Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis

Efficient lignin depolymerization is unique to the wood decay basidiomycetes, collectively referred to as white rot fungi. Phanerochaete chrysosporium simultaneously degrades lignin and cellulose, whereas the closely related species, Ceriporiopsis subvermispora, also depolymerizes lignin but may do...

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Autores: Fernández Fueyo, Elena, Ruiz Dueñas, Francisco J., Ferreira, Patricia, Floudas, Dimitrios, Lavín Trueba, José Luis, Oguiza Tomé, José Antonio, Pérez Garrido, María Gumersinda, Pisabarro de Lucas, Gerardo, Ramírez Nasto, Lucía, Santoyo Santos, Francisco
Tipo de documento: artigo
Estado:Versão publicada
Data de publicação:2012
País:España
Recursos:Universidad Pública de Navarra
Repositório:Academica-e. Repositorio Institucional de la Universidad Pública de Navarra
OAI Identifier:oai:academica-e.unavarra.es:2454/31886
Acesso em linha:https://hdl.handle.net/2454/31886
Access Level:Acceso aberto
Palavra-chave:Ceriporiopsis subvermispora
Phanerochaete chrysosporium
Selective ligninolysis
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spelling Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysisFernández Fueyo, ElenaRuiz Dueñas, Francisco J.Ferreira, PatriciaFloudas, DimitriosLavín Trueba, José LuisOguiza Tomé, José AntonioPérez Garrido, María GumersindaPisabarro de Lucas, GerardoRamírez Nasto, LucíaSantoyo Santos, FranciscoCeriporiopsis subvermisporaPhanerochaete chrysosporiumSelective ligninolysisEfficient lignin depolymerization is unique to the wood decay basidiomycetes, collectively referred to as white rot fungi. Phanerochaete chrysosporium simultaneously degrades lignin and cellulose, whereas the closely related species, Ceriporiopsis subvermispora, also depolymerizes lignin but may do so with relatively little cellulose degradation. To investigate the basis for selective ligninolysis, we conducted comparative genome analysis of C. subvermispora and P. chrysosporium. Genes encoding manganese peroxidase numbered 13 and five in C. subvermispora and P. chrysosporium, respectively. In addition, the C. subvermispora genome contains at least seven genes predicted to encode laccases, whereas the P. chrysosporium genome contains none. We also observed expansion of the number of C. subvermispora desaturase-encoding genes putatively involved in lipid metabolism. Microarray-based transcriptome analysis showed substantial up-regulation of several desaturase and MnP genes in wood-containing medium. MS identified MnP proteins in C. subvermispora culture filtrates, but none in P. chrysosporium cultures. These results support the importance of MnP and a lignin degradation mechanism whereby cleavage of the dominant nonphenolic structures is mediated by lipid peroxidation products. Two C. subvermispora genes were predicted to encode peroxidases structurally similar to P. chrysosporium lignin peroxidase and, following heterologous expression in Escherichia coli, the enzymes were shown to oxidize high redox potential substrates, but not Mn2+. Apart from oxidative lignin degradation, we also examined cellulolytic and hemicellulolytic systems in both fungi. In summary, the C. subvermispora genetic inventory and expression patterns exhibit increased oxidoreductase potential and diminished cellulolytic capability relative to P. chrysosporium.The major portions of this work were performed under US Department of Agriculture Cooperative State, Research, Education, and Extension Service Grant 2007-35504-18257 (to D.C. and R.A.B.). The US Department of Energy Joint Genome Institute is supported by the Office of Science of the US Department of Energy under Contract DE-AC02-05CH11231. This work was supported by Spanish Projects BIO2008-01533 and BIO2011-26694, European Project Peroxidases as Biocatalysts KBBE-2010-4-265397 (to F.J.R.-D. and A.T.M.), the Chilean National Fund for Scientific and Technological Development Grant 1090513 (to L.F.L.), and a “Ramon y Cajal” contract (to F.J.R.-D.).National Academy of SciencesProducción AgrariaNekazaritza Ekoizpena2012info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/ziphttps://hdl.handle.net/2454/31886reponame:Academica-e. Repositorio Institucional de la Universidad Pública de Navarrainstname:Universidad Pública de NavarraInglésinfo:eu-repo/grantAgreement/MICINN//BIO2011-26694info:eu-repo/semantics/openAccessoai:academica-e.unavarra.es:2454/318862026-06-17T12:41:47Z
dc.title.none.fl_str_mv Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
title Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
spellingShingle Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
Fernández Fueyo, Elena
Ceriporiopsis subvermispora
Phanerochaete chrysosporium
Selective ligninolysis
title_short Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
title_full Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
title_fullStr Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
title_full_unstemmed Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
title_sort Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis
dc.creator.none.fl_str_mv Fernández Fueyo, Elena
Ruiz Dueñas, Francisco J.
