Skip to main content

Table 2 Enriched cluster categories in region A: "Pezizomycotina abundant"

From: Comparison of protein coding gene contents of the fungal phyla Pezizomycotina and Saccharomycotina

Software or database Database identifier Category Count of clusters in region % of clusters in region % of all clusters with category P-value Author assignment Figure 13
ProtFun - Enzyme/nonenzyme: Enzyme 180 91.0 5 1.60E-11 - -
ProtFun - Enzyme class: Uncategorised 147 74.0 6 1.60E-17 - -
ProtFun - Cellular role: Uncategorised 143 72.0 4 2.10E-02 - -
Funcat 01 Metabolism 81 41.0 6 8.00E-06 Metabolism -
ProtFun - TargetP: Uncategorised 71 36.0 5 1.40E-04 - -
Funcat 01.05 C-compound and carbohydrate metabolism 41 21.0 10 1.30E-07 Plant biomass degradation -
ProtFun - TargetP: Secretion 39 20.0 9 1.30E-07 - -
ProtFun - Cellular role: Cell envelope 30 15.0 11 1.20E-08 - -
Funcat 01.05.01 C-compound and carbohydrate utilization 29 15.0 10 1.30E-05 Plant biomass degradation -
Funcat 32 Cell rescue, defence and virulence 24 12.0 7 6.50E-03 Virulence/Defence -
Funcat 01.05.01.01 C-compound, carbohydrate catabolism 22 11.0 22 4.40E-11 Plant biomass degradation -
ProtFun - TMHMM: Uncategorised 20 10.0 7 3.70E-03 - -
Funcat 01.20 Secondary metabolism 19 10.0 22 1.40E-09 2ary metabolism -
Funcat 32.05 Disease, virulence and defence 14 7.0 23 1.00E-07 Virulence/Defence -
Funcat 01.05.01.01.02 Polysaccharide degradation 13 7.0 27 3.50E-08 Plant biomass degradation -
Funcat 32.05.05 Virulence, disease factors 9 5.0 45 3.20E-08 Virulence/Defence -
Interpro IPR001128 Cytochrome P450 8 4.0 42 1.30E-07 2ary metabolism YES
Interpro IPR002347 Glucose/ribitol dehydrogenase 8 4.0 21 4.60E-05 2ary metabolism YES
Funcat 32.07 Detoxification 7 4.0 10 2.20E-02 2ary metabolism -
Interpro IPR002198 Short-chain dehydrogenase/reductase SDR 7 3.5 21 1.60E-04 2ary metabolism YES
Interpro IPR006094 FAD linked oxidase, N-terminal 5 2.5 56 6.30E-06 2ary metabolism YES
Interpro IPR003042 Aromatic-ring hydroxylase 5 2.5 36 8.60E-05 2ary metabolism YES
Funcat 01.25 Extracellular metabolism 4 2.0 36 7.30E-04 Plant biomass degradation -
Funcat 02.16 Fermentation 4 2.0 20 8.00E-03 Metabolism -
Funcat 01.05.01.01.01 Sugar, glucoside, polyol and carboxylate catabolism 4 2.0 19 9.50E-03 Plant biomass degradation -
Funcat 30.05 Transmembrane signal transduction 4 2.0 12 4.50E-02 Signalling -
Interpro IPR011050 Pectin lyase fold/virulence factor 4 2.0 27 1.60E-03 Plant biomass degradation NO
Interpro IPR000873 AMP-dependent synthetase and ligase 4 2.0 25 2.10E-03 2ary metabolism YES
Interpro IPR008985 Concanavalin A-like lectin/glucanase 4 2.0 24 2.60E-03 Plant biomass degradation NO
Funcat 32.10.07 Degradation of foreign (exogenous) polysaccharides 3 2.0 50 1.20E-03 Plant biomass degradation -
Funcat 01.01.09.05 Metabolism of tyrosine 3 2.0 43 2.10E-03 2ary metabolism -
Funcat 01.05.01.01.09 Aerobic aromate catabolism 3 2.0 43 2.10E-03 Metabolism -
Funcat 32.10 Degradation of foreign (exogenous) compounds 3 2.0 38 3.30E-03 Plant biomass degradation -
Funcat 02.25 Oxidation of fatty acids 3 2.0 27 8.80E-03 2ary metabolism -
Interpro IPR010730 Heterokaryon incompatibility 3 1.5 75 1.80E-04 Mating YES
Interpro IPR003661 Histidine kinase A, N-terminal 3 1.5 43 1.40E-03 Signalling NO
Interpro IPR006163 Phosphopantetheine-binding 3 1.5 43 1.40E-03 2ary metabolism YES
