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Table 1 Comparison of number of CAZymes encoding genes that were differentially abundant (e.g., expansions/contractions) between Coniochaeta sp. 2T2.1 (after remove the duplicated content) against other fungal genomes

From: Genome expansion by allopolyploidization in the fungal strain Coniochaeta 2T2.1 and its exceptional lignocellulolytic machinery

CAZy familya   # of genes in 2T2.1b Mean # of genes in Lecythophora/Coniochaeta (SD)c Mean # of genes in other fungal genomes (SD)d
CBM24   22 X 3.7 (3.4)
GH43 H 22 17.5 (1.5) X
GH16 H 20 17.0 (0.7) X
AA3_2   19 10 (0.7) X
GH76   15 10.25 (0.4) 7.0 (3.7)
CE1 H 13 8.5 (0.8) 4.5 (3.7)
GH47   13 X 7.1 (1.9)
GH31 S 12 X 6 (1.8)
GH71 S 11 X 4.2 (1.5)
AA8   10 X 3.6 (2.2)
GH55   10 X 4.7 (2.6)
AA3   8 4.25 (0.4) 2.1 (2.4)
CE3 H 8 5 (1.2) X
GH11 H 8 5.75 (0.4) 2.9 (2.3)
AA4 L 7 3.75 (0.4) 1.2 (1.5)
GH32   7 4.5 (0.5) X
GH78   7 3.75 (0.8) X
GH7 H 6 8.5 (0.5) X
AA1_2 L 5 4 (0) 1.5 (1)
AA12   5 X 1.8 (1.3)
AA3_3   5 3 (0.7) 1.6 (0.9)
GH13_40 S 5 X 2.4 (1.2)
GH45 H 5 X 1.2 (0.8)
GH5_5   5 X 2 (1)
CE15 H 4 X 1 (1)
GH128 H 4 5.5 (0.5) X
GH88   4 1.5 (0.5) 0.8 (1.1)
AA7_dist   3 1 (0) X
CBM35 H 3 4 (0) X
CBM52 H 3 X 0.4 (0.6)
GH127 H 3 X 0.4 (0.6)
GH39 H 3 0 0.5 (1.2)
GH5_7   3 4 (0) X
AA2_dist   2 X 0.4 (0.4)
CE16 H 2 4 (0) X
GH1 H 2 3 (0) X
GH114   2 1 (0) X
GH13 S 2 1 (0) 0.1 (0.3)
GH130   2 0.5 (0.5) 0.1 (0.3)
PL4_1   2 X 0.7 (0.6)
  1. SD standard deviation, X represented families from 2T2.1 where we not found two standard deviations above or below of the mean counts, H predicted (hemi)cellulose-degrading enzymes, L predicted lignin-degrading enzymes, S predicted starch-degrading enzymes
  2. aOnly AA, GH, CBM, CE, and PL
  3. bGenes with more than two copies after remove duplicated content
  4. cFungal genomes form C. ligniaria CBS111746, C. ligniaria NRRL30616, Coniochaeta sp. PMI546, and Lecythophora sp. AK0013
  5. dFungal genomes Trire2, Neucr_trp3_1, Fusoxy1, Spoth2, Podans1, Aspacri1, Penex1, Acrchr1, Phchr2, and Triol1 (see Additional file 1: Table S1)