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

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

CAZy family^a		# of genes in 2T2.1^b	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)

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
^aOnly AA, GH, CBM, CE, and PL
^bGenes with more than two copies after remove duplicated content
^cFungal genomes form C. ligniaria CBS111746, C. ligniaria NRRL30616, Coniochaeta sp. PMI546, and Lecythophora sp. AK0013
^dFungal genomes Trire2, Neucr_trp3_1, Fusoxy1, Spoth2, Podans1, Aspacri1, Penex1, Acrchr1, Phchr2, and Triol1 (see Additional file 1: Table S1)

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