Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi

The study of evolution is limited by the techniques available to do so. Aside from the use of the fossil record, molecular phylogenetics can provide a detailed characterization of evolutionary histories using genes, genomes and proteins. However, these tools provide scarce biochemical information of...

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Autores: Ayuso-Fernández, Iván, Molpeceres, Gonzalo, Camarero, Susana, Ruiz-Dueñas, F. J., Martínez, Ángel T.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2022
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:dnet:digitalcsic_::b5cf87f5c713d658705b9ae534317773
Acceso en línea:http://hdl.handle.net/10261/427617
https://digital.csic.es/handle/10261/289792
Access Level:acceso abierto
Palabra clave:Ancestral sequence reconstruction
Evolution
Lignocellulosic biomass
Plant cell-wall degrading enzymes (PCWDE)
Wood decay fungi
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spelling Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungiAyuso-Fernández, IvánMolpeceres, GonzaloCamarero, SusanaRuiz-Dueñas, F. J.Martínez, Ángel T.Ancestral sequence reconstructionEvolutionLignocellulosic biomassPlant cell-wall degrading enzymes (PCWDE)Wood decay fungiThe study of evolution is limited by the techniques available to do so. Aside from the use of the fossil record, molecular phylogenetics can provide a detailed characterization of evolutionary histories using genes, genomes and proteins. However, these tools provide scarce biochemical information of the organisms and systems of interest and are therefore very limited when they come to explain protein evolution. In the past decade, this limitation has been overcome by the development of ancestral sequence reconstruction (ASR) methods. ASR allows the subsequent resurrection in the laboratory of inferred proteins from now extinct organisms, becoming an outstanding tool to study enzyme evolution. Here we review the recent advances in ASR methods and their application to study fungal evolution, with special focus on wood-decay fungi as essential organisms in the global carbon cycling.This research was funded by the Genobioref (BIO2017-86559-R) and Lig2Plast (PID2021-126384OB-I00) projects of the Spanish Ministry of Science and Innovation (co-financed by FEDER funds); by the WoodZymes (H2020-BBI-JTI-2017-792070) and CuBE – ERC Synergy Project (H2020-ERC-2019-SyG-856446) EU projects, and by the Consejo Superior de Investigaciones Científicas project PIE-202120E019 and grant 2021AEP106, SusPlast platform, and program for the Spanish Recovery, Transformation and Resilience Plan funded by the Recovery and Resilience Facility of the European Union, established by the Regulation (EU) 2020/2094. G.M. acknowledges The Tatiana Pérez de Guzmán el Bueno Foundation for his predoctoral Environment grant. Finally, we acknowledge support of the publication fee by the CSIC Open Access Publication Support Initiative through its Unit of Information Resources for Research (URICI).Peer reviewedFrontiers MediaMinisterio de Ciencia e Innovación (España)WoodZymesEuropean CommissionConsejo Superior de Investigaciones Científicas (España)Fundación Tatiana Pérez de Guzmán el BuenoCSIC - Unidad de Recursos de Información Científica para la Investigación (URICI)Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202620262022info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionapplication/pdfhttp://hdl.handle.net/10261/427617https://digital.csic.es/handle/10261/289792reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/BIO2017-86559-Rinfo:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2021-2023/PID2021-126384OB-I00H2020-BBI-JTI-2017-792070PIE-202120E019PIE-2021AEP106https://doi.org/10.3389/ffunb.2022.1003489Síinfo:eu-repo/semantics/openAccessoai:dnet:digitalcsic_::b5cf87f5c713d658705b9ae5343177732026-05-22T06:33:51Z
dc.title.none.fl_str_mv Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
title Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
spellingShingle Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
Ayuso-Fernández, Iván
Ancestral sequence reconstruction
Evolution
Lignocellulosic biomass
Plant cell-wall degrading enzymes (PCWDE)
Wood decay fungi
title_short Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
title_full Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
title_fullStr Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
title_full_unstemmed Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
title_sort Ancestral sequence reconstruction as a tool to study the evolution of wood decaying fungi
dc.creator.none.fl_str_mv Ayuso-Fernández, Iván
Molpeceres, Gonzalo
Camarero, Susana
Ruiz-Dueñas, F. J.
Martínez, Ángel T.
author Ayuso-Fernández, Iván
author_facet Ayuso-Fernández, Iván
Molpeceres, Gonzalo
Camarero, Susana
Ruiz-Dueñas, F. J.
Martínez, Ángel T.
author_role author
author2 Molpeceres, Gonzalo
Camarero, Susana
Ruiz-Dueñas, F. J.
Martínez, Ángel T.
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Ministerio de Ciencia e Innovación (España)
WoodZymes
European Commission
Consejo Superior de Investigaciones Científicas (España)
Fundación Tatiana Pérez de Guzmán el Bueno
CSIC - Unidad de Recursos de Información Científica para la Investigación (URICI)
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Ancestral sequence reconstruction
Evolution
Lignocellulosic biomass
Plant cell-wall degrading enzymes (PCWDE)
Wood decay fungi
topic Ancestral sequence reconstruction
Evolution
Lignocellulosic biomass
Plant cell-wall degrading enzymes (PCWDE)
Wood decay fungi
description The study of evolution is limited by the techniques available to do so. Aside from the use of the fossil record, molecular phylogenetics can provide a detailed characterization of evolutionary histories using genes, genomes and proteins. However, these tools provide scarce biochemical information of the organisms and systems of interest and are therefore very limited when they come to explain protein evolution. In the past decade, this limitation has been overcome by the development of ancestral sequence reconstruction (ASR) methods. ASR allows the subsequent resurrection in the laboratory of inferred proteins from now extinct organisms, becoming an outstanding tool to study enzyme evolution. Here we review the recent advances in ASR methods and their application to study fungal evolution, with special focus on wood-decay fungi as essential organisms in the global carbon cycling.
publishDate 2022
dc.date.none.fl_str_mv 2022
2026
2026
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/427617
https://digital.csic.es/handle/10261/289792
url http://hdl.handle.net/10261/427617
https://digital.csic.es/handle/10261/289792
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv #PLACEHOLDER_PARENT_METADATA_VALUE#
#PLACEHOLDER_PARENT_METADATA_VALUE#
#PLACEHOLDER_PARENT_METADATA_VALUE#
#PLACEHOLDER_PARENT_METADATA_VALUE#
#PLACEHOLDER_PARENT_METADATA_VALUE#
info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/BIO2017-86559-R
info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2021-2023/PID2021-126384OB-I00
H2020-BBI-JTI-2017-792070
PIE-202120E019
PIE-2021AEP106
https://doi.org/10.3389/ffunb.2022.1003489
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Frontiers Media
publisher.none.fl_str_mv Frontiers Media
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
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