Table 2.
Genes predicted to be involved in lignocellulose degradation by wood decay fungi.
| CAZy categorya | Brown-rotb |
White-rotc |
|||||||
|---|---|---|---|---|---|---|---|---|---|
| Pospl1_SB | Pospl1 | Antsi | Daequ | Fompi | Laesu | Wolco | Phach | Cersu | |
| Auxilliary Acitivities Family AA1_1 Laccase | 2 | 4 | 5 | 3 | 5 | 3 | 3 | 0 | 7 |
| Auxilliary Acitivities Family AA1_2 Ferroxidase | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Auxilliary Acitivities Family AA2 peroxidases | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 15 | 17 |
| Auxilliary Acitivities Family AA3_1 CDH | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 |
| Auxilliary Acitivities Family AA3_3 Alcohol oxidase | 5 | 1 | 6 | 4 | 5 | 4 | 6 | 3 | 4 |
| Auxilliary Acitivities Family AA6 BQR | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 4 | 0 |
| Auxilliary Acitivities Family AA9 LPMO | 2 | 2 | 2 | 4 | 4 | 2 | 2 | 16 | 9 |
| Total AA-encoding genes | 40 | 29 | 36 | 36 | 43 | 46 | 27 | 89 | 61 |
| Carbohydrate binding modules family 1 (CBM1) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 36 | 16 |
| Total CBM-encoding genes | 33 | 32 | 18 | 19 | 32 | 19 | 17 | 65 | 37 |
| Glycoside hydrolase family GH12 | 2 | 2 | 3 | 2 | 2 | 2 | 2 | 2 | 2 |
| Glycoside hydrolase family GH131 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 3 | 1 |
| Glycoside hydrolase family GH133 | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Glycoside hydrolase family GH135 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 2 |
| Glycoside hydrolase family GH30_3 | 3 | 0 | 2 | 3 | 4 | 1 | 2 | 1 | 1 |
| Glycoside hydrolase family GH37 | 3 | 7 | 2 | 3 | 2 | 2 | 4 | 2 | 2 |
| Glycoside hydrolase family GH45 | 1 | 1 | 0 | 1 | 2 | 2 | 0 | 2 | 2 |
| Glycoside hydrolase family GH5_22 | 2 | 1 | 2 | 2 | 2 | 2 | 2 | 2 | 2 |
| Glycoside hydrolase family GH5_31 | 1 | 0 | 2 | 3 | 2 | 0 | 2 | 1 | 1 |
| Glycoside hydrolase family GH5_5 | 3 | 3 | 2 | 2 | 3 | 2 | 2 | 2 | 2 |
| Glycoside hydrolase family GH51 | 1 | 2 | 1 | 1 | 3 | 2 | 4 | 2 | 2 |
| Glycoside hydrolase family GH6 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 |
| Glycoside hydrolase family GH7 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 8 | 3 |
| Glycoside hydrolase family GH74 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 1 |
| Glycoside hydrolase family GH78 | 3 | 1 | 2 | 3 | 4 | 3 | 3 | 1 | 1 |
| Glycoside hydrolase family GH79 | 2 | 0 | 3 | 4 | 4 | 4 | 3 | 8 | 8 |
| Glycoside hydrolase family GH9 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Total GH-encoding genes | 144 | 129 | 140 | 160 | 198 | 152 | 147 | 181 | 169 |
| Total GlycosylTransferase (GT)-encoding genes | 70 | 24 | 64 | 65 | 73 | 68 | 67 | 70 | 66 |
| Total Polysaccharide Lyase (PL)-encoding genes | 5 | 1 | 3 | 2 | 3 | 3 | 2 | 6 | 6 |
| Total | 326 | 243 | 285 | 311 | 388 | 315 | 288 | 444 | 369 |
Abbreviations: CAZy, Carbohydrate Active Enzyme classifications [14]; CDH, Cellobiose dehydrogenase; CRO, Copper radical oxidase; BQR, Benzoquinone reductase; LPMO, Lytic polysaccharide monooxygenase.
Brown-rot genomes: Pospl-SB12, P. placenta monokaryotic strain described here; Pospl1, P. placenta dikaryotic strain (http://genome.jgi.doe.gov/Pospl1/Pospl1.home.html); Antsi, Antrodia sinuosa (http://genome.jgi.doe.gov/Antsi1/Antsi1.home.html); Daequ, Daedalea quercina (http://genome.jgi.doe.gov/Daequ1/Daequ1.home.html); Fompi, Fomitopsis pinicola (http://genome.jgi.doe.gov/Fompi3/Fompi3.home.html); Laesu, Laetiporus sulpureus (http://genome.jgi.doe.gov/Laesu1/Laesu1.home.html); Wolco, Wolfiporia cocos (http://genome.jgi.doe.gov/Wolco1/Wolco1.home.html).
White-rot genomes: Phach, Phanerochaete chrysosporium (http://genome.jgi.doe.gov/Phchr2/Phchr2.home.html); Cersu, Ceriporiopsis subvermispora (http://genome.jgi.doe.gov/Cersu1/Cersu1.home.html).