Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota)
Autor(a) principal: | |
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Data de Publicação: | 2017 |
Outros Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNIFESP |
Texto Completo: | https://repositorio.unifesp.br/handle/11600/54944 http://dx.doi.org/10.1016/j.simyco.2017.01.001 |
Resumo: | The order Chaetothyriales (Pezizomycotina, Ascomycetes) harbours obligatorily melanised fungi and includes numerous etiologic agents of chromoblastomycosis, phaeohyphomycosis and other diseases of vertebrate hosts. Diseases range from mild cutaneous to fatal cerebral or disseminated infections and affect humans and cold-blooded animals globally. In addition, Chaetothyriales comprise species with aquatic, rock-inhabiting, ant-associated, and mycoparasitic life-styles, as well as species that tolerate toxic compounds, suggesting a high degree of versatile extremotolerance. To understand their biology and divergent niche occupation, we sequenced and annotated a set of 23 genomes of main the human opportunists within the Chaetothyriales as well as related environmental species. Our analyses included fungi with diverse life-styles, namely opportunistic pathogens and closely related saprobes, to identify genomic adaptations related to pathogenesis. Furthermore, ecological preferences of Chaetothyriales were analysed, in conjuncture with the order-level phylogeny based on conserved ribosomal genes. General characteristics, phylogenomic relationships, transposable elements, sex-related genes, protein family evolution, genes related to protein degradation (MEROPS), carbohydrate-active enzymes (CAZymes), melanin synthesis and secondary metabolism were investigated and compared between species. Genome assemblies varied from 25.81 Mb (Capronia coronata) to 43.03 Mb (Cladophialophora immunda). The bantiana-clade contained the highest number of predicted genes (12 817 on average) as well as larger genomes. We found a low content of mobile elements, with DNA transposons from Tc1/Mariner superfamily being the most abundant across analysed species. Additionally, we identified a reduction of carbohydrate degrading enzymes, specifically many of the Glycosyl Hydrolase (GH) class, while most of the Pectin Lyase (PL) genes were lost in etiological agents of chromoblastomycosis and phaeohyphomycosis. An expansion was found in protein degrading peptidase enzyme families S12 (serine-type D-Ala-D-Ala carboxypeptidases) and M38 (isoaspartyl dipeptidases). Based on genomic information, a wide range of abilities of melanin biosynthesis was revealed |
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Teixeira, M. M.Moreno, L. F.Stielow, B. J.Muszewska, A.Hainaut, M.Gonzaga, L.Abouelleil, A.Patane, J. S. L.Priest, M.Souza, R.Young, S.Ferreira, K. S. [UNIFESP]Zeng, Q.da Cunha, M. M. L.Gladki, A.Barker, B.Vicente, V. A.de Souza, E. M.Almeida, S.Henrissat, B.Vasconcelos, A. T. R.Deng, S.Voglmayr, H.Moussa, T. A. A.Gorbushina, A.Felipe, M. S. S.Cuomo, C. A.de Hoog, G. Sybren2020-07-17T14:02:41Z2020-07-17T14:02:41Z2017Studies In Mycology. Utrecht, v. , n. 86, p. 1-28, 2017.0166-0616https://repositorio.unifesp.br/handle/11600/54944http://dx.doi.org/10.1016/j.simyco.2017.01.001WOS000411880700001.pdf10.1016/j.simyco.2017.01.001WOS:000411880700001The order Chaetothyriales (Pezizomycotina, Ascomycetes) harbours obligatorily melanised fungi and includes numerous etiologic agents of chromoblastomycosis, phaeohyphomycosis and other diseases of vertebrate hosts. Diseases range from mild cutaneous to fatal cerebral or disseminated infections and affect humans and cold-blooded animals globally. In addition, Chaetothyriales comprise species with aquatic, rock-inhabiting, ant-associated, and mycoparasitic life-styles, as well as species that tolerate toxic compounds, suggesting a high degree