Table 2.
Table of the top ten upregulated fungal genes annotated as CAZymes or associated enzymatic machinery in co-cultures of the anaerobic fungus C. churrovis and the methanogen M. bryantii relative to fungal monocultures of C. churrovis grown on multiple substrates
| Avicel | Reed canary grass | Glucose | Fructose | Xylan | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Protein Id | Log2-fold change | CAZyme annotation | Protein Id | Log2-fold change | CAZyme annotation | Protein Id | Log2-fold change | CAZyme annotation | Protein Id | Log2-fold change | CAZyme annotation | Protein Id | Log2-fold change | CAZyme annotation | |
| 607438 | 8.00 | CBM 18 | 407913 | 5.94 | CBM 18 | 407913 | 9.08 | CBM 18 | 407913 | 7.72 | CBM 18 | 198053 | 8.95 | CBM 18 | |
| 547795 | 5.96 | CBM 18 | 607438 | 5.08 | CBM 18 | 596610 | 7.02 | GH 73 | 403091 | 6.48 | GT 71 | 126623 | 7.72 | CE 6/DOC | |
| 629343 | 5.46 | DOC | 434710 | 4.87 | DOC | 555679 | 5.95 | CBM 18 | 198053 | 6.13 | CBM 18 | 524258 | 6.25 | CBM 18 | |
| 620648 | 5.14 | GT 17 | 547795 | 3.91 | CBM 18 | 622576 | 5.87 | CBM 18 | 529683 | 5.74 | DOC | 407913 | 5.73 | CBM 18 | |
| 513365 | 4.96 | CBM 87 | 620648 | 3.55 | GT 17 | 590554 | 5.55 | DOC | 436379 | 4.91 | CBM 18 | 563945 | 5.29 | CBM 18 | |
| 548447 | 4.85 | CBM 1 | 526368 | 3.37 | CBM 18 | 126623 | 5.39 | CE 6/DOC | 498097 | 4.52 | DOC | 531011 | 5.23 | CBM 18 | |
| 100311 | 4.71 | CBM 18 | 574117 | 3.29 | DOC | 198053 | 4.81 | CBM 18 | 401262 | 4.42 | DOC | 627323 | 5.06 | CBM 18 | |
| 528501 | 4.58 | GH 78 | 607594 | 2.94 | DOC | 498097 | 4.52 | DOC | 136193 | 4.19 | DOC | 513365 | 4.53 | CBM 87 | |
| 430401 | 4.42 | DOC/GH 30 | 136193 | 2.93 | DOC | 621851 | 4.45 | GH 25 | 620648 | 4.10 | GT 17 | 622031 | 4.11 | CBM 18 | |
| 207551 | 4.15 | CBM 18 | 579030 | 2.83 | CBM 18 | 593248 | 4.40 | DOC | 607438 | 4.08 | CBM 18 | 527510 | 3.92 | CBM 18 | |
Co-cultures of the anaerobic fungus and the methanogen and fungal monocultures were grown on Avicel® (A), reed canary grass, glucose, fructose, and xylan. Differential expression of fungal genes in co-cultures relative to fungal monocultures was determined using DESEQ2. The ten genes with the highest log2-fold change in expression in co-culture relative to fungal monoculture are shown in the table above for each substrate and organized into the following classifications: carbohydrate binding module family (CBM), dockerins (DOC), carbohydrate esterase family (CE), glycoside hydrolase family (GH), and glycosyltransferase family (GT). Dockerin-fused CAZymes are indicated by a forward slash between annotations. CBMs were highly upregulated, indicating that there may be an increase in enzymatic machinery that aids in anchoring CAZymes to substrates in co-culture, even when grown on soluble sugars