The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq

Rastrojo et al.: The transcriptome of Leishmania major in the axenic promastigote stage: transcript annotation and relative expression levels by RNA-seq. BMC Genomics 2013 14:223. The electronic version of this article is the complete one and can be found online at http://www.biomedcentral.com/1471-...

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Detalles Bibliográficos
Autores: Rastrojo Lastras, Alberto, Carrasco Ramiro, Fernando, Martín, Diana S., Crespillo, Antonio Jesús, Reguera, Rosa M., Aguado, Begoña, Requena Rolania, José María
Tipo de recurso: artículo
Fecha de publicación:2013
País:España
Institución:Universidad Autónoma de Madrid
Repositorio:Biblos-e Archivo. Repositorio Institucional de la UAM
Idioma:inglés
OAI Identifier:oai:repositorio.uam.es:10486/12967
Acceso en línea:http://hdl.handle.net/10486/12967
https://dx.doi.org/10.1186/1471-2164-14-223
Access Level:acceso abierto
Palabra clave:Biología y Biomedicina
Gene Expression
RNA-seq
Transcript annotation
mRNAs
Leishmania
Trypanosomatids
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spelling The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seqRastrojo Lastras, AlbertoCarrasco Ramiro, FernandoMartín, Diana S.Crespillo, Antonio JesúsReguera, Rosa M.Aguado, BegoñaRequena Rolania, José MaríaBiología y BiomedicinaGene ExpressionRNA-seqTranscript annotationmRNAsLeishmaniaTrypanosomatidsRastrojo et al.: The transcriptome of Leishmania major in the axenic promastigote stage: transcript annotation and relative expression levels by RNA-seq. BMC Genomics 2013 14:223. The electronic version of this article is the complete one and can be found online at http://www.biomedcentral.com/1471-2164/14/223Although the genome sequence of the protozoan parasite Leishmania major was determined several years ago, the knowledge of its transcriptome was incomplete, both regarding the real number of genes and their primary structure.Results: Here, we describe the first comprehensive transcriptome analysis of a parasite from the genus Leishmania. Using high-throughput RNA sequencing (RNA-seq), a total of 10285 transcripts were identified, of which 1884 were considered novel, as they did not match previously annotated genes. In addition, our data indicate that current annotations should be modified for many of the genes. The detailed analysis of the transcript processing sites revealed extensive heterogeneity in the spliced leader (SL) and polyadenylation addition sites. As a result, around 50% of the genes presented multiple transcripts differing in the length of the UTRs, sometimes in the order of hundreds of nucleotides. This transcript heterogeneity could provide an additional source for regulation as the different sizes of UTRs could modify RNA stability and/or influence the efficiency of RNA translation. In addition, for the first time for the Leishmania major promastigote stage, we are providing relative expression transcript levels.Conclusions: This study provides a concise view of the global transcriptome of the L. major promastigote stage, providing the basis for future comparative analysis with other development stages or other Leishmania speciesThis work was funded by Ministerio de Ciencia y Tecnología [BFU2009-08986 to J.M.R., BFU 2008-03126 to B.A.],Comunidad Autónoma de Madrid (S2010/BMD-2361 to J.M.R.), and the Fondo de Investigaciones Sanitarias [ISCIII-RETIC RD06/0021/0008-FEDER to J. M.R. and R.M.R]. A.R. holded a postgraduate fellowship (FPU) from the Ministerio de Educación y Ciencia. Also, an institutional grant from Fundación Ramón Areces is acknowledgedBioMed CentralDepartamento de Biología MolecularFacultad de Ciencias20132013-01-01research articlehttp://purl.org/coar/resource_type/c_2df8fbb1VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10486/12967https://dx.doi.org/10.1186/1471-2164-14-223reponame:Biblos-e Archivo. Repositorio Institucional de la UAMinstname:Universidad Autónoma de MadridInglésengopen accesshttp://purl.org/coar/access_right/c_abf2info:eu-repo/semantics/openAccessoai:repositorio.uam.es:10486/129672026-06-23T12:46:27Z
dc.title.none.fl_str_mv The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
title The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
spellingShingle The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
Rastrojo Lastras, Alberto
Biología y Biomedicina
Gene Expression
RNA-seq
Transcript annotation
mRNAs
Leishmania
Trypanosomatids
title_short The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
title_full The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
title_fullStr The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
title_full_unstemmed The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
title_sort The transcriptome of Leishmania major in theaxenic promastigote stage: transcript annotationand relative expression levels by RNA-seq
dc.creator.none.fl_str_mv Rastrojo Lastras, Alberto
Carrasco Ramiro, Fernando
Martín, Diana S.
Crespillo, Antonio Jesús
Reguera, Rosa M.
Aguado, Begoña
Requena Rolania, José María
author Rastrojo Lastras, Alberto
author_facet Rastrojo Lastras, Alberto
Carrasco Ramiro, Fernando
Martín, Diana S.
Crespillo, Antonio Jesús
Reguera, Rosa M.
Aguado, Begoña
Requena Rolania, José María
author_role author
author2 Carrasco Ramiro, Fernando
Martín, Diana S.
Crespillo, Antonio Jesús
Reguera, Rosa M.
Aguado, Begoña
Requena Rolania, José María
author2_role author
author
author
author
author
author
dc.contributor.none.fl_str_mv Departamento de Biología Molecular
Facultad de Ciencias
dc.subject.none.fl_str_mv Biología y Biomedicina
Gene Expression
RNA-seq
Transcript annotation
mRNAs
Leishmania
Trypanosomatids
topic Biología y Biomedicina
Gene Expression
RNA-seq
Transcript annotation
mRNAs
Leishmania
Trypanosomatids
description Rastrojo et al.: The transcriptome of Leishmania major in the axenic promastigote stage: transcript annotation and relative expression levels by RNA-seq. BMC Genomics 2013 14:223. The electronic version of this article is the complete one and can be found online at http://www.biomedcentral.com/1471-2164/14/223
publishDate 2013
dc.date.none.fl_str_mv 2013
2013-01-01
dc.type.none.fl_str_mv research article
http://purl.org/coar/resource_type/c_2df8fbb1
VoR
http://purl.org/coar/version/c_970fb48d4fbd8a85
dc.type.openaire.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv http://hdl.handle.net/10486/12967
https://dx.doi.org/10.1186/1471-2164-14-223
url http://hdl.handle.net/10486/12967
https://dx.doi.org/10.1186/1471-2164-14-223
dc.language.none.fl_str_mv Inglés
eng
language_invalid_str_mv Inglés
language eng
dc.rights.none.fl_str_mv open access
http://purl.org/coar/access_right/c_abf2
dc.rights.openaire.fl_str_mv info:eu-repo/semantics/openAccess
rights_invalid_str_mv open access
http://purl.org/coar/access_right/c_abf2
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv BioMed Central
publisher.none.fl_str_mv BioMed Central
dc.source.none.fl_str_mv reponame:Biblos-e Archivo. Repositorio Institucional de la UAM
instname:Universidad Autónoma de Madrid
instname_str Universidad Autónoma de Madrid
reponame_str Biblos-e Archivo. Repositorio Institucional de la UAM
collection Biblos-e Archivo. Repositorio Institucional de la UAM
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,228081

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