Table 2.
Genes with greater than 4-fold higher transcription during growth of R. albus 7 on cellulose compared to cellobiose as the sole carbohydrate source assessed by RNA-Seq
| Gene (Rumal_) | Annotation 1 | Fold Change 2 | Signal sequence 3 |
|---|---|---|---|
| 1715 | Indole-3-glycerol-phosphate synthase | 15.50 | No |
| 1714 | chorismate mutase | 15.49 | No |
| 1716 | anthranilate phosphoribosyltransferase | 14.90 | No |
| 1712 | tryptophan synthase subunit alpha | 14.90 | No |
| 1713 | tryptophan synthase subunit beta | 14.10 | No |
| 1717 | anthranilate synthase component I | 13.62 | No |
| 3687 | transcriptional regulator, ArsR family | 11.53 | No |
| 3686 | protein of unknown function DUF1648 | 11.32 | Sec |
| 0360 | helix-turn-helix domain-containing protein | 10.04 | No |
| 3688 | protein of unknown function UCP033101 | 9.98 | TM |
| 2652 | putative multiple sugar transport system substrate-binding protein | 9.80 | Sec |
| 2572 | ECF subfamily RNA polymerase sigma-24 subunit | 8.82 | No |
| 2573 | hypothetical protein | 8.18 | TM |
| 0897 | fibronectin type III domain-containing protein (CBM37) | 7.93 | Sec |
| 3780 | Resolvase domain | 7.91 | No |
| 2448 | Cellulase (GH9 CBM3 CBM37 CBM37) | 7.70 | Sec |
| 3766 | hypothetical protein | 7.42 | Sec |
| 0953 | hypothetical protein | 7.00 | Sec |
| 3796 | ABC transporter family protein | 5.91 | No |
| 1569 | Cellulase (GH9 CBM37) | 5.56 | Sec |
| 3775 | ABC transporter family protein | 5.53 | No |
| 3757 | Endo-1,4-beta-xylanase (GH11 CBM22 GH10 CBM37) | 5.51 | Sec |
| 3776 | IstB domain protein ATP-binding protein | 5.21 | No |
| 0896 | Cellulase (GH5 CBM37) | 5.15 | Sec |
| 1952 | fibronectin type III domain-containing protein (PL1 CBM37) | 5.00 | Sec |
| 3963 | hypothetical protein | 4.84 | TM |
| 1427 | hypothetical protein | 4.74 | TM |
| 0487 | Ricin B lectin (CE12 CBM13 CBM35 CE12) | 4.74 | Sec |
| 3179 | Capsule synthesis protein CapA | 4.68 | No |
| 2739 | endo-1,4-beta-xylanase (GH11 CBM22 CE1 CBM37) | 4.63 | Sec |
| 1262 | fibronectin type III domain-containing protein (PL11 CBM37) | 4.61 | Sec |
| 0908 | endo-1,4-beta-xylanase (GH11 CBM22 CE4 CBM37) | 4.59 | Sec |
| 3944 | chaperone protein DnaK | 4.48 | No |
| 1426 | hypothetical protein | 4.37 | Sec |
| 1821 | family 1 extracellular solute-binding protein | 4.36 | Sec |
| 3777 | Integrase catalytic region | 4.33 | No |
| 1428 | hypothetical protein | 4.30 | TM |
| 1602 | transaldolase | 4.26 | No |
| 2599 | glycoside hydrolase family 5 (GH5 CBM37) | 4.23 | Sec |
| 3940 | hypothetical protein | 4.22 | No |
| 3798 | IS66 Orf2 family protein | 4.22 | No |
| 3186 | family 1 extracellular solute-binding protein | 4.18 | Sec |
| 1951 | fibronectin type III domain-containing protein (CBM37) | 4.17 | Sec |
| 3184 | binding-protein-dependent transport systems inner membrane component | 4.16 | TM |
| 3185 | binding-protein-dependent transport systems inner membrane component | 4.12 | No |
| 3774 | hypothetical protein | 4.10 | No |
| 1044 | spore coat protein CotH (CBM37) | 4.09 | Tat |
| 3263 | hypothetical protein | 4.02 | No |
1Each gene reported here was significantly DE, with a PP of DE greater than 0.95
2Predicted signal sequence predicted by PRED-TAT. Sec = Sec-dependent; TM = transmembrane.
3Genes containing predicted CBM37 domains are presented in bold.