Table 3.
Association between differentially expressed antisense reads with adjacent differentially expressed genes between C. jejuni grown on avian or mammalian mucus.
| Antisense RNA (fold change) | Sense gene(s) (fold change) | Genome position relative to antisense RNA |
|---|---|---|
| Cj0145 (−4.9)** | trxB (−7.2)** | 1 |
| trxA (−4.6) | trxB (−7.2)** | −1 |
| cfbpA (−16)* | cfbpA (−19)* | 0 |
| Cj0176c (−14.7)* | 1 | |
| Cj0177 (−137)* | 2 | |
| Cj0178 (−73.8)* | 3 | |
| exbB1 (−89.4)* | 4 | |
| exbD1 (−128.1)* | 5 | |
| tonB1 (−19.2)* | 6 | |
| cfbpB (−11.2)* | −1 | |
| cfbpC (−7.6)* | −2 | |
| ahpC (−4)** | ahpC (−10.6)** | 0 |
| fdxA (14) | −1 | |
| accA (−8.9)* | Cj0444 (−13.1)* | 1 |
| Cj0447 (−8.4) | Cj0444 (−13.1) | −1 |
| Cj0752 (−6.9)* | tonB3 (−11.2)* | 1 |
| cfrA (−87.4)* | 2 | |
| tonB3 (−9.8) | tonB3 (−11.2)* | 0 |
| cfrA (−87.4)* | 1 | |
| cfrA (−5.8)* | cfrA (−87.4)* | 0 |
| tonB3 (−11.2)* | −1 | |
| fliP (−40.6)* | Cj0819 (−59.5)* | −1 |
| Cj0818 (−50.5)* | −2 | |
| Cj0879c (−6) | Cj0880c (−4.6) | 1 |
| Cj0878 (−4.8) | −1 | |
| Cj1309c (−7) | Cj1308 (−4.6) | −1 |
| pldA (−10.7) | ceuB (−14.5) | 1 |
| ceuC (−18.5) | 2 | |
| ceuD (−8) | 3 | |
| ceuE (−5.2) | 4 | |
| tRNASer_1 (−4.6) | ceuE (−5.2) | −1 |
| ceuD (−8) | −2 | |
| ceuC (−18.5) | −3 | |
| ceuB (−14.5) | −4 | |
| Cj1381 (−12)* | Cj1381 (−7.1) | 0 |
| Cj1387c (−11.8)** | Cj1386 (−43.6)** | −1 |
| katA (−116)** | −2 | |
| Cj1384c (−92)* | −3 | |
| Cj1383c (−177.7)* | −4 | |
| cgb (−6.8)* | cgb (−4.7) | 0 |
| Cj1587c (−6.5)* | 1 | |
| prfA (−10.6)* | Cj1613c (−16.5)* | 1 |
| chuA (−84.9)* | 2 | |
| chuB (−83.4)* | 3 | |
| chuC (−164.7)* | 4 | |
| chuD (−91.8)* | 5 | |
| Cj1613c (−6.5) | Cj1613c (−16.5)* | 0 |
| chuA (−84.9)* | 1 | |
| chuB (−83.4)* | 2 | |
| chuC (−164.7)* | 3 | |
| chuD (−91.8)* | 4 | |
| Cj1618c (−270.3)* | chuD (−91.8)* | −1 |
| chuC (−164.7)* | −2 | |
| chuB (−83.4)* | −3 | |
| chuA (−84.9)* | −4 | |
| Cj1613c (−16.5)* | −5 | |
| Cj1666c (−11.3)* | Cj1668c (−4.1) | 1 |
| Cj1665 (−10.1)* | −1 | |
| Cj1664 (−13)* | −2 | |
| Cj1663 (−11.3)* | −3 | |
| Cj1662 (−14.1)* | −4 | |
| Cj1661 (−14.4)* | −5 | |
| Cj1660 (−14.3)* | −6 | |
| p19 (−16.4)* | −7 | |
| Cj1658 (−13.4)* | −8 |
Table shows antisense RNAs that are differentially expressed (first column) between C. jejuni grown in avian or mammalian mucus, with fold change in parentheses (negative values indicate an increase in the avian mucus samples). The second column shows differentially expressed (sense) genes and fold change, found in the same sample the antisense RNA was identified. The criteria for these antisense-sense associations required the differentially expressed gene to be either the same gene as the antisense RNA, or adjacent to it in the genome (fdr p-value < 0.01, with >4 fold difference). If an association was identified, the next gene on genome was evaluated (relative positions to antisense in third column). This continued until our threshold was not met. Antisense RNA or sense genes with
were confirmed to be Fur repressed and
) are confirmed to be PerR repressed after analysis of dataset from Butcher et al. (2015).