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Highly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungi

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dc.contributor.authorCastanera Andrés, Raúl
dc.contributor.authorPérez Garrido, María Gumersinda
dc.contributor.authorLópez Varas, Leticia
dc.contributor.authorSancho, Rubénes_ES
dc.contributor.authorSantoyo Santos, Francisco
dc.contributor.authorAlfaro Sánchez, Manuel
dc.contributor.authorGabaldón Estevan, Juan Antonioes_ES
dc.contributor.authorPisabarro de Lucas, Gerardo
dc.contributor.authorOguiza Tomé, José Antonio
dc.contributor.authorRamírez Nasto, Lucía
dc.contributor.departmentProducción Agrariaes_ES
dc.contributor.departmentNekazaritza Ekoizpenaeu
dc.contributor.funderUniversidad Pública de Navarra / Nafarroako Unibertsitate Publikoa
dc.date.accessioned2015-09-25T06:16:04Z
dc.date.available2015-09-25T06:16:04Z
dc.date.issued2014
dc.descriptionIncluye 8 ficheros de datoses_ES
dc.description.abstractBackground: Helitrons are class-II eukaryotic transposons that transpose via a rolling circle mechanism. Due to their ability to capture and mobilize gene fragments, they play an important role in the evolution of their host genomes. We have used a bioinformatics approach for the identification of helitrons in two Pleurotus ostreatus genomes using de novo detection and homology-based searching. We have analyzed the presence of helitron-captured genes as well as the expansion of helitron-specific helicases in fungi and performed a phylogenetic analysis of their conserved domains with other representative eukaryotic species. Results: Our results show the presence of two helitron families in P. ostreatus that disrupt gene colinearity and cause a lack of synteny between their genomes. Both putative autonomous and non-autonomous helitrons were transcriptionally active, and some of them carried highly expressed captured genes of unknown origin and function. In addition, both families contained eukaryotic, bacterial and viral domains within the helitron’s boundaries. A phylogenetic reconstruction of RepHel helicases using the Helitron-like and PIF1-like helicase conserved domains revealed a polyphyletic origin for eukaryotic helitrons. Conclusion: P. ostreatus helitrons display features similar to other eukaryotic helitrons and do not tend to capture host genes or gene fragments. The occurrence of genes probably captured from other hosts inside the helitrons boundaries pose the hypothesis that an ancient horizontal transfer mechanism could have taken place. The viral domains found in some of these genes and the polyphyletic origin of RepHel helicases in the eukaryotic kingdom suggests that virus could have played a role in a putative lateral transfer of helitrons within the eukaryotic kingdom. The high similarity of some helitrons, along with the transcriptional activity of its RepHel helicases indicates that these elements are still active in the genome of P. ostreatus.en
dc.description.sponsorshipThis work was supported by funds from the AGL2011-30495 project of the Spanish National Research Plan and by additional institutional support from the Public University of Navarre.en
dc.format.mimetypeapplication/pdfen
dc.identifier.doi10.1186/1471-2164-15-1071
dc.identifier.issn1471-2164 (electronic)
dc.identifier.urihttps://academica-e.unavarra.es/handle/2454/18266
dc.language.isoengen
dc.publisherBioMed Centralen
dc.relation.ispartofBMC Genomics 2014, 15:1071en
dc.relation.projectIDinfo:eu-repo/grantAgreement/MICINN//AGL2011-30495/ES/en
dc.relation.publisherversionhttps://dx.doi.org/10.1186/1471-2164-15-1071
dc.rights© 2014 Castanera et al.; licensee BioMed Central. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.en
dc.rights.accessRightsinfo:eu-repo/semantics/openAccessen
dc.rights.accessRightsAcceso abierto / Sarbide irekiaes
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.rights.urihttp://creativecommons.org/publicdomain/zero/1.0/
dc.subjectHelitronen
dc.subjectTransposable elementen
dc.subjectGene expressionen
dc.subjectGene captureen
dc.subjectPleurotus ostreatusen
dc.subjectHelicaseen
dc.subjectBasidiomyceteen
dc.subjectGenome structureen
dc.titleHighly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungien
dc.typeinfo:eu-repo/semantics/articleen
dc.typeArtículo / Artikuluaes
dc.type.versioninfo:eu-repo/semantics/publishedVersionen
dc.type.versionVersión publicada / Argitaratu den bertsioaes
dspace.entity.typePublication
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relation.isAuthorOfPublication.latestForDiscovery37776e2e-4a19-49fa-86d2-8691c240f2ad

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