Table 2.
Virulence plasmid genes differentially expressed in response to anaerobic conditions
| ORF ID ab | Gene | Description | RNA-seq c log2FC | RNA-seq c log2FC | FRT-seq c log2FC |
|---|---|---|---|---|---|
| WT no O 2 /O 2 | Δ fnr /WT no O 2 | Δ fnr /WT no O 2 | |||
| pWR501_0265 | yigB | hypothetical protein | 2.56 | ||
| pWR501_0225 | ospI | T3SS effector | 2.00 | -2.21 | |
| pWR501_0250 | shf | peptidoglycan deacetylase | 1.24 | -3.42 | -1.30 |
| pWR501_0251 | rfbU | glycosiltransferase | 1.21 | -1.65 | -1.16 |
| pWR501_0252 | virK | virulence protein | 1.15 | -2.16 | -1.03 |
| pWR501_0039 | parA | plasmid segregation protein | 1.13 | ||
| pWR501_0253 | msbB | acyltransferase | 1.07 | -3.03 | -1.08 |
| pWR501_0074 | sepA | secreted protease | -1.12 | 1.34 | 1.52 |
| pWR501_0177 | hypothetical protein | -1.55 | 1.04 | ||
| pWR501_0283 | ipaH1.4 | T3SS effector | -1.56 | ||
| pWR501_0175 | hypothetical protein | -1.58 | 2.29 | ||
| pWR501_0176 | hypothetical protein | -1.76 | 2.02 | ||
| pWR501_0015 | hypothetical protein | -2.00 | 1.52 | 1.05 | |
| pWR501_0002 | putative resolvase | -2.04 | 1.97 | ||
| pWR501_0007 | hypothetical protein | -2.25 | 1.63 | ||
| pWR501_0014 | hypothetical protein | -2.25 | 1.60 | 1.27 | |
| pWR501_0192 | virG | invasion protein | -2.25 | 2.36 | |
| pWR501_0144 | ipgF | unknown function | -2.38 | 3.20 | |
| pWR501_0051 | virF | transcriptional activator of virulence | -2.47 | ||
| pWR501_0006 | hypothetical protein | -2.54 | |||
| pWR501_0143 | ipgE | chaperon | -2.55 | 3.39 | |
| pWR501_0146 | mxiH | T3SS component | -2.56 | 1.55 | 4.10 |
| pWR501_0122 | hypothetical protein | -2.58 | 1.53 | 1.95 | |
| pWR501_0121 | hypothetical protein | -2.65 | |||
| pWR501_0191 | virA | T3SS effector | -2.66 | 2.42 | |
| pWR501_0147 | mxiI | T3SS component | -2.80 | 2.00 | 4.01 |
| pWR501_0013 | mkaD | mouse killing factor | -2.81 | 1.97 | 3.33 |
| pWR501_0145 | mxiG | T3SS component | -3.02 | 3.45 | |
| pWR501_0148 | mxiJ | T3SS component | -3.06 | 2.17 | 4.33 |
| pWR501_0031 | hypothetical protein | -3.14 | |||
| pWR501_0005 | hypothetical protein | -3.14 | 2.49 | ||
| pWR501_0292 | sopA | VirG-specific protease | -3.25 | 2.49 | |
| pWR501_0291 | hypothetical protein | -3.31 | |||
| pWR501_0138 | ipgB | invasion protein | -3.34 | 3.66 | |
| pWR501_0157 | spa15 | chaperon | -3.34 | 3.52 | 4.43 |
| pWR501_0012 | shET2-2 | enterotoxin | -3.38 | 3.41 | |
| pWR501_0156 | mxiA | T3SS component | -3.44 | 4.67 | |
| pWR501_0160 | spa32 | invasion protein | -3.45 | 1.34 | 4.63 |
| pWR501_0141 | hypothetical protein | -3.50 | 3.71 | ||
| pWR501_0004 | phoN2 | apyrase | -3.52 | 2.38 | 3.25 |
| pWR501_0150 | mxiL | hypothetical protein | -3.59 | 2.07 | 4.64 |
| pWR501_0132 | acp | hypothetical protein | -3.62 | 5.19 | |
| pWR501_0166 | spa-orf10 | hypothetical protein | -3.64 | 1.97 | 4.52 |
| pWR501_0158 | spa47 | T3SS component | -3.65 | 3.19 | 4.69 |
| pWR501_0140 | icsB | T3SS effector | -3.65 | 2.16 | 4.43 |
| pWR501_0162 | spa24 | T3SS component | -3.70 | 2.28 | 3.71 |
| pWR501_0159 | spa13 | T3SS component | -3.75 | 5.13 | |
| pWR501_0161 | spa33 | T3SS component | -3.75 | 1.99 | 4.03 |
| pWR501_0151 | mxiM | T3SS component | -3.81 | 2.40 | 4.25 |
| pWR501_0155 | mxiC | T3SS component | -3.86 | 2.43 | 4.95 |
| pWR501_0290 | hypothetical protein | -3.86 | 2.00 | ||
| pWR501_0030 | putative enterotoxin fragment | -3.90 | 2.20 | 4.54 | |
| pWR501_0163 | spa9 | T3SS component | -3.92 | 1.93 | 3.56 |
| pWR501_0137 | ipgC | chaperon | -3.93 | 1.86 | 4.04 |
| pWR501_0135 | ipaC | T3SS effector | -3.93 | 2.65 | 5.01 |
| pWR501_0165 | spa40 | T3SS component | -3.94 | 4.02 | |
| pWR501_0139 | ipgA | chaperon | -3.95 | 2.45 | 4.25 |
| pWR501_0153 | mxiD | T3SS component | -3.98 | 2.33 | 4.81 |
| pWR501_0152 | mxiE | transcriptional activator | -4.06 | 2.51 | 4.48 |
| pWR501_0154 | mxiD | T3SS component | -4.08 | 2.66 | 4.54 |
| pWR501_0134 | ipaD | T3SS effector | -4.16 | 2.99 | 4.92 |
| pWR501_0167 | spa-orf11 | hypothetical protein | -4.19 | 2.85 | 4.07 |
| pWR501_0136 | ipaB | T3SS effector | -4.24 | 2.97 | 4.59 |
| pWR501_0133 | ipaA | T3SS effector | -4.24 | 3.09 | 4.98 |
| pWR501_0003 | hypothetical protein | -4.57 | 3.29 | ||
| pWR501_0164 | spa29 | T3SS component | -5.06 | 2.36 | 3.32 |
| pWR501_0131 | virB | transcriptional activator | -5.17 | 2.40 | 4.26 |
a S. flexneri 5a str. M90T pWR501 virulence plasmid sequence was used as reference GenBank accession numbers AF348706.
bGenes are arranged in descending order in relation to Log2 of Fold Change values of WT no O2/WT O2 comparison.
cLog2 of Fold Change values of WT no O2/WT O2 and Δfnr no O2/WT no O2 comparisons are presented. Only values considered differentially expressed are shown (p adjust <0.05).