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Table 3 Transcriptional patterns of C1A CAZymes 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
Glycosyl hydrolases
Significantly upregulateda 48 39 43 46
Upregulatedb 37 51 44 36
Downregulatedc 36 42 40 40
Significantly downregulatedd 54 61 66 53
No changee 210 192 192 210
Polysaccharide lyases
Significantly upregulateda 10 5 3 4
Upregulatedb 6 2 4 2
Downregulatedc 2 4 3 4
Significantly downregulatedd 3 1 5 5
No changee 19 28 26 25
Carbohydrate esterases
Significantly upregulateda 55 44 47 45
Upregulatedb 18 29 24 17
Downregulatedc 28 26 23 29
Significantly downregulatedd 35 31 40 22
No changee 114 119 116 137
  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]