Fungal genomics
From kogic.kr
Contents
list of sequenced fungi genome paper
Ascomycota
Ascomycetes
- Neurospora crassa : 붉은빵곰팡이 류, model eukaryote, 2003, nature, The genome sequence of the filamentous fungus Neurospora crassa, http://www.nature.com/nature/journal/v422/n6934/full/nature01554.html
Dothideomycetes
- Leptosphaeria maculans : plant pathogen, 2011, Nature, Communications Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations, http://www.nature.com/ncomms/journal/v2/n2/full/ncomms1189.html
Eurotiomycetes
- Aspergillus fumigatus : human pathogen, 2008, PLoS Genetics, Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus
- Aspergillus fumigatus : human pathogen, 2005, nature, Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus, http://www.nature.com/nature/journal/v438/n7071/full/nature04332.html
- Aspergillus niger : 흑국균, industrial use, 2007, Nature Biotechnology Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88, http://www.nature.com/nbt/journal/v25/n2/full/nbt1282.html
- Aspergillus oryzae : 누룩곰팡이, industrial use, 2005, nature, Genome sequencing and analysis of Aspergillus oryzae, http://www.nature.com/nature/journal/v438/n7071/full/nature04300.html
- Coccidioides immitis : human pathogen, 2009, Genome Res, Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives, http://genome.cshlp.org/content/19/10/1722
- Coccidioides posadasii : human pathogen, 2009, Genome Res, Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives, http://genome.cshlp.org/content/19/10/1722
- Penicillium chrysogenum : 푸른곰팡이속, industrial use, 2008, Nature Biotechnology Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum, http://www.nature.com/nbt/journal/v26/n10/full/nbt.1498.html
- Penicillium marneffei : human pathogen, 2011, Eukaryotic Cell Draft Genome Sequence of Penicillium marneffei Strain PM1, http://ec.asm.org/content/10/12/1740
Leotiomycetes
- Botrytis cinerea : plant pathogen 2011 PLoS Genetics Genomic Analysis of the Necrotrophic Fungal Pathogens Sclerotinia sclerotiorum and Botrytis cinerea http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002230
Pezizomycetes
- Tuber melanosporum : 송로버섯 Périgord black truffle 2010 nature Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis http://www.nature.com/nature/journal/v464/n7291/full/nature08867.html
Saccharomycetes
- Ashbya gossypii : plant pathogen 2004 nature The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome http://www.sciencemag.org/content/304/5668/304
- Candida albicans : human pathogen 2004 PNAS The diploid genome sequence of Candida albicans http://www.pnas.org/content/101/19/7329
- Candida albicans : human pathogen 2005 Genetics Sequence finishing and gene mapping for Candida albicans chromosome 7 and syntenic analysis against the Saccharomyces cerevisiae genome. http://www.genetics.org/content/170/4/1525.long
- Candida albicans : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida glabrata : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida tropicalis : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida parapsilosis : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida krusei : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida lusitaniae : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida guilliermondii : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Candida lusitaniae : human pathogen 2009 nature(candida 8종 해독) Evolution of pathogenicity and sexual reproduction in eight Candida genomes http://www.nature.com/nature/journal/v459/n7247/full/nature08064.html
- Debaryomyces hansenii : industrial use 2012 Eukaryotic Cell Draft Genome Sequence of Salt-Tolerant Yeast Debaryomyces hansenii var. hansenii MTCC 234 http://ec.asm.org/content/11/7/961.full
- Hansenula polymorpha : industrial use 2003 FEMS Yeast Research The Hansenula polymorpha (strain CBS4732) genome sequencing and analysis http://onlinelibrary.wiley.com/doi/10.1016/S1567-1356(03)00125-9/full
- Lachancea (Saccharomyces) kluyveri : plant pathogen 2009 Genome Res. Unusual composition of a yeast chromosome arm is associated with its delayed replication http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2765276/
- Saccharomyces cerevisiae : industrial/model 2007 Proc Natl Acad Sci U S A. Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789 http://www.pnas.org/content/104/31/12825.long
- Saccharomyces cerevisiae : industrial/model 2008 PLoS Genetics A Catalog of Neutral and Deleterious Polymorphism in Yeast http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000183
