In contrast to the situation with polypeptides that carry GH10 and GH11 xylanase modules (Figure 3), there were rather few instances where GH5 or GH9 modules were combined with other catalytic modules in the same polypeptide.
In 11 independent cloning reactions, the level 0 modules were combined with the respective level 1 destination vectors, T4 DNA ligase and the restriction enzyme BsaI in a one-tube one-step reaction.
The knowledge-based network and the nodes and edges within the co-expression modules were combined to form a single reference network on which further analysis was applied.
These CT-PPI modules were combined and their 73 genes annotated by Kyoto Encyclopedia of Genes and Genomes (KEGG) [ 24], showing again that these genes were enriched in the oxidative phosphorylation pathway (p < 1 × 10-32).
Since some of the gene modules showed similar expression patterns with subtle differences, gene modules were combined according to the time or genotype or time and genotype effects, and subjected to hierarchical clustering to have a broader overview of the patterns of transcript abundance.
