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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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