of versatile extremotolerance. To understand their biology and divergent niche occupation, we sequenced and annotated a set of 23 genomes of main the human opportunists within the Chaetothyriales as well as related environmental species. Our analyses included fungi with diverse life-styles, namely opportunistic pathogens and closely related saprobes, to identify genomic adaptations related to pathogenesis. Furthermore, ecological preferences of Chaetothyriales were analysed, in conjuncture with the order-level phylogeny based on conserved ribosomal genes. General characteristics, phylogenomic relationships, transposable elements, sex-related genes, protein family evolution, genes related to protein degradation (MEROPS), carbohydrate-active enzymes (CAZymes), melanin synthesis and secondary metabolism were investigated and compared between species. Genome assemblies varied from 25.81 Mb (Capronia coronata) to 43.03 Mb (Cladophialophora immunda). The bantiana-clade contained the highest number of predicted genes (12 817 on average) as well as larger genomes. We found a low content of mobile elements, with DNA transposons from Tc1/Mariner superfamily being the most abundant across analysed species. Additionally, we identified a reduction of carbohydrate degrading enzymes, specifically many of the Glycosyl Hydrolase (GH) class, while most of the Pectin Lyase (PL) genes were lost in etiological agents of chromoblastomycosis and phaeohyphomycosis. An expansion was found in protein degrading peptidase enzyme families S12 (serine-type D-Ala-D-Ala carboxypeptidases) and M38 (isoaspartyl dipeptidases). Based on genomic information, a wide range of abilities of melanin biosynthesis was revealedgenes related to metabolically distinct DHN, DOPA and pyomelanin pathways were identified. The MAT (MAting Type) locus and other sex-related genes were recognized in all 23 black fungi. Members of the asexual genera Fonsecaea and Cladophialophora appear to be heterothallic with a single copy of either MAT-1-1 or MAT-1-2 in each individual. All Capronia species are homothallic as both MAT1-1 and MAT1-2 genes were found in each single genome. The genomic synteny of the MAT-locus flanking genes (SLA2-APN2-COX13) is not conserved in black fungi as is commonly observed in Eurotiomycetes, indicating a unique genomic context for MAT in those species. The heterokaryon (het) genes expansion associated with the low selective pressure at the MAT-locus suggests that a parasexual cycle may play an important role in generating diversity among those fungi.National Institute of Science and Technology of Nitrogen Fixation/CNPq/MCTFundacao AraucariaNational Human Genome Research InstituteCNPq/FAP-DFCAPES-BrazilKing Abdulaziz University, JeddahDSRNational Science Centre (Poland)LNCCTranslat Genom Res Inst TGen, Div Pathogen Gen, Flagstaff, AZ USAUniv Brasilia, Dept Cell Biol, Brasilia, DF, BrazilWesterdijk Fungal Biodivers Inst, Utrecht, NetherlandsPolish Acad Sci, Inst Biochem & Biophys, Warsaw, PolandUniv Aix Marseille, CNRS, Marseille, FranceNatl Lab Sci Comp LNCC, Petropolis, BrazilBroad Inst MIT & Harvard, Cambridge, MA 02142 USAUniv Sao Paulo, Dept Biochem, Sao Paulo, BrazilUniv Fed Sao Paulo, Dept Biol Sci, Diadema, SP, BrazilUniv Fed Rio de Janeiro, Nucleo Multidisciplinar Pesquisa Biol UFRJ Xerem, Rio De Janeiro, BrazilUniv Fed Parana, Dept Basic Pathol, Curitiba, PR, BrazilUniv Fed Parana, Dept Biochem & Mol Biol, Curitiba, PR, BrazilUniv Sao Paulo, Dept Clin & Toxicol Anal, Sao Paulo, SP, BrazilUniv Amsterdam, Inst Biodivers & Ecosyst Dynam, Amsterdam, NetherlandsSecond Mil Med Univ, Shanghai Inst Med Mycol, Changzheng Hosp, Shanghai, Peoples R Chinaniv Vienna, Dept Systemat & Evolutionary Bot, Vienna, AustriaKing Abdulaziz Univ, Fac Sci, Biol Sci Dept, Jeddah, Saudi ArabiaCairo Univ, Fac Sci, Bot & Microbiol Dept, Giza, EgyptBAM