A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages

16 páginas, 9 figuras, 9 tablas.

Detalles Bibliográficos
Autores: Pérez-Porro, Alicia R., Navarro-Gómez, D., Uriz, María Jesús, Giribet, Gonzalo
Tipo de recurso: artículo
Fecha de publicación:2013
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/72269
Acceso en línea:http://hdl.handle.net/10261/72269
Access Level:acceso abierto
Palabra clave:Poecilosclerida
Transcriptome characterization
Crella elegans
De novo assembly
Life cycle stages
Mediterranean sponge
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spelling A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stagesPérez-Porro, Alicia R.Navarro-Gómez, D.Uriz, María JesúsGiribet, GonzaloPoeciloscleridaTranscriptome characterizationCrella elegansDe novo assemblyLife cycle stagesMediterranean sponge16 páginas, 9 figuras, 9 tablas.Sponges can be dominant organisms in many marine and freshwater habitats where they play essential ecological roles. They also represent a key group to address important questions in early metazoan evolution. Recent approaches for improving knowledge on sponge biological and ecological functions as well as on animal evolution have focused on the genetic toolkits involved in ecological responses to environmental changes (biotic and abiotic), development and reproduction. These approaches are possible thanks to newly available, massive sequencing technologies– such as the Illumina platform, which facilitate genome and transcriptome sequencing in a cost-effective manner. Here we present the first NGS (next-generation sequencing) approach to understanding the life cycle of an encrusting marine sponge. For this we sequenced libraries of three different life cycle stages of the Mediterranean sponge Crella elegans and generated de novo transcriptome assemblies. Three assemblies were based on sponge tissue of a particular life cycle stage, including non-reproductive tissue, tissue with sperm cysts and tissue with larvae. The fourth assembly pooled the data from all three stages. By aggregating data from all the different life cycle stages we obtained a higher total number of contigs, contigs with BLAST hit and annotated contigs than from one stage-based assemblies. In that multi-stage assembly we obtained a larger number of the developmental regulatory genes known for metazoans than in any other assembly. We also advance the differential expression of selected genes in the three life cycle stages to explore the potential of RNA-seq for improving knowledge on functional processes along the sponge life cycle.A.R.P.-P. was supported by a FPI pre-doctoral Fellowship (BES-2008- 003009) from the Spanish Ministerio de Econom ıa y Competitividad project CTM2007-66635-C02-01 and a grant through the Benthomics (CTM2010-22218-C02-01) project to M.J.U. This work is based in part upon research funded by the US National Science Foundation under grants 0844881, 0732903 and 0531757 from the Assembling the Tree of Life and Phylogenetic Systematics programs to G.G. The Bauer Center for Genomics Research and the Harvard research Computing group made this research possible.Peer reviewedBlackwell Publishing201320132013info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501http://hdl.handle.net/10261/72269reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Ingléshttp://dx.doi.org/10.1111/1755-0998.12085info:eu-repo/semantics/openAccessoai:digital.csic.es:10261/722692026-05-22T06:33:51Z
dc.title.none.fl_str_mv A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
title A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
spellingShingle A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
Pérez-Porro, Alicia R.
Poecilosclerida
Transcriptome characterization
Crella elegans
De novo assembly
Life cycle stages
Mediterranean sponge
title_short A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
title_full A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
title_fullStr A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
title_full_unstemmed A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
title_sort A NGS approach to the encrusting Mediterranean sponge Crella elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome sequencing, characterization and overview of the gene expression along three life cycle stages
dc.creator.none.fl_str_mv Pérez-Porro, Alicia R.
Navarro-Gómez, D.
Uriz, María Jesús
Giribet, Gonzalo
author Pérez-Porro, Alicia R.
author_facet Pérez-Porro, Alicia R.
Navarro-Gómez, D.
Uriz, María Jesús
Giribet, Gonzalo
author_role author
author2 Navarro-Gómez, D.
Uriz, María Jesús
Giribet, Gonzalo
author2_role author
author
author
dc.subject.none.fl_str_mv Poecilosclerida
Transcriptome characterization
Crella elegans
De novo assembly
Life cycle stages
Mediterranean sponge
topic Poecilosclerida
Transcriptome characterization
Crella elegans
De novo assembly
Life cycle stages
Mediterranean sponge
description 16 páginas, 9 figuras, 9 tablas.
publishDate 2013
dc.date.none.fl_str_mv 2013
2013
2013
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
format article
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/72269
url http://hdl.handle.net/10261/72269
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv http://dx.doi.org/10.1111/1755-0998.12085
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Blackwell Publishing
publisher.none.fl_str_mv Blackwell Publishing
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
repository.name.fl_str_mv
repository.mail.fl_str_mv
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