Fig. 1
Polysaccharide Utilization Loci up- or down-regulated on insoluble oat-spelt xylan (OSX) or xylose, compared with glucose. Heatmap and gene organization of PUL 43 (a) and PUL 70 (b). aHeatmap based on Log2 Fold-Change of gene expression on OSX relative to glucose with B. xylanisolvens XB1AT harvested at mid-log phase. bHeatmap based on Log2 Fold-Change of gene expression on xylose relative to glucose with B. xylanisolvens XB1AT harvested at late-Log phase. cPUL predicted in Bacteroides xylanisolvens XB1AT (http://www.cazy.org/PULDB/) and presented below the heatmap. The color code used for carbohydrate-active enzymes highlights the nature of the main functional module: glycoside hydrolase (light pink) or carbohydrate esterase (light brown). PUL marker genes, susC- and susD-like genes, are represented by purple and orange boxes, respectively, whilst the regulator genes appear in cyan. Other genes predicted as members of the PULs are shown in grey. Genomic regions containing N stretches and/or unassigned genes are marked with a star. dAutomatic annotation of Bacteroides xylanisolvens XB1AT genome available at http://www.ncbi.nlm.nih.gov/genome/?term=xylanisolvens. No Log2 Fold-change values were obtained (white boxes) for ORFs or fragments of ORFs [F] not detected by automatic annotation because of sequence gaps (N stretches) in the genomic region of interest; these ORFs were manually annotated in this study