SNUGB: a versatile genome browser supporting comparative and functional fungal genomics

Jung, Kyongyong; Park, Jongsun; Choi, Jaeyoung; Park, Bongsoo; Kim, Seungill; Ahn, Kyohun; Choi, Jaehyuk; Choi, Doil; Kang, Seogchan; Lee, Yong-Hwan

doi:10.1186/1471-2164-9-586

BMC Genomics

Table 1 List and characteristics of the fungal genomes belonging to the subphylum Pezizomycota archived in SNUGB.

From: SNUGB: a versatile genome browser supporting comparative and functional fungal genomics

Species^a	Size (Mb)	# of ORFs	# of Exons	C^b	I^b	E^b	Source	Refs
Fungi (Kingdom)^e
Ascomycota (Phylum)
Pezizomycotina (Subphylum)
A: Botrytis cinerea T: Botryotinia fuckeliana	42.7	16,448	43,358	N	Y	N	BI	N
Sclerotinia sclerotiorum	38.3	14,522	40,623	N	Y	N	BI	N
Aspergillus clavatus	27.9	9,121	27,959	N	Y	N	BI	[17, 44]
Aspergillus flavus	36.8	12,604	40,971	N	Y	N	BI	[16]
Aspergillus fumigatus AF293	29.4	9,887	28,164	8	Y	N	TIGR	[45]
Aspergillus fumigatus A1163	29.2	9,929	29,094	N	Y	N	TIGR	[44]
A:Aspergillus nidulans T:Emericella nidulans	30.1	10,701	35,525	8	Y	N	BI	[14]
Aspergillus niger ATCC1015	37.2	11,200	34,971	N	Y	N	JGI	N
Aspergillus niger CBS513.88	34.0	14,086	50,371	8	Y	N	NCBI	[38]
A: Aspergillus oryzae T: Eurotium oryzae	37.1	12,063	35,319	N	Y	N	DOGAN	[46]
Aspergillus terreus	29.3	10,406	33,116	N	Y	N	BI	[17]
A:Aspergillus fischerianus T: Neosartorya fischeri^d	32.6	10,403	N	N	N	N	BI	[44]
Penicillium chrysogenum	32.2	12,791	40,441	N	N	N	NCBI	[47]
Penicillium marneffei	28.5	10,638	34,306	N	N	N	TIGR	N
Coccidioides immitis RS	28.9	10,457	36,137	N	Y	N	BI	N
Coccidioides immitis H538.4	27.7	10,663	34,503	N	Y	N	BI	N
Coccidioides immitis RMSCC 2394	28.8	10,408	34,807	N	Y	N	BI	N
Coccidioides immitis RMSCC 3703	27.6	10,465	33,931	N	Y	N	BI	N
Coccidioides posadasii Silveria	27.5	10,125	33,520	N	Y	N	BI	N
Coccidioides posadasii C735	26.7	N	N	N	N	N	BI	N
Coccidioides posadasii CPA0001	28.7	N	N	N	N	N	BI	N
Coccidioides posadasii CPA0020	27.3	N	N	N	N	N	BI	N
Coccidioides posadasii CPA0066	27.7	N	N	N	N	N	BI	N
Coccidioides posadasii RMSCC 1037	26.7	N	N	N	N	N	BI	N
Coccidioides posadasii RMSCC 1038	26.2	N	N	N	N	N	BI	N
Coccidioides posadasii RMSCC 1040	26.5	N	N	N	N	N	BI	N
Coccidioides posadasii RMSCC 2133	27.9	N	N	N	N	N	BI	N
Coccidioides posadasii RMSCC 3488	28.1	9,964	33,484	N	Y	N	BI	N
Coccidioides posadasii RMSCC 3700	25.5	N	N	N	N	N	BI	N
Paracoccidioides brasiliensis Pb01	33.0	9,136	37,310	N	Y	N	BI	N
Paracoccidioides brasiliensis Pb03	29.1	9,264	31,468	N	Y	N	BI	N
Paracoccidioides brasiliensis Pb18	30.0	8,741	33,239	N	Y	N	BI	N
Blastomyces dermatitidis	61.8	N	N	N	N	N	WGSC	N
A: Histoplasma capsulatum G217B T: Ajellomyces capsulatus G217B	41.3	8,038	26,711^f	N	Y	N	WGSC	N
A: Histoplasma capsulatum G186AR T: Ajellomyces capsulatus G186AR	29.9	7,454	24,562^f	N	Y	N	WGSC	N