Ferreira, Patricia
Floudas, Dimitrios
Lavín Trueba, José Luis
Oguiza Tomé, José Antonio
Pérez Garrido, María Gumersinda
Pisabarro de Lucas, Gerardo
Ramírez Nasto, Lucía
Santoyo Santos, Francisco
author Fernández Fueyo, Elena
author_facet Fernández Fueyo, Elena
Ruiz Dueñas, Francisco J.
Ferreira, Patricia
Floudas, Dimitrios
Lavín Trueba, José Luis
Oguiza Tomé, José Antonio
Pérez Garrido, María Gumersinda
Pisabarro de Lucas, Gerardo
Ramírez Nasto, Lucía
Santoyo Santos, Francisco
author_role author
author2 Ruiz Dueñas, Francisco J.
Ferreira, Patricia
Floudas, Dimitrios
Lavín Trueba, José Luis
Oguiza Tomé, José Antonio
Pérez Garrido, María Gumersinda
Pisabarro de Lucas, Gerardo
Ramírez Nasto, Lucía
Santoyo Santos, Francisco
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Producción Agraria
Nekazaritza Ekoizpena
dc.subject.none.fl_str_mv Ceriporiopsis subvermispora
Phanerochaete chrysosporium
Selective ligninolysis
topic Ceriporiopsis subvermispora
Phanerochaete chrysosporium
Selective ligninolysis
description Efficient lignin depolymerization is unique to the wood decay basidiomycetes, collectively referred to as white rot fungi. Phanerochaete chrysosporium simultaneously degrades lignin and cellulose, whereas the closely related species, Ceriporiopsis subvermispora, also depolymerizes lignin but may do so with relatively little cellulose degradation. To investigate the basis for selective ligninolysis, we conducted comparative genome analysis of C. subvermispora and P. chrysosporium. Genes encoding manganese peroxidase numbered 13 and five in C. subvermispora and P. chrysosporium, respectively. In addition, the C. subvermispora genome contains at least seven genes predicted to encode laccases, whereas the P. chrysosporium genome contains none. We also observed expansion of the number of C. subvermispora desaturase-encoding genes putatively involved in lipid metabolism. Microarray-based transcriptome analysis showed substantial up-regulation of several desaturase and MnP genes in wood-containing medium. MS identified MnP proteins in C. subvermispora culture filtrates, but none in P. chrysosporium cultures. These results support the importance of MnP and a lignin degradation mechanism whereby cleavage of the dominant nonphenolic structures is mediated by lipid peroxidation products. Two C. subvermispora genes were predicted to encode peroxidases structurally similar to P. chrysosporium lignin peroxidase and, following heterologous expression in Escherichia coli, the enzymes were shown to oxidize high redox potential substrates, but not Mn2+. Apart from oxidative lignin degradation, we also examined cellulolytic and hemicellulolytic systems in both fungi. In summary, the C. subvermispora genetic inventory and expression patterns exhibit increased oxidoreductase potential and diminished cellulolytic capability relative to P. chrysosporium.
publishDate 2012
dc.date.none.fl_str_mv 2012
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 https://hdl.handle.net/2454/31886
url https://hdl.handle.net/2454/31886
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv info:eu-repo/grantAgreement/MICINN//BIO2011-26694
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/zip
dc.publisher.none.fl_str_mv National Academy of Sciences
publisher.none.fl_str_mv National Academy of Sciences
dc.source.none.fl_str_mv reponame:Academica-e. Repositorio Institucional de la Universidad Pública de Navarra
instname:Universidad Pública de Navarra
instname_str Universidad Pública de Navarra
reponame_str Academica-e. Repositorio Institucional de la Universidad Pública de Navarra
collection Academica-e. Repositorio Institucional de la Universidad Pública de Navarra
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repository.mail.fl_str_mv
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