ArticleGenome biology2017
Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus.
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Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 246 papers, 1 of them a synthesis that pooled it.
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246 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Fungal Coculture: Unlocking the Potential for Efficient Bioconversion of Lignocellulosic Biomass.Journal of fungi (Basel, Switzerland) · 2025Review
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117 authors.
Ronald P de VriesWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands. r.devries@cbs.knaw.nl.
Robert RileyUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Ad WiebengaWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Guillermo Aguilar-OsorioDepartment of Food Science and Biotechnology, Faculty of Chemistry, National University of Mexico, Ciudad Universitaria, D.F., C.P. 04510, Mexico.
Sotiris AmillisDepartment of Biology, National and Kapodistrian University of Athens, Panepistimioupolis, 15781, Athens, Greece.
Cristiane Akemi UchimaLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
Gregor AnderluhLaboratory for Molecular Biology and Nanobiotechnology, National Institute of Chemistry, Hajdrihova 19, 1000, Ljubljana, Slovenia.
Mojtaba AsadollahiDepartment of Biochemical Engineering, Faculty of Science and Technology, University of Debrecen, 4032, Debrecen, Hungary.
Marion AskinInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Kerrie BarryUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Evy BattagliaWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Özgür BayramDepartment of Molecular Microbiology and Genetics, Institute for Microbiology and Genetics, Georg August University Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany.
Tiziano BenocciWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Susanna A Braus-StromeyerDepartment of Molecular Microbiology and Genetics, Institute for Microbiology and Genetics, Georg August University Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany.
Camila CaldanaLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
David CánovasDepartment of Genetics, Faculty of Biology, University of Seville, Avda de Reina Mercedes 6, 41012, Sevilla, Spain.
Gustavo C CerqueiraBroad Institute of Harvard and MIT, 75 Ames St, Cambridge, MA, 02142, USA.
Fusheng ChenCollege of Food Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China.
Wanping ChenCollege of Food Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China.
Cindy ChoiUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Alicia ClumUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Renato Augusto Corrêa Dos SantosLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
André Ricardo de Lima DamásioLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
George DiallinasDepartment of Biology, National and Kapodistrian University of Athens, Panepistimioupolis, 15781, Athens, Greece.
Tamás EmriDepartment of Biotechnology and Microbiology, Faculty of Science and Technology, University of Debrecen, Egyetem tér 1, 4032, Debrecen, Hungary.
Erzsébet FeketeDepartment of Biochemical Engineering, Faculty of Science and Technology, University of Debrecen, 4032, Debrecen, Hungary.
Michel FlipphiDepartment of Biochemical Engineering, Faculty of Science and Technology, University of Debrecen, 4032, Debrecen, Hungary.
Susanne FreybergDepartment of Molecular Microbiology and Genetics, Institute for Microbiology and Genetics, Georg August University Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany.
Antonia GalloInstitute of Sciences of Food Production (ISPA), National Research Council (CNR), via Provinciale Lecce-Monteroni, 73100, Lecce, Italy.
Christos GournasInstitute of Biosciences and Applications, Microbial Molecular Genetics Laboratory, National Center for Scientific Research, Demokritos (NCSRD), Athens, Greece.
Rob HabgoodSchool of Life Sciences, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
Matthieu HainautCNRS, Aix-Marseille Université, Marseille, France.
María Laura HarispeInstitut Pasteur de Montevideo, Unidad Mixta INIA-IPMont, Mataojo 2020, CP11400, Montevideo, Uruguay.
Bernard HenrissatCNRS, Aix-Marseille Université, Marseille, France.
Kristiina S HildénDepartment of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland.
Ryan HopeSchool of Life Sciences, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
Abeer HossainDutch DNA Biotech BV, Utrechtseweg 48, 3703AJ, Zeist, The Netherlands.
Eugenia KarabikaSchool of Biology, University of St Andrews, St Andrews, Fife, KY16 9TH, UK.
Levente KaraffaDepartment of Biochemical Engineering, Faculty of Science and Technology, University of Debrecen, 4032, Debrecen, Hungary.
Zsolt KarányiDepartment of Medicine, Faculty of Medicine, University of Debrecen, Nagyerdei krt. 98, 4032, Debrecen, Hungary.
Nada KraševecLaboratory for Molecular Biology and Nanobiotechnology, National Institute of Chemistry, Hajdrihova 19, 1000, Ljubljana, Slovenia.
Alan KuoUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Harald KuschDepartment of Molecular Microbiology and Genetics, Institute for Microbiology and Genetics, Georg August University Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany.
Kurt LaButtiUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Ellen L LagendijkInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Alla LapidusUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Anthony LevasseurINRA, Aix-Marseille Univ, BBF, Biodiversité et Biotechnologie Fongiques, Marseille, France.
