TABLE 2.
Expression of genes encoding putative plant biomass polysaccharide-degrading enzymes during the growth of D. squalens dikaryon FBCC312 on l-rhamnose compared to d-glucosea
| Protein ID | Enzyme code | Gene name | Fold change over d-glucose | P value over d-glucose | FPKM l-rhamnose | Putative substrate | CAZyme family |
|---|---|---|---|---|---|---|---|
| 972434 | BGL | 2.7 | 5.64E−09 | 36.4 | Cellulose | GH3 | |
| 1001790 | BGL | 3.7 | 5.41E−13 | 18.1 | Cellulose | CBM1-GH3 | |
| 918783 | CBH | cel7a | 3.3 | 1.66E−04 | 33.5 | Cellulose | GH7 |
| 882755 | EGL | 7.5 | 3.31E−68 | 714.4 | Cellulose | GH45 | |
| 993254 | EGL | 3.4 | 7.38E−05 | 21.6 | Cellulose | GH45 | |
| 214438 | EXPN | 2.7 | 5.02E−13 | 543.1 | Expansin-like | ||
| 904543 | EXPN | 4.0 | 1.56E−06 | 130.5 | Expansin-like | ||
| 38831 | EXPN | 2.8 | 1.44E−04 | 22.4 | Expansin-like | ||
| 920797 | AXE/GMAE | 3.5 | 1.67E−11 | 93.9 | Hemicellulose | CE16 | |
| 932464 | AXE/GMAE | 2.6 | 1.64E−07 | 69.8 | Hemicellulose | CE16 | |
| 863600 | AXE/GMAE | 3.6 | 1.05E−04 | 15.5 | Hemicellulose | CE16 | |
| 818957 | CRO | 22.6 | 2.94E−65 | 567.6 | Lignin | AA5_1 | |
| 455342 | CRO | 11.0 | 1.85E−49 | 432.9 | Lignin | AA5_1 | |
| 819102 | CRO | 5.9 | 1.18E−19 | 186.2 | Lignin | AA5_1 | |
| 551897 | CRO | 40.8 | 5.43E−63 | 153.0 | Lignin | AA5_1 | |
| 930013 | GMC | 3.3 | 3.20E−06 | 20.1 | Lignin | AA3_2 | |
| 823531 | LCC | lcc8 | 2.6 | 2.79E−05 | 19.9 | Lignin | AA1_1 |
| 979936 | MnP | mnp7_short | 76.4 | 2.19E−153 | 3,594.2 | Lignin | AA2 |
| 808604 | MnP | mnp4_extralong | 7.2 | 4.16E−14 | 2,539.5 | Lignin | AA2 |
| 825018 | MnP | mnp5_short | 6.6 | 1.04E−10 | 2,001.9 | Lignin | AA2 |
| 578774 | MnP | mnp2_extralong | 2.8 | 6.53E−03 | 560.0 | Lignin | AA2 |
| 577408 | MnP | mnp3_extralong | 7.2 | 2.31E−26 | 153.4 | Lignin | AA2 |
| 934487 | MnP | mnp1_extralong | 2.7 | 1.19E−03 | 13.9 | Lignin | AA2 |
| 928470 | AOX | 6.2 | 1.09E−65 | 4,376.5 | Lignin | AA3_3 | |
| 939846 | AGL | 7.2 | 7.47E−40 | 448.6 | Mannan | GH27 | |
| 918405 | MND | 3.3 | 4.75E−08 | 14.2 | Mannan | GH2 | |
| 191860 | ABN | 6.0 | 6.28E−34 | 744.9 | Pectin | GH43 | |
| 972003 | BXL | 7.6 | 2.06E−41 | 142.4 | Pectin | GH43-CBM35 | |
| 928226 | ABN | 2.5 | 1.53E−03 | 16.5 | Pectin | GH43 | |
| 1040936 | LAC | 11.1 | 4.39E−104 | 1,101.3 | Pectin | GH35 | |
| 841467 | PGA | 4.0 | 2.30E−07 | 49.1 | Pectin | GH28 | |
| 960291 | PGX | 3.7 | 1.68E−09 | 59.3 | Pectin | GH28 | |
| 929479 | PME | 2.8 | 7.92E−08 | 50.6 | Pectin | CE8 | |
| 978188 | RGAE | 2.7 | 7.88E−04 | 26.2 | Pectin | CE12 | |
| 929528 | RGAE | 3.5 | 1.66E−04 | 21.7 | Pectin | CE12 | |
| 961557 | RGX | 3.7 | 5.27E−13 | 89.4 | Pectin | GH28 | |
| 973573 | RGX | 4.0 | 6.67E−10 | 27.6 | Pectin | GH28 | |
| 937177 | RHA | 2.9 | 5.64E−08 | 23.4 | Pectin | GH78 | |
| 816118 | RHA | 3.1 | 2.31E−08 | 21.5 | Pectin | GH78 | |
| 50651 | PGA | 2.9 | 2.11E−06 | 39.6 | Pectin | GH28 | |
| 849572 | ABF | 2.6 | 1.78E−10 | 75.9 | Pectin/xylan | GH51 | |
| 501043 | FAE | 3.1 | 1.59E−16 | 211.5 | Pectin/xylan | ||
| 723513 | FAE | 3.2 | 1.82E−18 | 208.0 | Pectin/xylan | ||
| 829508 | FAE | 4.5 | 2.20E−34 | 152.1 | Pectin/xylan | ||
| 912876 | AMY | 3.0 | 1.16E−23 | 296.9 | Starch | GH13_1 | |
| 933193 | GE | 20.4 | 8.94E−50 | 94.5 | Xylan | CBM1-CE15 | |
| 513778 | XLN | 31.9 | 2.07E−66 | 161.1 | Xylan | CBM1-GH10 | |
| 933288 | XLN | 14.4 | 2.35E−17 | 33.3 | Xylan | GH10 | |
| 815375 | AFC | 2.5 | 2.04E−17 | 275.5 | Xyloglucan | GH95 |
a
Only genes for which expression was at least 2.5-fold higher than on d-glucose with a P value of ≤0.01 and an FPKM value of >10 are included.