Diversity of small RNAs expressed in Pseudomonas species

Autores
Gómez Lozano, María; Marvig, Rasmus L.; Molina Santiago, Carlos; Tribelli, Paula Maria; Ramos, Juan Luis; Molin, Søren
Año de publicación
2015
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
RNA sequencing (RNA-seq) has revealed several hundreds of previously undetected small RNAs (sRNAs) in all bacterial species investigated, including strains of Pseudomonas aeruginosa, Pseudomonas putida and Pseudomonas syringae. Nonetheless, only little is known about the extent of conservation of expressed sRNAs across strains and species. In this study, we have used RNA-seq to identify sRNAs in P.putidaDOT-T1E and Pseudomonas extremaustralis 14-3b. This is the first strain of P.extremaustralis and the second strain of P.putida to have their transcriptomes analysed for sRNAs, and we identify the presence of around 150 novel sRNAs in each strain. Furthermore, we provide a comparison based on sequence conservation of all the sRNAs detected by RNA-seq in the Pseudomonas species investigated so far. Our results show that the extent of sRNA conservation across different species is very limited. In addition, when comparing the sRNAs expressed in different strains of the same species, we observe that numerous sRNAs exhibit a strain-specific expression pattern. These results support the idea that the evolution of most bacterial sRNAs is rapid, which limits the extent of both interspecies and intraspecies conservation.
Fil: Gómez Lozano, María. Technical University of Denmark,; Dinamarca
Fil: Marvig, Rasmus L.. Technical University of Denmark,; Dinamarca
Fil: Molina Santiago, Carlos. Consejo Superior de Investigaciones Científicas; España
Fil: Tribelli, Paula Maria. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Química Biológica; Argentina
Fil: Ramos, Juan Luis. Abengoa Research; España
Fil: Molin, Søren. Technical University of Denmark,; Dinamarca
Materia
Pseudomonas
Small Rna
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/84361
Acceder
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spelling Diversity of small RNAs expressed in Pseudomonas speciesGómez Lozano, MaríaMarvig, Rasmus L.Molina Santiago, CarlosTribelli, Paula MariaRamos, Juan LuisMolin, SørenPseudomonasSmall Rnahttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1RNA sequencing (RNA-seq) has revealed several hundreds of previously undetected small RNAs (sRNAs) in all bacterial species investigated, including strains of Pseudomonas aeruginosa, Pseudomonas putida and Pseudomonas syringae. Nonetheless, only little is known about the extent of conservation of expressed sRNAs across strains and species. In this study, we have used RNA-seq to identify sRNAs in P.putidaDOT-T1E and Pseudomonas extremaustralis 14-3b. This is the first strain of P.extremaustralis and the second strain of P.putida to have their transcriptomes analysed for sRNAs, and we identify the presence of around 150 novel sRNAs in each strain. Furthermore, we provide a comparison based on sequence conservation of all the sRNAs detected by RNA-seq in the Pseudomonas species investigated so far. Our results show that the extent of sRNA conservation across different species is very limited. In addition, when comparing the sRNAs expressed in different strains of the same species, we observe that numerous sRNAs exhibit a strain-specific expression pattern. These results support the idea that the evolution of most bacterial sRNAs is rapid, which limits the extent of both interspecies and intraspecies conservation.Fil: Gómez Lozano, María. Technical University of Denmark,; DinamarcaFil: Marvig, Rasmus L.. Technical University of Denmark,; DinamarcaFil: Molina Santiago, Carlos. Consejo Superior de Investigaciones Científicas; EspañaFil: Tribelli, Paula Maria. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Química Biológica; ArgentinaFil: Ramos, Juan Luis. Abengoa Research; EspañaFil: Molin, Søren. Technical University of Denmark,; DinamarcaWiley2015-04info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/84361Gómez Lozano, María; Marvig, Rasmus L.; Molina Santiago, Carlos; Tribelli, Paula Maria; Ramos, Juan Luis; et al.; Diversity of small RNAs expressed in Pseudomonas species; Wiley; Environmental Microbiology Reports; 7; 2; 4-2015; 227-2361758-2229CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1111/1758-2229.12233info:eu-repo/semantics/altIdentifier/url/https://onlinelibrary.wiley.com/doi/abs/10.1111/1758-2229.12233info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2026-02-26T10:04:14Zoai:ri.conicet.gov.ar:11336/84361instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982026-02-26 10:04:15.182CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Diversity of small RNAs expressed in Pseudomonas species
title Diversity of small RNAs expressed in Pseudomonas species
spellingShingle Diversity of small RNAs expressed in Pseudomonas species
Gómez Lozano, María
Pseudomonas
Small Rna
title_short Diversity of small RNAs expressed in Pseudomonas species
title_full Diversity of small RNAs expressed in Pseudomonas species
title_fullStr Diversity of small RNAs expressed in Pseudomonas species
title_full_unstemmed Diversity of small RNAs expressed in Pseudomonas species
title_sort Diversity of small RNAs expressed in Pseudomonas species
dc.creator.none.fl_str_mv Gómez Lozano, María
Marvig, Rasmus L.
