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

Arvas, Mikko; Kivioja, Teemu; Mitchell, Alex; Saloheimo, Markku; Ussery, David; Penttila, Merja; Oliver, Stephen

doi:10.1186/1471-2164-8-325

BMC Genomics

Table 1 Genome data

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

Phylum	Subphylum	Name	Abbreviation	Count of ORFs	Source	WWW	Funcat	InterPro	Protfun
Ascomycota	Archeascomycota	Schizosaccharomyces pombe	Spom	4984	Sanger Institute, UK	http://www.sanger.ac.uk/Projects/S_pombe/	YES
Ascomycota	Pezizomycotina	Aspergillus fumigatus	Afum	9926	Tigr, USA	http://www.tigr.org/tdb/e2k1/afu1/		YES
Ascomycota	Pezizomycotina	Aspergillus nidulans	Anid	9541	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/		YES	YES
Ascomycota	Pezizomycotina	Aspergillus niger	Anig	11200	Joint Genome Institute, USA	http://genome.jgi-psf.org/
Ascomycota	Pezizomycotina	Aspergillus oryzae	Aory	12062	NITE, Japan	http://www.bio.nite.go.jp/dogan/Top		YES
Ascomycota	Pezizomycotina	Botrytis cinerea	Bcin	16446	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Ascomycota	Pezizomycotina	Chaetomium globosum	Cglo	11124	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/		YES
Ascomycota	Pezizomycotina	Coccidioides immitis	Cimm	10457	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Ascomycota	Pezizomycotina	Fusarium graminearum	Fgra	11640	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/	YES	YES	YES
Ascomycota	Pezizomycotina	Magnaporthe grisea	Mgri	11109	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/		YES	YES
Ascomycota	Pezizomycotina	Nectria haematococca	Nhae	16237	Joint Genome Institute, USA	http://genome.jgi-psf.org/
Ascomycota	Pezizomycotina	Neurospora crassa	Ncra	10082	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/		YES	YES
Ascomycota	Pezizomycotina	Sclerotinia sclerotiorum	Sscl	14522	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Ascomycota	Pezizomycotina	Stagonospora nodorum	Snod	16597	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Ascomycota	Pezizomycotina	Trichoderma reesei	Tree	9997	Joint Genome Institute, USA	http://genome.jgi-psf.org/		YES	YES
Ascomycota	Saccharomycotina	Ashbya gossypii	Agos	4726	Ashbya Genome Database, Switzerland	http://agd.unibas.ch/		YES
Ascomycota	Saccharomycotina	Candida albicans	Calb	6165	Stanford University, UK	http://www-sequence.stanford.edu/group/candida/	YES	YES
Ascomycota	Saccharomycotina	Candida glabrata	Cgla	5181	Genolevures Consortium, France	http://cbi.labri.fr/Genolevures/		YES
Ascomycota	Saccharomycotina	Candida guilliermondii	Cgui	5920	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Ascomycota	Saccharomycotina	Candida lusitaniae	Clus	5941	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Ascomycota	Saccharomycotina	Debaryomyces hansenii	Dhan	6318	Genolevures Consortium, France	http://cbi.labri.fr/Genolevures/		YES
Ascomycota	Saccharomycotina	Kluyveromyces lactis	Klac	5327	Genolevures Consortium, France	http://cbi.labri.fr/Genolevures/		YES
Ascomycota	Saccharomycotina	Pichia pastoris	Ppas	5999	Integrated genomics, USA	http://ergo.integratedgenomics.com/ERGO/
Ascomycota	Saccharomycotina	Pichia stipitis	Psti	5839	Joint Genome Institute, USA	http://genome.jgi-psf.org/
Ascomycota	Saccharomycotina	Saccharomyces castellii	Scas	4677	Saccharomyces Genome Database, USA	http://www.yeastgenome.org/
Ascomycota	Saccharomycotina	Saccharomyces cerevisiae	Scer	5888	Saccharomyces Genome Database, USA	http://www.yeastgenome.org/	YES	YES	YES
Ascomycota	Saccharomycotina	Saccharomyces kluyveri	Sklu	2968	Saccharomyces Genome Database, USA	http://www.yeastgenome.org/
Ascomycota	Saccharomycotina	Yarrowia lipolytica	Ylip	6521	Genolevures Consortium, France	http://cbi.labri.fr/Genolevures/		YES	YES
Basidiomycota	Hymenomycetes	Coprinus cinereus	Ccin	13544	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Basidiomycota	Hymenomycetes	Cryptococcus neoformans	Cneo	7302	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/
Basidiomycota	Hymenomycetes	Phanerochaete chrysosporium	Pchr	10048	Joint Genome Institute, USA	http://genome.jgi-psf.org/		YES	YES
Basidiomycota	Ustilaginomycetes	Ustilago maydis	Umay	6522	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/	YES
Zygomycota	Zygomycetes	Rhizopus oryzae	Rory	17467	Broad Institute, USA	http://www.broad.mit.edu/annotation/fungi/fgi/

Phylum, subphylum, abbreviation used in figures, count of ORFs in the genome, data source and internet address and information, whether Funcat annotation existed and whether InterPro or Protfun analysis was carried out, shown for each species.

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ISSN: 1471-2164

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