Fed Inst Mat Res & Testing, Berlin, GermanyUniv Fed Sao Paulo, Dept Biol Sci, Diadema, SP, BrazilNational Institute of Science and Technology of Nitrogen Fixation/CNPq/MCT: 573828/2008-3National Human Genome Research Institute: U54HG003067CNPq/FAP-DF: 193000569/2009CAPES: 1331-13-2King Abdulaziz University, Jeddah: 30-130-36-RGNational Science Centre (Poland): 2012/07/D/NZ2/04286Web of Science1-28engCentraalbureau SchimmelcultureStudies In MycologyBlack yeastComparative genomicsChaetothyrialesEcologyEvolutionHerpotrichiellaceaePhylogenyExploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota)info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleUtrecht86info:eu-repo/semantics/openAccessreponame:Repositório Institucional da UNIFESPinstname:Universidade Federal de São Paulo (UNIFESP)instacron:UNIFESPORIGINALWOS000411880700001.pdfapplication/pdf8221043${dspace.ui.url}/bitstream/11600/54944/1/WOS000411880700001.pdf898328336111f11f8dbf6b0488b4f9e8MD51open accessTEXTWOS000411880700001.pdf.txtWOS000411880700001.pdf.txtExtracted texttext/plain150995${dspace.ui.url}/bitstream/11600/54944/8/WOS000411880700001.pdf.txt2002d6cc2262ca6bc859ac70fc0edfabMD58open accessTHUMBNAILWOS000411880700001.pdf.jpgWOS000411880700001.pdf.jpgIM Thumbnailimage/jpeg8387${dspace.ui.url}/bitstream/11600/54944/10/WOS000411880700001.pdf.jpg8b81e8ef23a46c398ca4e032852331fdMD510open access11600/549442023-06-05 19:32:53.817open accessoai:repositorio.unifesp.br:11600/54944Repositório InstitucionalPUBhttp://www.repositorio.unifesp.br/oai/requestopendoar:34652023-06-05T22:32:53Repositório Institucional da UNIFESP - Universidade Federal de São Paulo (UNIFESP)false |
dc.title.en.fl_str_mv |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
title |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
spellingShingle |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) Teixeira, M. M. Black yeast Comparative genomics Chaetothyriales Ecology Evolution Herpotrichiellaceae Phylogeny |
title_short |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
title_full |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
title_fullStr |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
title_full_unstemmed |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
title_sort |
Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota) |
author |
Teixeira, M. M. |
author_facet |
Teixeira, M. M. Moreno, L. F. Stielow, B. J. Muszewska, A. Hainaut, M. Gonzaga, L. Abouelleil, A. Patane, J. S. L. Priest, M. Souza, R. Young, S. Ferreira, K. S. [UNIFESP] Zeng, Q. da Cunha, M. M. L. Gladki, A. Barker, B. Vicente, V. A. de Souza, E. M. Almeida, S. Henrissat, B. Vasconcelos, A. T. R. Deng, S. Voglmayr, H. Moussa, T. A. A. Gorbushina, A. Felipe, M. S. S. Cuomo, C. A. de Hoog, G. Sybren |
author_role |
author |
author2 |
Moreno, L. F. Stielow, B. J. Muszewska, A. Hainaut, M. Gonzaga, L. Abouelleil, A. Patane, J. S. L. Priest, M. Souza, R. Young, S. Ferreira, K. S. [UNIFESP] Zeng, Q. da Cunha, M. M. L. Gladki, A. Barker, B. Vicente, V. A. de Souza, E. M. Almeida, S. Henrissat, B. Vasconcelos, A. T. R. Deng, S. Voglmayr, H. Moussa, T. A. A. Gorbushina, A. Felipe, M. S. S. Cuomo, C. A. de Hoog, G. Sybren |
author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author author author author |
dc.contributor.author.fl_str_mv |
Teixeira, M. M. Moreno, L. F. Stielow, B. J. Muszewska, A. Hainaut, M. Gonzaga, L. Abouelleil, A. Patane, J. S. L. Priest, M. Souza, R. Young, S. Ferreira, K. S. [UNIFESP] Zeng, Q. da Cunha, M. M. L. Gladki, A. Barker, B. Vicente, V. A. de Souza, E. M. Almeida, S. Henrissat, B. Vasconcelos, A. T. R. Deng, S. Voglmayr, H. Moussa, T. A. A. Gorbushina, A. Felipe, M. S. S. Cuomo, C. A. de Hoog, G. Sybren |
dc.subject.eng.fl_str_mv |
Black yeast Comparative genomics Chaetothyriales Ecology Evolution Herpotrichiellaceae Phylogeny |
topic |
