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Table 1 Main functional categories from transcriptome analysis in NG 14 and RUT C30 strains

From: Kinetic transcriptome analysis reveals an essentially intact induction system in a cellulase hyper-producer Trichoderma reesei strain

Functional category FunCat number Cluster 1 Cluster 2 Cluster 3 Cluster 4 Cluster 5 Cluster 6 Cluster 7 Cluster 8 Cluster 9 Total category
Ribosome biogenesis 12.01 52 (96%)    1 (2%)   1 (2%)     54
Metabolism 01.00 3 (7%) 4 (9%) 3 (7%) 22 (48%) 1 (2%) 7 (15%) 4 (9%) 2 (4%)   46
Extracellular metabolism (CAZymes) 01.25 1 (2%) 2 (4%) 3 (7%) 5 (11%) 5 (11%) 7 (15%) 2 (4%) 9 (20%) 12 (26%) 46
Transported compounds 20.01 4 (9%) 6 (14%) (7%) 8 (19%) 4 (9%) 1 (2%) 10 (23%) 7 (16%)   43
Amino acid metabolism 01.01 10 (24%) 7 (17%) 6 (14%) 7 (17%) 7 (17%) 3 (7%) 1 (2%) 1 (2%)   42
Lipid, fatty acid and isoprenoid metabolism 01.06 8 (22%) 13 (36%) 2 (6%) 9 (25%)   1 (3%) 1 (3%) 2 (6%)   36
Transcriptional control 11.2.3.4 2 (10%)   1 (5%) 5 (25%) 7 (35%)   4 (20%) 1 (5%)   20
Extracellular protein degradation 01.25.03 1 (6%) 4 (24%) 2 (12%) 8 (47%)   2 (12%)     17
Energy metabolism 02.00 3 (19%) 4 (25%) 1 (6%) 7 (44%)     1 (6%)   16
Stress response 32.01 1 (7%) 1 (7%)   4 (29%)   3 (21%) 5 (36%)    14
Vesicular transport (secretion) 20.09.07 1 (8%) 1 (8%)   1 (8%) 7 (54%)    3 (23%)   13
Cellular communication, signal transduction 30.00 3 (23%) 2 (15%)   2 (15%) 4 (31%) 1 (8%) 1 (8%)    13
Secondary metabolism 01.20 2 (17%) 1 (8%) 2 (17%) 3 (25%) 1 (8%) 1 (8%) 2 (17%)    12
Detoxification 32.07 1 (9%) 3 (27%) 2 (18%) 4 (36%)   1 (9%)     11
Other categories   10 (26%) 4 (10%) 4 (10%) 7 (18%) 5 (13%) 3 (8%) 4 (10%) 2 (5%)   39
Unclassified   4 (13%) 1 (3%) 5 (16%) 13 (42%) 2 (6%) 5 (16%)   1 (3%)   31
Unknown protein   7 (9%) 14 (18%) 1 (1%) 18 (23%) 16 (20%) 14 (18%) 6 (8%) 3 (4%)   79
Total   113 67 35 124 59 50 40 32 12 532
  1. Only the FunCat categories with more than ten genes in the whole dataset are considered main functional categories. The number of genes belonging to categories is provided for each cluster. Category-associated genes found more abundantly (at least a 2-gene of difference between clusters) are indicated in bold. Percentages in parentheses indicate the rounded percentage of genes from each category found in a cluster. Genes whose function could not be associated with a category were annotated as Unclassified. Genes without a predicted function were annotated as Unknown.