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 96:23832393. 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


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