |
| A1S_0158 | 2.91 | -0.15 | Hypothetical protein A1S_0158 |
| A1S_0161 | -2.53 | -2.86 | MFS family transporter |
| A1S_0172 | -2.10 | -2.92 | Hypothetical protein A1S_0172 |
| A1S_0511 | 3.17 | 1.25 | Hypothetical protein A1S_0511 |
| A1S_0548 | -2.94 | -1.92 | TetR family transcriptional regulator |
| A1S_0721 | 2.62 | 1.15 | Glutaryl-CoA dehydrogenase |
| A1S_0835 | 2.91 | 0.52 | Outer-membrane lipoprotein precursor |
| A1S_1224 | 2.03 | 3.81 | Transposase |
| A1S_1390 | -3.20 | -0.97 | Hypothetical protein A1S_1390 |
| A1S_1441 | 2.91 | -0.31 | Putative signal peptide |
| A1S_1879 | -2.81 | -1.76 | Hypothetical protein A1S_1879 |
| A1S_1950 | -1.32 | -2.85 | Putative universal stress protein |
| A1S_2157 | 5.72 | 1.02 | Putative signal peptide |
| A1S_2158 | 2.78 | 0.36 | Putative monooxygenase |
| A1S_2225 | -1.04 | -3.21 | Hypothetical protein A1S_2225 |
| A1S_2259 | 2.84 | 0.15 | Putative signal peptide |
| A1S_2325 | 3.00 | 1.40 | Putative outer membrane protein |
| A1S_2434 | 2.65 | 1.60 | Putative signal peptide |
| A1S_2455 | 3.89 | 0.89 | Putative signal peptide |
| A1S_2456 | 3.38 | 1.59 | LysR family transcriptional regulator |
| A1S_2463 | 2.16 | 2.87 | Putative ribosomal large subunit pseudouridine synthase A(RluA-like) |
| A1S_2487 | -3.93 | -4.93 | Hypothetical protein A1S_2487 |
| A1S_2511 | -1.62 | -2.74 | Phenylacetic acid degradation-related protein |
| A1S_2554 | 5.96 | 6.16 | Putative transposase |
| A1S_2699 | -2.51 | -2.80 | Putative transcriptional regulator |
| A1S_2729 | 3.67 | -0.15 | Outer-membrane lipoproteins carrier protein |
| A1S_2885 | 6.80 | 0.78 | Putative signal peptide |
| A1S_2889 | 6.72 | 1.25 | Putative signal peptide |
| A1S_3034 | 2.80 | 0.44 | Hypothetical protein A1S_3034 |
| A1S_3085 | -5.00 | -2.34 | Putative flavohemoprotein |
| A1S_3086 | -3.09 | -1.21 | Hypothetical protein A1S_3086 |
| A1S_3100 | 3.18 | 0.18 | Putative toluene tolerance protein (Ttg2D) |
| A1S_3139 | 3.16 | 0.03 | Putative signal peptide |
| A1S_3273 | -3.03 | -1.79 | Putative peptide signal |
| A1S_3363 | -1.98 | -2.86 | Membrane metalloendopeptidases proteins |
| A1S_3415 | 0.09 | -2.84 | Maleylacetoacetate isomerase |