- Saccharomyces cerevisiae : industrial/model 2008 FEMS Yeast Research Comparative genome analysis of a Saccharomyces cerevisiae wine strain http://onlinelibrary.wiley.com/doi/10.1111/j.1567-1364.2008.00434.x/abstract;jsessionid=8A70BABAA07CBDF67AFAA1AE0275FD89.d04t04?systemMessage=Wiley+Online+Library+will+be+disrupted+on+7+July+from+10%3A00-12%3A00+BST+%2805%3A00-07%3A00+EDT%29+for+essential+maintenance
- Saccharomyces cerevisiae : industrial/model 2009 Genome Res. Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production http://genome.cshlp.org/content/19/12/2258.long
- Pichia stipitis : lignin/xylose degrader 2007 Nature Biotechnology Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis http://www.nature.com/nbt/journal/v25/n3/full/nbt1290.html
- Saccharomyces pastorianus : industrial, beer 2009 DNA Res Genome Sequence of the Lager Brewing Yeast, an Interspecies Hybrid http://dnaresearch.oxfordjournals.org/content/16/2/115
- Saccharomyces cerevisiae : industrial/model 2003 nature Sequencing and comparison of yeast species to identify genes and regulatory elements http://www.nature.com/nature/journal/v423/n6937/full/nature01644.html
- Saccharomyces paradoxus : 2003 nature Sequencing and comparison of yeast species to identify genes and regulatory elements http://www.nature.com/nature/journal/v423/n6937/full/nature01644.html
- Saccharomyces mikatae : 2003 nature Sequencing and comparison of yeast species to identify genes and regulatory elements http://www.nature.com/nature/journal/v423/n6937/full/nature01644.html
- Saccharomyces bayanus : 2003 nature Sequencing and comparison of yeast species to identify genes and regulatory elements http://www.nature.com/nature/journal/v423/n6937/full/nature01644.html
- Yarrowia lipolytica : industrial use 2004 nature Genome evolution in yeasts http://www.nature.com/nature/journal/v430/n6995/full/nature02579.html
Schizosaccharomycetes
- Schizosaccharomyces pombe : model eukaryote 2002 nature The genome sequence of Schizosaccharomyces pombe V. Wood et al http://www.nature.com/nature/journal/v415/n6874/full/nature724.html
Sordariomycetes
- Fusarium oxysporum : human/plant pathogen 2010 nature(Fusarium 3종) Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium Li-Jun Ma et al http://www.nature.com/nature/journal/v464/n7287/full/nature08850.html
- Fusarium graminearum : human/plant pathogen 2010 nature(Fusarium 3종) Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium Li-Jun Ma et al http://www.nature.com/nature/journal/v464/n7287/full/nature08850.html
- Fusarium verticillioides : human/plant pathogen 2010 nature(Fusarium 3종) Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium Li-Jun Ma et al http://www.nature.com/nature/journal/v464/n7287/full/nature08850.html
- Fusarium graminearum : 2007 Science The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization Cuomo CA et al http://www.sciencemag.org/content/317/5843/1400
- Grosmannia clavigera : plant pathogen 2011 PNAS Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen Scott DiGuistini et al http://www.pnas.org/content/early/2011/01/18/1011289108
- Magnaporthe grisea : plant pathogen 2005 nature The genome sequence of the rice blast fungus Magnaporthe grisea Ralph A. Dean et al http://www.nature.com/nature/journal/v434/n7036/full/nature03449.html
- Nectria haematococca : plastic/pest./lignin degrader 2009 PLoS Genetics The Genome of Nectria haematococca: Contribution of Supernumerary Chromosomes to Gene Expansion Jeffrey J. Coleman et al http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000618
- Podospora anserina : 2008 Genome Biology The genome sequence of the model ascomycete fungus Podospora anserina Eric Espagne et al http://genomebiology.com/content/9/5/R77
- Sporotrichum thermophile : thermophilic cellulose degrader
- Myceliophthora thermophila : 2011 Nature Biotechnology Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris Randy M Berka et al http://www.nature.com/nbt/journal/v29/n10/full/nbt.1976.html
- Thielavia terrestris : model thermophile/industrial 2011 Nature Biotechnology Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris Randy M Berka et al http://www.nature.com/nbt/journal/v29/n10/full/nbt.1976.html
- Trichoderma reesei : biomass-degrading 2008 Nature Biotechnology Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina) Diego Martinez et al http://www.nature.com/nbt/journal/v26/n5/full/nbt1403.html
Basidiomycota
Agaricomycetes
- Auricularia delicata : 2012 science The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 funal genomes Floudas, et al. http://www.sciencemag.org/content/336/6089/1715.long
