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Transposable elements versus the fungal genome: impact on whole-genome architecture and transcriptional profiles
dc.creator | Castanera Andrés, Raúl | es_ES |
dc.creator | López Varas, Leticia | es_ES |
dc.creator | Borgognone, Alessandra | es_ES |
dc.creator | LaButti, Kurt | es_ES |
dc.creator | Lapidus, Alla | es_ES |
dc.creator | Schmutz, Jeremy | es_ES |
dc.creator | Grimwood, Jane | es_ES |
dc.creator | Pérez Garrido, María Gumersinda | es_ES |
dc.creator | Pisabarro de Lucas, Gerardo | es_ES |
dc.creator | Grigoriev, Igor V. | es_ES |
dc.creator | Stajich, Jason E. | es_ES |
dc.creator | Ramírez Nasto, Lucía | es_ES |
dc.date.accessioned | 2017-12-11T11:43:02Z | |
dc.date.available | 2017-12-11T11:43:02Z | |
dc.date.issued | 2016 | |
dc.identifier.issn | 1553-7390 (Print) | |
dc.identifier.issn | 1553-7404 (Electronic) | |
dc.identifier.uri | https://hdl.handle.net/2454/26508 | |
dc.description | Incluye 10 ficheros de datos | es_ES |
dc.description.abstract | Transposable elements (TEs) are exceptional contributors to eukaryotic genome diversity. Their ubiquitous presence impacts the genomes of nearly all species and mediates genome evolution by causing mutations and chromosomal rearrangements and by modulating gene expression. We performed an exhaustive analysis of the TE content in 18 fungal genomes, including strains of the same species and species of the same genera. Our results depicted a scenario of exceptional variability, with species having 0.02 to 29.8% of their genome consisting of transposable elements. A detailed analysis performed on two strains of Pleurotus ostreatus uncovered a genome that is populated mainly by Class I elements, especially LTR-retrotransposons amplified in recent bursts from 0 to 2 million years (My) ago. The preferential accumulation of TEs in clusters led to the presence of genomic regions that lacked intra- and inter-specific conservation. In addition, we investigated the effect of TE insertions on the expression of their nearby upstream and downstream genes. Our results showed that an important number of genes under TE influence are significantly repressed, with stronger repression when genes are localized within transposon clusters. Our transcriptional analysis performed in four additional fungal models revealed that this TE-mediated silencing was present only in species with active cytosine methylation machinery. We hypothesize that this phenomenon is related to epigenetic defense mechanisms that are aimed to suppress TE expression and control their proliferation. | en |
dc.description.sponsorship | This work was supported by Spanish National Research Plan (Projects AGL2011-30495 and AGL2014-55971-R) and FEDER funds; Public University of Navarre; U.S. Department of Energy Joint Genome Institute; and Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231. T | en |
dc.format.mimetype | application/pdf | en |
dc.format.mimetype | application/zip | en |
dc.language.iso | eng | en |
dc.publisher | Public Library of Science | en |
dc.relation.ispartof | PLoS Genetics 12(6):e1006108 | en |
dc.rights | This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication. | en |
dc.rights.uri | https://creativecommons.org/publicdomain/zero/1.0/ | |
dc.subject | Transposable elements | en |
dc.subject | Fungal genome | en |
dc.title | Transposable elements versus the fungal genome: impact on whole-genome architecture and transcriptional profiles | en |
dc.type | Artículo / Artikulua | es |
dc.type | info:eu-repo/semantics/article | en |
dc.contributor.department | Producción Agraria | es_ES |
dc.contributor.department | Nekazaritza Ekoizpena | eu |
dc.rights.accessRights | Acceso abierto / Sarbide irekia | es |
dc.rights.accessRights | info:eu-repo/semantics/openAccess | en |
dc.identifier.doi | 10.1371/journal.pgen.1006108 | |
dc.relation.projectID | info:eu-repo/grantAgreement/ES/6PN/AGL2011-300495 | en |
dc.relation.projectID | info:eu-repo/grantAgreement/MINECO//AGL2014-55971-R/ES/ | en |
dc.relation.publisherversion | https://doi.org/10.1371/journal.pgen.1006108 | |
dc.type.version | Versión publicada / Argitaratu den bertsioa | es |
dc.type.version | info:eu-repo/semantics/publishedVersion | en |
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