Ecological Archives E096-211-A2
Anna R. Peschel, Donald R. Zak, Lauren C. Cline, and Zachary Freedman. 2015. Elk, sagebrush, and saprotrophs: indirect top-down control on microbial community composition and function. Ecology 96:2383–2393. http://dx.doi.org/10.1890/15-0164.1
Appendix B. Fungal and bacterial functional genes chosen for analysis on Geochip.
Table B1. List of fungal and bacterial genes chosen for functional gene analysis. Number of gene variants is the number of probes representing this gene on the microarray. Substrate category as predefined on the microarray. EC number retrieved from BRENDA (http://www.brenda-enzymes.info).
Fungi |
Bacteria |
||||||
Enzyme (gene) name |
EC number |
# Variants |
Substrate category |
Enzyme (gene) name |
EC number |
# Variants |
Substrate category |
acetylxylan esterase (axe) |
3.1.1.72 |
41 |
Cellulose |
cellobiase |
3.2.1.21 |
224 |
Cellulose |
Cellobiase |
3.2.1.21 |
80 |
Cellulose |
endoglucanase |
3.2.1.4 |
148 |
Cellulose |
Endoglucanse |
3.2.1.4 |
63 |
Cellulose |
exoglucanase |
3.2.1.91 |
16 |
Cellulose |
Exoglucanse |
3.2.1.91 |
81 |
Cellulose |
cutinase |
3.1.1.74 |
124 |
Cutin |
Cutinase |
3.1.1.74 |
51 |
Cutin |
alpha-L-arabinofuranosidase (ara) |
3.2.1.55 |
285 |
Hemicellulose |
alpha-L-arabinofuranosidase (ara) |
3.2.1.55 |
68 |
Hemicellulose |
mannanase |
3.2.1.25 |
119 |
Hemicellulose |
Mannanase |
3.2.1.25 |
23 |
Hemicellulose |
xylose isomerase (xyla) |
3.5.1.5 |
211 |
Hemicellulose |
Xylanase |
3.2.1.8 |
47 |
Hemicellulose |
xylanase |
3.2.1.8 |
279 |
Hemicellulose |
Glyoxal oxidase (glx) |
1.4.3.11 |
52 |
Lignin |
glyoxal oxidase (glx) |
1.4.3.11 |
16 |
Lignin |
Ligninase |
1.11.1.14 |
10 |
Lignin |
phenol oxidase |
1.10.32 |
110 |
Lignin |
Phenol oxidase |
1.10.32 |
154 |
Lignin |
vanillate demethylase (vana) |
1.2.3.12 |
161 |
Vanillin/Lignin |
Manganese peroxidase |
1.11.1.13 |
32 |
Lignin |
vanillin dehydrogenase (vdh) |
1.2.1.67 |
44 |
Vanillin/Lignin |
Vanillin dehydrogenase (vdh) |
1.2.1.67 |
3 |
Vanillin/Lignin |
alpha-amylase (AmyA) |
3.2.1.1 |
2363 |
Starch |
alpha-amylase (AmyA) |
3.2.1.1 |
51 |
Starch |
isoamylase (AmyX) |
3.2.1.68 |
1 |
Starch |
glucoamylase |
3.2.1.3 |
48 |
Starch |
cytidine deaminase (cda) |
3.5.4.5 |
166 |
Starch |
|
|
|
|
glucoamylase |
3.2.1.3 |
67 |
Starch |
|
|
|
|
neopullulanase (npIT) |
3.2.1.135 |
40 |
Starch |
|
|
|
|
Pullulanase (pula) |
3.2.1.41 |
153 |
Starch |