Black yeast Comparative genomics Chaetothyriales Ecology Evolution Herpotrichiellaceae Phylogeny |
description |
The order Chaetothyriales (Pezizomycotina, Ascomycetes) harbours obligatorily melanised fungi and includes numerous etiologic agents of chromoblastomycosis, phaeohyphomycosis and other diseases of vertebrate hosts. Diseases range from mild cutaneous to fatal cerebral or disseminated infections and affect humans and cold-blooded animals globally. In addition, Chaetothyriales comprise species with aquatic, rock-inhabiting, ant-associated, and mycoparasitic life-styles, as well as species that tolerate toxic compounds, suggesting a high degree of versatile extremotolerance. To understand their biology and divergent niche occupation, we sequenced and annotated a set of 23 genomes of main the human opportunists within the Chaetothyriales as well as related environmental species. Our analyses included fungi with diverse life-styles, namely opportunistic pathogens and closely related saprobes, to identify genomic adaptations related to pathogenesis. Furthermore, ecological preferences of Chaetothyriales were analysed, in conjuncture with the order-level phylogeny based on conserved ribosomal genes. General characteristics, phylogenomic relationships, transposable elements, sex-related genes, protein family evolution, genes related to protein degradation (MEROPS), carbohydrate-active enzymes (CAZymes), melanin synthesis and secondary metabolism were investigated and compared between species. Genome assemblies varied from 25.81 Mb (Capronia coronata) to 43.03 Mb (Cladophialophora immunda). The bantiana-clade contained the highest number of predicted genes (12 817 on average) as well as larger genomes. We found a low content of mobile elements, with DNA transposons from Tc1/Mariner superfamily being the most abundant across analysed species. Additionally, we identified a reduction of carbohydrate degrading enzymes, specifically many of the Glycosyl Hydrolase (GH) class, while most of the Pectin Lyase (PL) genes were lost in etiological agents of chromoblastomycosis and phaeohyphomycosis. An expansion was found in protein degrading peptidase enzyme families S12 (serine-type D-Ala-D-Ala carboxypeptidases) and M38 (isoaspartyl dipeptidases). Based on genomic information, a wide range of abilities of melanin biosynthesis was revealed |
publishDate |
2017 |
dc.date.issued.fl_str_mv |
2017 |
dc.date.accessioned.fl_str_mv |
2020-07-17T14:02:41Z |
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2020-07-17T14:02:41Z |
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info:eu-repo/semantics/publishedVersion |
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info:eu-repo/semantics/article |
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publishedVersion |
dc.identifier.citation.fl_str_mv |
Studies In Mycology. Utrecht, v. , n. 86, p. 1-28, 2017. |
dc.identifier.uri.fl_str_mv |
https://repositorio.unifesp.br/handle/11600/54944 http://dx.doi.org/10.1016/j.simyco.2017.01.001 |
dc.identifier.issn.none.fl_str_mv |
0166-0616 |
dc.identifier.file.none.fl_str_mv |
WOS000411880700001.pdf |
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10.1016/j.simyco.2017.01.001 |
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WOS:000411880700001 |
identifier_str_mv |
Studies In Mycology. Utrecht, v. , n. 86, p. 1-28, 2017. 0166-0616 WOS000411880700001.pdf 10.1016/j.simyco.2017.01.001 WOS:000411880700001 |
url |
https://repositorio.unifesp.br/handle/11600/54944 http://dx.doi.org/10.1016/j.simyco.2017.01.001 |
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Studies In Mycology |
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Centraalbureau Schimmelculture |
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Centraalbureau Schimmelculture |
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