A: Histoplasma capsulatum NAm1 T: Ajellomyces capsulatus NAm1	33.0	9,349	32,844	N	Y	N	BI	N
A: Histoplasma capsulatum H143 T: Ajellomyces capsulatus H143	39.0	7,365	25,164^f	N	Y	N	BI	N
A: Histoplasma capsulatum H88 T: Ajellomyces capsulatus H88	37.9	7,428	25,356^f	N	Y	N	BI	N
A: Arthroderma gypseum T: Microsporum gypseum	23.3	8,876	28,624	N	Y	N	BI	N
Microsporum canis	23.3	N	N	N	N	N	BI	N
Trichophyton equinum	24.2	N	N	N	N	N	BI	N
Ascosphaera apis	21.6	N	N	N	N	N	BGM	[48]
Uncinocarpus reesii	22.3	7,798	24,094	N	Y	N	BI	N
Chaetomium globosum ^d	34.9	11,124	N	N	N	N	BI	N
Epichloe festucae	27.0	N	N	N	N	N	OU	N
A: Fusarium graminearum PH-1 T: Gibberella zeae PH-1	36.6	13,321	37,549	N	Y	N	BI	[37]
A: Fusarium graminearum GZ3639 T:Gibberella zeae GZ3639^c	15.1	6,694	11,692^f	N	Y	N	BI	[37]
Fusarium oxysporum f. sp. lycopersici 4286	61.4	17,608	47,051	15	Y	N	BI	N
A: Fusarium verticillioides 7600 T:Gibberella moniliformis 7600	41.9	14,199	39,058	N	Y	N	BI	N
A: Fusarium solani MPVI T:Nectria haematococca MPVI	51.3	15,707	48,387	N	Y	N	JGI	N
A: Pyricularia oryzae 70–15 T:Magnaporthe oryzae 70–15	41.6	12,841	34,189	7	Y	Y	BI	[49]
A: Pyricularia oryzae 70–15 chromosome 7 T:Magnaporthe oryzae 70–15 chromosome 7	4.0	1,122	3,289	1	Y	N		[50]
Cryphonectria parasitica	43.9	11,184	33,090	N	N	N	JGI	N
Neurospora crassa OR74A	39.2	9,842	27,188	8	Y	N	BI	[51]
Podospora anserina DSM980	35.7	10,596	24,437	9	Y	N	IGM	[52]
Trichoderma atroviride IMI206040	36.1	11,100	32,563	N	Y	N	JGI	N
A:Trichoderma reesei QM6a T: Hypocrea jecorina QM6a	33.5	9,129	27,891	N	Y	N	JGI	[53]
A:Trichoderma virens Gv29-8 T:Hypocrea virens Gv29-8	38.8	11,643	34,673	N	Y	N	JGI	N
Talaromyces stipitatus ATCC 10500	35.6	N	N	N	N	N	TIGR	N
Verticillium dahliae VaLs. 17	33.9	10,575	29,736	N	N	N	BI	N
Verticillium albo-atrum VaMs. 102	32.9	10,239	28,842	N	N	N	BI	N
Alternaria brassicicola	32.0	N	N	N	N	N	WGSC	N
A:Bipolaris maydis T:Cochliobolus heterostrophus C5	34.9	9,633	28,007	N	N	N	JGI	N
Pyrenophora tritici-repentis	38.0	12,169	32,717	N	Y	N	BI	N
A: Septoria tritici T: Mycosphaerella graminicola	41.9	11,395	30,629	N	Y	N	JGI	N
A:Paracercospora fijiensis T:Mycosphaerella fijiensis	73.4	10,327	25,289	N	Y	N	JGI	N
A: Stagonospora nodorum T: Phaeosphaeria nodorum	37.2	16,597	44,017	N	Y	N	BI	[54]
Total	2,844.0	637,006	1,755,655	8	43	1

^aA indicates anamorph name and T presents teleomorph name of fungi.
^bC means chromosomes, I indicates InterPro, and E presents EST.
^cIncomplete coverage of genome information
^dInsufficient exon/intron information
^eTaxonomy based on [28]
^fORFs and exons were predicted by AUGUSTUS 2.0.3 with species-specific training datasets [55].
'Y' indicates the existence of information in each field, and 'N' indicates the lack of information.

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