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Table 5 Transcriptional patterns of C1A cellulosomal genes on various substrates

From: Transcriptomic analysis of lignocellulosic biomass degradation by the anaerobic fungal isolate Orpinomyces sp. strain C1A

Transcripts Number of transcripts when grown on
Alfalfa Energy cane Corn stover Sorghum
Cellulosomal transcripts
Significantly upregulateda 52 53 56 47
Upregulatedb 24 23 31 28
Downregulatedc 32 29 34 22
Significantly downregulatedd 47 49 54 41
No changee 141 143 121 158
  1. aSignificantly upregulated refers to the number of transcripts with a differential expression p value <0.01 as calculated by the nbinomTest function in the R package DESeq [44]
  2. bUpregulated refers to the number of transcripts with a differential expression p value between 0.01 and 0.1 as calculated by the nbinomTest function in the R package DESeQ [44]
  3. cDownregulated refers to the number of transcripts with a differential expression p value <0.01 as calculated by the nbinomTest function in the R package DESeq [44]
  4. dSignificantly downregulated refers to the number of transcripts with a differential expression p value between 0.01 and 0.1 as calculated by the nbinomTest function in the R package DESeq [44]
  5. eNo change refers to the number of transcripts with a differential expression p value >0.1 as calculated by the nbinomTest function in the R package DESeq [44]