Table 4.
Most differentially expressed genes in the RNA-seq analysis of LB (reference) and LB-bile
| Gene annotation | Accession no. | Counta |
Fold change (log2) | P valueb | |
|---|---|---|---|---|---|
| LB | LB-bile | ||||
| Hypothetical protein | YP_001464430 | 1 | 463 | 9.56 | 0.001 |
| Hypothetical protein | YP_001463383.1 | 13 | 2,241 | 7.44 | 0.002 |
| Hypothetical protein | YP_001462569 | 1 | 201 | 7.35 | 0.014 |
| Plasmid-encoded araC (peaR) | YP_001451499.1 | 26 | 3,769 | 7.19 | 0.002 |
| Hypothetical protein | YP_001462412 | 3 | 309 | 6.65 | 0.016 |
| Hypothetical protein | YP_001462237 | 10 | 951 | 6.51 | 0.013 |
| Hypothetical protein | YP_001463716 | 3 | 280 | 6.51 | 0.019 |
| Hypothetical protein | YP_001463386 | 31 | 2,448 | 6.31 | 0.007 |
| Multiple antibiotic resistance (marB) | YP_001462817 | 2 | 179 | 6.18 | 0.031 |
| Hypothetical protein | ABV16359 | 7 | 306 | 5.37 | 0.065 |
| Hypothetical protein | YP_001463094 | 78 | 2,906 | 5.22 | 0.030 |
| Hypothetical protein | YP_001462826 | 94 | 2,885 | 4.96 | 0.049 |
a
Results represent normalization with DESeq.
b
Results represent Benjamini-Hochberg correction.