Erika LindquistUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Anna LipzenUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Antonio F LogriecoInstitute of Sciences of Food Production (ISPA), National Research Council (CNR), Via Amendola 122/O, 70126, Bari, Italy.
Andrew MacCabeDepartamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos, Consejo Superior de Investigaciones Científicas (CSIC), Paterna, Valencia, Spain.
Miia R MäkeläDepartment of Food and Environmental Sciences, University of Helsinki, Viikinkaari 9, Helsinki, Finland.
Iran MalavaziDepartamento de Genética e Evolução, Centro de Ciências Biológicas e da Saúde, Universidade Federal de São Carlos, São Carlos, São Paulo, Brazil.
Petter MelinUppsala BioCenter, Department of Microbiology, Swedish University of Agricultural Sciences, P.O. Box 7025, 750 07, Uppsala, Sweden.
Vera MeyerInstitute of Biotechnology, Department Applied and Molecular Microbiology, Berlin University of Technology, Gustav-Meyer-Allee 25, 13355, Berlin, Germany.
Natalia MielnichukDepartment of Genetics, Faculty of Biology, University of Seville, Avda de Reina Mercedes 6, 41012, Sevilla, Spain.
Márton MiskeiDepartment of Biotechnology and Microbiology, Faculty of Science and Technology, University of Debrecen, Egyetem tér 1, 4032, Debrecen, Hungary.
Ákos P MolnárDepartment of Biochemical Engineering, Faculty of Science and Technology, University of Debrecen, 4032, Debrecen, Hungary.
Giuseppina MuléInstitute of Sciences of Food Production (ISPA), National Research Council (CNR), Via Amendola 122/O, 70126, Bari, Italy.
Chew Yee NganUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Margarita OrejasDepartamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos, Consejo Superior de Investigaciones Científicas (CSIC), Paterna, Valencia, Spain.
Erzsébet OroszWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Jean Paul OuedraogoInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Karin M OverkampDutch DNA Biotech BV, Utrechtseweg 48, 3703AJ, Zeist, The Netherlands.
Hee-Soo ParkSchool of Food Science and Biotechnology, Kyungpook National University, Daegu, 702-701, Republic of Korea.
Giancarlo PerroneInstitute of Sciences of Food Production (ISPA), National Research Council (CNR), Via Amendola 122/O, 70126, Bari, Italy.
Francois PiumiINRA, Aix-Marseille Univ, BBF, Biodiversité et Biotechnologie Fongiques, Marseille, France.
Peter J PuntInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Arthur F J RamInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Ana RamónSección Bioquímica, Departamento de Biología Celular y Molecular, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay.
Stefan RauscherDepartment of Microbiology, Karlsruhe Institute of Technology, Institute for Applied Biosciences, Hertzstrasse 16,, 76187, Karlsruhe, Germany.
Eric RecordINRA, Aix-Marseille Univ, BBF, Biodiversité et Biotechnologie Fongiques, Marseille, France.
Diego Mauricio Riaño-PachónLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
Vincent RobertWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Julian RöhrigDepartment of Microbiology, Karlsruhe Institute of Technology, Institute for Applied Biosciences, Hertzstrasse 16,, 76187, Karlsruhe, Germany.
Roberto RullerLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
Asaf SalamovUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Nadhira S SalihSchool of Life Sciences, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
Rob A SamsonWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Erzsébet SándorInstitute of Food Science, Faculty of Agricultural and Food Sciences and Environmental Management, University of Debrecen, 4032, Debrecen, Hungary.
Manuel SanguinettiSección Bioquímica, Departamento de Biología Celular y Molecular, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay.
Tabea SchützeInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Kristina SepčićDepartment of Biology, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, 1000, Ljubljana, Slovenia.
Ekaterina ShelestSystems Biology/Bioinformatics group, Leibniz Institute for Natural Product Research and Infection Biology, Hans Knoell Institute, (HKI), Beutenbergstr. 11a, 07745, Jena, Germany.
Gavin SherlockDepartment of Genetics, Stanford University, Stanford, CA, 94305-5120, USA.
Vicky SophianopoulouInstitute of Biosciences and Applications, Microbial Molecular Genetics Laboratory, National Center for Scientific Research, Demokritos (NCSRD), Athens, Greece.
Fabio M SquinaLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
Hui SunUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Antonia SuscaInstitute of Sciences of Food Production (ISPA), National Research Council (CNR), Via Amendola 122/O, 70126, Bari, Italy.
Richard B ToddDepartment of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA.
Adrian TsangCentre for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke Street West, Montreal, QC, H4B 1R6, Canada.
Shiela E UnklesSchool of Biology, University of St Andrews, St Andrews, Fife, KY16 9TH, UK.
