TABLE 1.
B. breve UCC2003 regulator mutant genes with upregulated transcription during growth in mMRS medium supplemented with 1% ribose as the sole carbohydrate, compared to the wild type (control)
| Locus tag | Gene | Function | Fold upregulationa during growth of: |
||
|---|---|---|---|---|---|
| UCC2003-lntR | UCC2003-nahR | UCC2003-nagR1 | |||
| Bbr_0526 | lntR | Transcriptional regulator, LacI family | NA | — | — |
| Bbr_0527 | lntP1 | Permease protein of the ABC transporter system for sugars | 3.84 | — | — |
| Bbr_0528 | lntP2 | Permease protein of the ABC transporter system for sugars | 3.77 | — | — |
| Bbr_0529 | lntA | GH42 beta-galactosidase | 2.78 | — | — |
| Bbr_0530 | lntS | Solute-binding protein of the ABC transporter system for sugars | 5.66 | — | — |
| Bbr_1247 | nagA2 | CE9 nagA2 N-acetylglucosamine-6-phosphate deacetylase | — | — | 6.70 |
| Bbr_1248 | nagB3 | nagB3 glucosamine-6-phosphate isomerase | — | — | 9.11 |
| Bbr_1249 | nagR1 | Transcriptional regulator, ROK family | — | — | NA |
| Bbr_1250 | nagK | Sugar kinase, ROK family | — | — | 2.29 |
| Bbr_1251 | nagR2 | Transcriptional regulator, ROK family | — | — | — |
| Bbr_1252 | nagK2 | Sugar kinase, pfkB family | — | — | — |
| Bbr_1554 | nahS | Solute-binding protein of the ABC transporter system (lactose) | — | 17.44 | — |
| Bbr_1555 | nahR | NagC/XylR-type transcriptional regulator | — | NA | — |
| Bbr_1556 | nahA | GH20 nagZ beta-N-acetylhexosaminidase | — | — | — |
| Bbr_1558 | nahP | Permease protein of the ABC transporter system | — | — | — |
| Bbr_1559 | nahT1 | ATP-binding protein of the ABC transporter system | — | — | — |
| Bbr_1560 | nahT2 | ATP-binding protein of the ABC transporter system | — | — | — |
| Bbr_1585 | lnpD | UDP-glucose 4-epimerase | — | — | 3.06 |
| Bbr_1586 | lnpB | Phosphotransferase family protein | — | — | 3.36 |
| Bbr_1587 | lnpA | GH112 lacto-N-biose phorylase | — | — | 2.90 |
| Bbr_1588 | gltC | Permease protein of the ABC transporter system for sugars | — | — | 2.91 |
| Bbr_1589 | gltB | Permease protein of the ABC transporter system for sugars | — | — | 3.02 |
| Bbr_1590 | gltA | Solute-binding protein of the ABC transporter system for sugars | — | — | 5.07 |
The levels of transcription are shown as fold increases in transcription levels on each carbohydrate, compared to a ribose control. Data are based on comparative transcriptome analysis using B. breve UCC2003-lntR, B. breve UCC2003-nahR, and B. breve UCC2003-nagR1 grown on 1% ribose, compared to wild-type B. breve UCC2003 grown under the same conditions as a control. Two independent biological replicates were used for each array, using a Cy3/Cy5 dye swap. The cutoff point is 2.0-fold, with a P value of 0.001. —, value below the cutoff. NA indicates that the fold increase in the transcription level of this gene is not included, as this is the gene in which the mutation was made, and thus, it does not accurately represent its natural transcription under these conditions. The level of transcription is not given for the regulator-encoding genes containing the mutations in their respective arrays, as their transcription has been interrupted and thus cannot be considered reliable.