- Coprinopsis cinerea : model organism for multicellular fungi 2010 PNAS Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus) Jason E. Stajich et al http://www.pnas.org/content/107/26/11889
- Laccaria bicolor : mycorrhiza 2007 nature The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis F. Martin et al http://www.nature.com/nature/journal/v452/n7183/full/nature06556.html
- Moniliophthora perniciosa : 2008 BMC Genomics A genome survey of Moniliophthora perniciosa gives new insights into Witches' Broom Disease of cacao Jorge MC Mondego et al http://www.biomedcentral.com/1471-2164/9/548
- Phanerochaete chrysosporium : mycoremediation(균류정화법) 2004 Nature Biotechnology Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78 Diego Martinez et al http://www.nature.com/nbt/journal/v22/n6/full/nbt967.html
- Postia placenta : cellulose degrader 2009 PNAS Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion Diego Martinez et al http://www.pnas.org/content/106/6/1954
- Schizophyllum commune : model mushroom 2010 Nature Biotechnology Genome sequence of the model mushroom Schizophyllum commune Robin A Ohm et al http://www.nature.com/nbt/journal/v28/n9/full/nbt.1643.html
- Serpula lacrymans : plant pathogen 2011 Science The Plant Cell Wall–Decomposing Machinery Underlies the Functional Diversity of Forest Fungi Daniel C. Eastwood et al http://www.sciencemag.org/content/333/6043/762
Pucciniomycetes
- Puccinia graminis f. sp. Tritici : plant pathogen 2011 PNAS Obligate biotrophy features unraveled by the genomic analysis of rust fungi Sébastien Duplessis et al http://www.pnas.org/content/108/22/9166
- Cryptococcus neoformans : human pathogen 2005 Science The genome of the basidiomycetous yeast and human pathogen Cryptococcus neoformans Brendan J. Loftus et al http://www.sciencemag.org/content/307/5713/1321
Ustilaginomycetes
- Malassezia globosa : human/plant pathogen 2007 PNAS Dandruff-associated Malassezia genomes reveal convergent and divergent virulence traits shared with plant and human fungal pathogens Jun Xu et al http://www.pnas.org/content/104/47/18730
- Malassezia restricta : dandruff-associated 2007 PNAS Dandruff-associated Malassezia genomes reveal convergent and divergent virulence traits shared with plant and human fungal pathogens Jun Xu et al http://www.pnas.org/content/104/47/18730
- Sporisorium rellianum : plant pathogen 2010 Science Pathogenicity Determinants in Smut Fungi Revealed by Genome Comparison Jan Schirawski et al http://www.sciencemag.org/content/330/6010/1546
- Ustilago maydis : plant pathogen 2006 nature Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis Jörg Kämper et al http://www.nature.com/nature/journal/v444/n7115/full/nature05248.html
Microsporidia
- Encephalitozoon cuniculi : human pathogen 2001 nature Genome sequence and gene compaction of the eukaryote parasite Encephalitozoon cuniculi Michaël D. Katinka et al http://www.nature.com/nature/journal/v414/n6862/full/414450a0.html
- Encephalitozoon intestinalis : human pathogen 2010 Nature Communications The complete sequence of the smallest known nuclear genome from the microsporidian Encephalitozoon intestinalis Nicolas Corradi et al http://www.nature.com/ncomms/journal/v1/n6/full/ncomms1082.html
- Enterocytozoon bieneusi : human pathogen particularly in the context of HIV infection 2009 PLoS Pathogens Genomic survey of the non-cultivatable opportunistic human pathogen, Enterocytozoon bieneusi Donna E. Akiyoshi et al http://www.plospathogens.org/article/info%3Adoi%2F10.1371%2Fjournal.ppat.1000261
- Nosema ceranae : honey bee pathogen 2009 PLoS Pathogens Genomic Analyses of the Microsporidian Nosema ceranae, an Emergent Pathogen of Honey Bees R. Scott Cornman et al http://www.plospathogens.org/article/info%3Adoi%2F10.1371%2Fjournal.ppat.1000466
- Octosporea bayeri : Daphnia pathogen 2009 Genome Biology Draft genome sequence of the Daphnia pathogen Octosporea bayeri: insights into the gene content of a large microsporidian genome and a model for host-parasite interactions Nicolas Corradi et al http://genomebiology.com/2009/10/10/R106
Zygomycota
- Rhizopus oryzae : human pathogen 2009 PLoS Genetics Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole genome duplication Li-Jun Ma et al http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000549
- Mortierella alpina : commercial source of arachidonic acid 2011 PLoS One Genome characterization of the oleaginous fungus Mortierella alpina Lei Wang et al http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0028319