Interpro IPR005467 Histidine kinase 3 1.5 38 2.20E-03 Signalling NO
Interpro IPR001789 Response regulator receiver 3 1.5 33 3.20E-03 Signalling NO
Funcat 30.05.01.10 Two-component signal transduction system 2 1.0 67 4.90E-03 Signalling -
Funcat 32.05.05.01 Toxins 2 1.0 50 9.50E-03 2ary metabolism -
Funcat 01.01.09.05.02 Degradation of tyrosine 2 1.0 40 1.50E-02 2ary metabolism -
Funcat 01.20.37 Biosynthesis of peptide derived compounds 2 1.0 40 1.50E-02 2ary metabolism -
Funcat 34.11.11 Rhythm (e.g. circadian, ultradian) 2 1.0 40 1.50E-02 Other -
Funcat 01.01.09.04 Metabolism of phenylalanine 2 1.0 33 2.30E-02 2ary metabolism -
Funcat 01.25.01 Extracellular polysaccharide degradation 2 1.0 33 2.30E-02 Plant biomass degradation -
Funcat 16.05 Polysaccharide binding 2 1.0 33 2.30E-02 Plant biomass degradation -
Funcat 16.21.05 FAD/FMN binding 2 1.0 33 2.30E-02 2ary metabolism -
Funcat 01.01.11.03.02 Degradation of valine 2 1.0 29 3.10E-02 2ary metabolism -
Funcat 30.05.01 Receptor enzyme mediated signalling 2 1.0 25 4.00E-02 Signalling -
Funcat 01.20.35.01 Biosynthesis of phenylpropanoids 2 1.0 22 5.00E-02 2ary metabolism -
Interpro IPR000675 Cutinase 2 1.0 100 1.30E-03 Plant biomass degradation NO
Interpro IPR001077 O-methyltransferase, family 2 2 1.0 100 1.30E-03 Regulation NO
Interpro IPR002227 Tyrosinase 2 1.0 100 1.30E-03 2ary metabolism NO
Interpro IPR008922 Di-copper centre-containing 2 1.0 100 1.30E-03 Dubious NO
Interpro IPR012951 Berberine/berberine-like 2 1.0 100 1.30E-03 2ary metabolism NO
Interpro IPR000743 Glycoside hydrolase, family 28 2 1.0 67 3.70E-03 Plant biomass degradation NO
Funcat 01.05.01.01.11 Anaerobic aromate catabolism 1 1.0 100 4.10E-02 Metabolism -
Funcat 01.20.01.09 Biosynthesis of aminoglycoside antibiotics 1 1.0 100 4.10E-02 2ary metabolism -
Funcat 01.20.23 Biosynthesis of secondary products derived from L-methionine 1 1.0 100 4.10E-02 2ary metabolism -
Funcat 01.20.36 Non-ribosomal peptide synthesis 1 1.0 100 4.10E-02 2ary metabolism -
Funcat 01.20.37.05 Biosynthesis of beta-lactams 1 1.0 100 4.10E-02 2ary metabolism -
Funcat 02.16.03.03 Heterofermentative pathway and fermentation of other saccharides 1 1.0 100 4.10E-02 Metabolism -
Funcat 32.05.05.03 Bacteriocins 1 1.0 100 4.10E-02 2ary metabolism -
Funcat 32.07.09 Detoxification by degradation 1 1.0 100 4.10E-02 2ary metabolism -
Funcat 34.11.01.01 Light environment response 1 1.0 100 4.10E-02 Signalling -
Funcat 36.20.18 Plant hormonal regulation 1 1.0 100 4.10E-02 Signalling -
  1. Software or database that the categories were derived from, category database identifier, category name, count of clusters with the category, percentage of all clusters in this region, percentage of all clusters with the category and significance of enrichment are shown for categories which are enriched in the region (Figure 4) with a p < 0.01. Column "Author assignment" shows an assignment to general themes, based on the respective database, that summarise the InterPro and Funcat categories. While the other assignments are directly based on the databases, "Secondary metabolism" covers entries which are known to participate also in secondary metabolism ([61, 62], Funcat and InterPro). For InterPro entries whether the entry is found from Figure 9 is specified in column "Figure 9". InterPro entries assigned to "Dubious" are entries that InterPro itself considers unreliable.