Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations

Candida subhashii belongs to the CUG-Ser clade, a group of phylogenetically closely related yeast species that includes some human opportunistic pathogens, such as Candida albicans. Despite being present in the environment, C. subhashii was initially described as the causative agent of a case of per...

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Autores: Mixão, Verónica, Hegedűsová, Eva, Saus Martínez, Ester, Pryszcz, Leszek Piotr, 1985-, Cillingová, Andrea, Nosek, Jozef, Gabaldón Estevan, Juan Antonio, 1973-
Formato: artículo
Estado:Versión publicada
Fecha de publicación:2021
País:España
Recursos:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:10230/49009
Acesso em linha:http://hdl.handle.net/10230/49009
http://dx.doi.org/10.1093/dnares/dsab006
Access Level:acceso abierto
Palavra-chave:Candida subhashii
Genome assembly
Hybrid
Metabolism of hydroxyaromatic compounds
Mitochondria
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spelling Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformationsMixão, VerónicaHegedűsová, EvaSaus Martínez, EsterPryszcz, Leszek Piotr, 1985-Cillingová, AndreaNosek, JozefGabaldón Estevan, Juan Antonio, 1973-Candida subhashiiGenome assemblyHybridMetabolism of hydroxyaromatic compoundsMitochondriaCandida subhashii belongs to the CUG-Ser clade, a group of phylogenetically closely related yeast species that includes some human opportunistic pathogens, such as Candida albicans. Despite being present in the environment, C. subhashii was initially described as the causative agent of a case of peritonitis. Considering the relevance of whole-genome sequencing and analysis for our understanding of genome evolution and pathogenicity, we sequenced, assembled and annotated the genome of C. subhashii type strain. Our results show that C. subhashii presents a highly heterozygous genome and other signatures that point to a hybrid ancestry. The presence of functional pathways for assimilation of hydroxyaromatic compounds goes in line with the affiliation of this yeast with soil microbial communities involved in lignin decomposition. Furthermore, we observed that different clones of this strain may present circular or linear mitochondrial DNA. Re-sequencing and comparison of strains with differential mitochondrial genome topology revealed five candidate genes potentially associated with this conformational change: MSK1, SSZ1, ALG5, MRPL9 and OYE32.This work was supported by the European Union’s Horizon 2020 Research and Innovation Programme under the Marie Sklodowska-Curie grant agreement No. H2020-MSCA-ITN-2014-642095. T.G. group also acknowledges support from the Spanish Ministry of Economy, Industry, and Competitiveness (MEIC) for the EMBL partnership, and grants ‘Centro de Excelencia Severo Ochoa 2013-2017’ SEV-2012-0208 and BFU2015-67107 co-founded by European Regional Development Fund (ERDF); from the CERCA Programme/Generalitat de Catalunya; from the Catalan Research Agency (AGAUR) SGR857, and grants from the European Union’s Horizon 2020 Research and Innovation Programme under the grant agreement ERC-2016-724173. T.G. also receives support from an INB Grant (PT17/0009/0023 - ISCIII-SGEFI/ERDF). J.N. group was supported by the Slovak Research and Development Agency (APVV-18-0239) and the Scientific Grant Agency of the Ministry of Education, Science, Research and Sport of the Slovak Republic (VEGA 1/0027/19).Oxford University Press202120212021info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/pdfhttp://hdl.handle.net/10230/49009http://dx.doi.org/10.1093/dnares/dsab006reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésDNA Res. 2021;28(3):dsab006info:eu-repo/grantAgreement/EC/H2020/642095info:eu-repo/grantAgreement/EC/H2020/724173© The Author(s) 2021. Published by Oxford University Press on behalf of Kazusa DNA Research Institute. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.comhttp://creativecommons.org/licenses/by-nc/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:10230/490092026-05-29T05:05:01Z
dc.title.none.fl_str_mv Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
title Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
spellingShingle Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
Mixão, Verónica
Candida subhashii
Genome assembly
Hybrid
Metabolism of hydroxyaromatic compounds
Mitochondria
title_short Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
title_full Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
title_fullStr Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
title_full_unstemmed Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
title_sort Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations
dc.creator.none.fl_str_mv Mixão, Verónica
Hegedűsová, Eva
Saus Martínez, Ester
Pryszcz, Leszek Piotr, 1985-
Cillingová, Andrea
Nosek, Jozef
Gabaldón Estevan, Juan Antonio, 1973-
author Mixão, Verónica
author_facet Mixão, Verónica
Hegedűsová, Eva
Saus Martínez, Ester
Pryszcz, Leszek Piotr, 1985-
Cillingová, Andrea
Nosek, Jozef
Gabaldón Estevan, Juan Antonio, 1973-
author_role author
author2 Hegedűsová, Eva
Saus Martínez, Ester
Pryszcz, Leszek Piotr, 1985-
Cillingová, Andrea
Nosek, Jozef
Gabaldón Estevan, Juan Antonio, 1973-
author2_role author
author
author
author
author
author
dc.subject.none.fl_str_mv Candida subhashii
Genome assembly
Hybrid
Metabolism of hydroxyaromatic compounds
Mitochondria
topic Candida subhashii
Genome assembly
Hybrid
Metabolism of hydroxyaromatic compounds
Mitochondria
description Candida subhashii belongs to the CUG-Ser clade, a group of phylogenetically closely related yeast species that includes some human opportunistic pathogens, such as Candida albicans. Despite being present in the environment, C. subhashii was initially described as the causative agent of a case of peritonitis. Considering the relevance of whole-genome sequencing and analysis for our understanding of genome evolution and pathogenicity, we sequenced, assembled and annotated the genome of C. subhashii type strain. Our results show that C. subhashii presents a highly heterozygous genome and other signatures that point to a hybrid ancestry. The presence of functional pathways for assimilation of hydroxyaromatic compounds goes in line with the affiliation of this yeast with soil microbial communities involved in lignin decomposition. Furthermore, we observed that different clones of this strain may present circular or linear mitochondrial DNA. Re-sequencing and comparison of strains with differential mitochondrial genome topology revealed five candidate genes potentially associated with this conformational change: MSK1, SSZ1, ALG5, MRPL9 and OYE32.
publishDate 2021
dc.date.none.fl_str_mv 2021
2021
2021
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10230/49009
http://dx.doi.org/10.1093/dnares/dsab006
url http://hdl.handle.net/10230/49009
http://dx.doi.org/10.1093/dnares/dsab006
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv DNA Res. 2021;28(3):dsab006
info:eu-repo/grantAgreement/EC/H2020/642095
info:eu-repo/grantAgreement/EC/H2020/724173
dc.rights.none.fl_str_mv http://creativecommons.org/licenses/by-nc/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by-nc/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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