Nathalie van de WieleWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Diana van Rossen-UffinkInstitute of Biology Leiden, Molecular Microbiology and Biotechnology, Leiden University, Sylviusweg 72, 2333, BE, Leiden, The Netherlands.
Juliana Velasco de Castro OliveiraLaboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Caixa Postal 6192, CEP 13083-970, Campinas, São Paulo, Brasil.
Tammi C VesthDepartment of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 223, 2800, Kongens Lyngby, Denmark.
Jaap VisserWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Jae-Hyuk YuDepartments of Bacteriology and Genetics, University of Wisconsin-Madison, 1550 Linden Drive, Madison, WI, 53706, USA.
Miaomiao ZhouWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Mikael R AndersenDepartment of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 223, 2800, Kongens Lyngby, Denmark.
David B ArcherSchool of Life Sciences, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
Scott E BakerFungal Biotechnology Team, Pacific Northwest National Laboratory, Richland, Washington, 99352, USA.
Isabelle BenoitWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Axel A BrakhageDepartment of Molecular and Applied Microbiology, Leibniz-Institute for Natural Product Research and Infection Biology - Hans Knoell Institute (HKI) and Institute for Microbiology, Friedrich Schiller University Jena, Beutenbergstr. 11a, 07745, Jena, Germany.
Gerhard H BrausDepartment of Molecular Microbiology and Genetics, Institute for Microbiology and Genetics, Georg August University Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany.
Reinhard FischerDepartment of Microbiology, Karlsruhe Institute of Technology, Institute for Applied Biosciences, Hertzstrasse 16,, 76187, Karlsruhe, Germany.
Jens C FrisvadDepartment of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 223, 2800, Kongens Lyngby, Denmark.
Gustavo H GoldmanFaculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo, Av. do Café S/N, CEP 14040-903, Ribeirão Preto, São Paulo, Brazil.
Jos HoubrakenWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Berl OakleyDepartment of Molecular Biosciences, University of Kansas, Lawrence, Kansas, 66045, USA.
István PócsiDepartment of Biotechnology and Microbiology, Faculty of Science and Technology, University of Debrecen, Egyetem tér 1, 4032, Debrecen, Hungary.
Claudio ScazzocchioDepartment of Microbiology, Imperial College, London, SW7 2AZ, UK.
Bernhard SeibothResearch Division Biochemical Technology, Institute of Chemical Engineering, TU Wien, Gumpendorferstraße 1a, 1060, Vienna, Austria.
Patricia A vanKuykWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.
Jennifer WortmanBroad Institute, 415 Main St, Cambridge, MA, 02142, USA.
Paul S DyerSchool of Life Sciences, University of Nottingham, University Park, Nottingham, NG7 2RD, UK.
Igor V GrigorievUS Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA.
Funding
Austrian Science Fund FWF M 1693Biotechnology and Biological Sciences Research Council BB/K01434X/1
Abstract
backgroundThe fungal genus Aspergillus is of critical importance to humankind. Species include those with industrial applications, important pathogens of humans, animals and crops, a source of potent carcinogenic contaminants of food, and an important genetic model. The genome sequences of eight aspergilli have already been explored to investigate aspects of fungal biology, raising questions about evolution and specialization within this genus.
resultsWe have generated genome sequences for ten novel, highly diverse Aspergillus species and compared these in detail to sister and more distant genera. Comparative studies of key aspects of fungal biology, including primary and secondary metabolism, stress response, biomass degradation, and signal transduction, revealed both conservation and diversity among the species. Observed genomic differences were validated with experimental studies. This revealed several highlights, such as the potential for sex in asexual species, organic acid production genes being a key feature of black aspergilli, alternative approaches for degrading plant biomass, and indications for the genetic basis of stress response. A genome-wide phylogenetic analysis demonstrated in detail the relationship of the newly genome sequenced species with other aspergilli.
conclusionsMany aspects of biological differences between fungal species cannot be explained by current knowledge obtained from genome sequences. The comparative genomics and experimental study, presented here, allows for the first time a genus-wide view of the biological diversity of the aspergilli and in many, but not all, cases linked genome differences to phenotype. Insights gained could be exploited for biotechnological and medical applications of fungi.
Indexed as
Adaptation, BiologicalBiodiversityGenome, FungalGenomicsAspergillusBiomassCarbonComputational BiologyCytochrome P-450 Enzyme SystemDNA MethylationFungal ProteinsGene Expression Regulation, FungalGene Regulatory NetworksHumansMetabolic Networks and PathwaysMolecular Sequence AnnotationCarbonCytochrome P-450 Enzyme SystemFungal ProteinsOxidoreductasesAspergillusComparative genomicsFungal biologyGenome sequencing
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