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Table 2 Predicted Aspergillus niger hemicellulase-encoding genes that have increased mRNA accumulation during growth on steam-exploded sugarcane bagasse compared to growth on fructose reference control

From: Transcriptome analysis of Aspergillus niger grown on sugarcane bagasse

 

Motifs*

    

log2 Cy5/Cy3 ratio**

Gene locus

Sequence

Location

Orientation

GH

family

SP

MS

Description

6 hours

12 hours

24 hours

An12g01850

   

GH2

No

 

β-mannosidase

2.03

1.63

1.01

An01g09960

GGCTAA

-147

-133

1

GH3

Yes

No

Exo-1,4-β-xylosidase (xlnD)

6.70

5.85

5.51

An17g00300

TTAGCC

-487-9

-1

GH3

Yes

No

Bifunctional xylosidase-arabinosidase (xarB)

7.04

6.42

4.80

An03g00940

GGCTAA

-495

-288

1

GH10

Yes

Yes

Endo-1.4-β-xylanase A precursor (xynA)

6.77

5.86

5.52

An01g14600

   

GH11

Yes

No

Endo-1.4-β-xylanase

1.88

1.66

2.17

An15g04550

GGCTAA TTAGCC

-322

-270

1

-1

GH 11

Yes

No

Xylanase A (xynA)

6.21

6.21

6.19

An01g00780

GGCTAA

-216

124

1

GH11

Yes

Yes

Endo-1.4-β-xylanase B (xynB)

8.86

8.36

8.24

An01g03340

GGCTAA

-244

1

GH12

Yes

No

Xyloglucan-specific endo-β-1.4-glucanase

5.79

5.29

5.05

An14g01800

   

GH27

Yes

No

α-galactosidase D

3.01

1.63

1.23

An06g00170

   

GH27

Yes

No

α-galactosidase A

3.25

2.57

5.62

An02g11150

   

GH27

Yes

No

α-galactosidase (aglB)

4.16

2.00

1.38

An11g03120

   

GH43

No

No

Endo-1.4-β-xylanase (xynD)

2.09

1.70

1.95

An02g00140

   

GH43

No

No

Xylan-1.4-β-xylosidase (xynB)

2.88

1.43

1.34

An09g01190

   

GH43

Yes

No

Endo-1.5-α-arabinanase (abnA)

6.54

4.31

4.78

An08g01710

   

GH51

No

No

α-L-arabinofuranosidase (abfA)

5.69

2.66

4.38

An15g02300

CTAGCC TTAGCC

-39

-473

-421

-1

-1

GH54

Yes

No

Arabinofuranosidase B (abfB)

7.94

3.43

2.49

An03g00960

GGCTAA

-346

1

GH62

Yes

No

1.4-β-D-arabinoxylan arabinofuranohydrolase (axhA)

6.13

6.05

6.00

An14g05800

GGCTAG GGCTAA

-412

-277

1

GH67

Yes

No

α-glucuronidase (aguA)

9.12

8.36

7.72

An16g02760

GGCTAA

-245

1

GH95

No

No

α-fucosidase

   

An12g02550

TTAGCC

-500

-1

CE1

Yes

No

Feruloyl esterase

7.18

7.24

7.87

An12g05010

   

CE1

Yes

No

Acetyl xylan esterase (axeA)

8.31

7.72

7.77

  1. GH = glycoside hydrolase; SP = signal peptide; MS = mass spectrometry; log2 Cy5/Cy3 ratio = base 2 logarithm ratio of cyanine 5 to cyanine 3. *Results of a search of the promoter regions (500 bp upstream of the putative translational start codon) of the displayed genes for the A. niger XlnR binding sites containing either 5'-TTAGCC-3' or 5'-GGCTAG-3'. Location is relative to the start-codon. **log2 Cy5/Cy3 ratio observed in the microarray hybridizations. In the Orientation column, the numbers that were missing are the same.
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Biotechnology for Biofuels and Bioproducts

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