RNA-sequencing reveals the complexities of the transcriptional response to lignocellulosic biofuel substrates in Aspergillus niger

Table 2 Expression of genes that are relevant to the straw and willow substrate comparison

Gene ID	Annotation ^a	RPKM				Fold change ^b straw/willow	p- value straw/willow
ATCC 1015		Glucose 48 h	Straw 24 h	Glucose 48 h	Willow 24 h	Fold change ^b straw/willow	p- value straw/willow
TID_43785	Feruloyl esterase	0.4	325.9	0.0	3.1	52.6	<0.01
TID_182100	Has domain(s) with predicted hydrolase activity	0.1	16.8	0.0	0.3	28.4	<0.01
TID_51662	faeA - Feruloyl esterase	0.4	396.3	0.0	13.0	13.9	<0.01
TID_47677	Putative xylan beta-xylosidase	0.2	76.0	0.1	9.4	3.7	<0.01
TID_55136	axhA, 1,4-beta-D-arabinoxylan arabinofuranohydrolase	1.7	904.6	0.9	116.3	3.4	0.15
TID_211544	axeA, Acetyl xylan esterase	0.7	562.4	0.6	161.5	1.7	0.83
TID_51478	faeB - Feruloyl esterase	0.3	1.9	0.5	0.5	1.6	0.64
TID_205580	Endoglucanase A	0.1	73.7	0.2	120.6	0.3	<0.05
TID_209376	Heat- and alkaline-stable endoglucanase	0.1	113.6	0.5	210.1	0.3	<0.01

^aThe annotations here are for the A. niger CBS513.88 strain from the AspGD database [44].
^bThe fold changes were calculated by the DESeq statistical analysis package using the normalised read counts.

ISSN: 2054-3085