Molina Santiago, Carlos
Tribelli, Paula Maria
Ramos, Juan Luis
Molin, Søren
author Gómez Lozano, María
author_facet Gómez Lozano, María
Marvig, Rasmus L.
Molina Santiago, Carlos
Tribelli, Paula Maria
Ramos, Juan Luis
Molin, Søren
author_role author
author2 Marvig, Rasmus L.
Molina Santiago, Carlos
Tribelli, Paula Maria
Ramos, Juan Luis
Molin, Søren
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv Pseudomonas
Small Rna
topic Pseudomonas
Small Rna
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv RNA sequencing (RNA-seq) has revealed several hundreds of previously undetected small RNAs (sRNAs) in all bacterial species investigated, including strains of Pseudomonas aeruginosa, Pseudomonas putida and Pseudomonas syringae. Nonetheless, only little is known about the extent of conservation of expressed sRNAs across strains and species. In this study, we have used RNA-seq to identify sRNAs in P.putidaDOT-T1E and Pseudomonas extremaustralis 14-3b. This is the first strain of P.extremaustralis and the second strain of P.putida to have their transcriptomes analysed for sRNAs, and we identify the presence of around 150 novel sRNAs in each strain. Furthermore, we provide a comparison based on sequence conservation of all the sRNAs detected by RNA-seq in the Pseudomonas species investigated so far. Our results show that the extent of sRNA conservation across different species is very limited. In addition, when comparing the sRNAs expressed in different strains of the same species, we observe that numerous sRNAs exhibit a strain-specific expression pattern. These results support the idea that the evolution of most bacterial sRNAs is rapid, which limits the extent of both interspecies and intraspecies conservation.
Fil: Gómez Lozano, María. Technical University of Denmark,; Dinamarca
Fil: Marvig, Rasmus L.. Technical University of Denmark,; Dinamarca
Fil: Molina Santiago, Carlos. Consejo Superior de Investigaciones Científicas; España
Fil: Tribelli, Paula Maria. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Química Biológica; Argentina
Fil: Ramos, Juan Luis. Abengoa Research; España
Fil: Molin, Søren. Technical University of Denmark,; Dinamarca
description RNA sequencing (RNA-seq) has revealed several hundreds of previously undetected small RNAs (sRNAs) in all bacterial species investigated, including strains of Pseudomonas aeruginosa, Pseudomonas putida and Pseudomonas syringae. Nonetheless, only little is known about the extent of conservation of expressed sRNAs across strains and species. In this study, we have used RNA-seq to identify sRNAs in P.putidaDOT-T1E and Pseudomonas extremaustralis 14-3b. This is the first strain of P.extremaustralis and the second strain of P.putida to have their transcriptomes analysed for sRNAs, and we identify the presence of around 150 novel sRNAs in each strain. Furthermore, we provide a comparison based on sequence conservation of all the sRNAs detected by RNA-seq in the Pseudomonas species investigated so far. Our results show that the extent of sRNA conservation across different species is very limited. In addition, when comparing the sRNAs expressed in different strains of the same species, we observe that numerous sRNAs exhibit a strain-specific expression pattern. These results support the idea that the evolution of most bacterial sRNAs is rapid, which limits the extent of both interspecies and intraspecies conservation.
publishDate 2015
dc.date.none.fl_str_mv 2015-04
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/84361
Gómez Lozano, María; Marvig, Rasmus L.; Molina Santiago, Carlos; Tribelli, Paula Maria; Ramos, Juan Luis; et al.; Diversity of small RNAs expressed in Pseudomonas species; Wiley; Environmental Microbiology Reports; 7; 2; 4-2015; 227-236
1758-2229
CONICET Digital
CONICET
url http://hdl.handle.net/11336/84361
identifier_str_mv Gómez Lozano, María; Marvig, Rasmus L.; Molina Santiago, Carlos; Tribelli, Paula Maria; Ramos, Juan Luis; et al.; Diversity of small RNAs expressed in Pseudomonas species; Wiley; Environmental Microbiology Reports; 7; 2; 4-2015; 227-236
1758-2229
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1111/1758-2229.12233
info:eu-repo/semantics/altIdentifier/url/https://onlinelibrary.wiley.com/doi/abs/10.1111/1758-2229.12233
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Wiley
publisher.none.fl_str_mv Wiley
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.176822

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