The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors

Autores
Rigo, Richard; Bazin, Jérémie; Romero Barrios, Natali; Moison, Michael; Lucero, Leandro Exequiel; Christ, Aurelie; Benhamed, Moussa; Blein, Thomas; Huguet, Stephanie; Charon, Celine; Crespi, Martin; Ariel, Federico Damian
Año de publicación
2020
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Alternative splicing (AS) is a major source of transcriptome diversity. Long noncoding RNAs (lncRNAs) have emerged as regulators of AS through different molecular mechanisms. In Arabidopsis thaliana, the AS regulators NSRs interact with the ALTERNATIVE SPLICING COMPETITOR (ASCO) lncRNA. Here, we analyze the effect of the knock-down and overexpression of ASCO at the genome-wide level and find a large number of deregulated and differentially spliced genes related to flagellin responses and biotic stress. In agreement, ASCO-silenced plants are more sensitive to flagellin. However, only a minor subset of deregulated genes overlaps with the AS defects of the nsra/b double mutant, suggesting an alternative way of action for ASCO. Using biotin-labeled oligonucleotides for RNA-mediated ribonucleoprotein purification, we show that ASCO binds to the highly conserved spliceosome component PRP8a. ASCO overaccumulation impairs the recognition of specific flagellin-related transcripts by PRP8a. We further show that ASCO also binds to another spliceosome component, SmD1b, indicating that it interacts with multiple splicing factors. Hence, lncRNAs may integrate a dynamic network including spliceosome core proteins, to modulate transcriptome reprogramming in eukaryotes.
Fil: Rigo, Richard. Centre National de la Recherche Scientifique; Francia
Fil: Bazin, Jérémie. Centre National de la Recherche Scientifique; Francia
Fil: Romero Barrios, Natali. Centre National de la Recherche Scientifique; Francia
Fil: Moison, Michael. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Lucero, Leandro Exequiel. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Christ, Aurelie. Centre National de la Recherche Scientifique; Francia
Fil: Benhamed, Moussa. Centre National de la Recherche Scientifique; Francia
Fil: Blein, Thomas. Centre National de la Recherche Scientifique; Francia
Fil: Huguet, Stephanie. Centre National de la Recherche Scientifique; Francia
Fil: Charon, Celine. Centre National de la Recherche Scientifique; Francia
Fil: Crespi, Martin. Centre National de la Recherche Scientifique; Francia
Fil: Ariel, Federico Damian. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Materia
CORE SPLICING FACTORS
FLAGELLIN
LONG NONCODING RNA
PRP8A
SMD1B
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:11336/145305
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/145305
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factorsRigo, RichardBazin, JérémieRomero Barrios, NataliMoison, MichaelLucero, Leandro ExequielChrist, AurelieBenhamed, MoussaBlein, ThomasHuguet, StephanieCharon, CelineCrespi, MartinAriel, Federico DamianCORE SPLICING FACTORSFLAGELLINLONG NONCODING RNAPRP8ASMD1Bhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Alternative splicing (AS) is a major source of transcriptome diversity. Long noncoding RNAs (lncRNAs) have emerged as regulators of AS through different molecular mechanisms. In Arabidopsis thaliana, the AS regulators NSRs interact with the ALTERNATIVE SPLICING COMPETITOR (ASCO) lncRNA. Here, we analyze the effect of the knock-down and overexpression of ASCO at the genome-wide level and find a large number of deregulated and differentially spliced genes related to flagellin responses and biotic stress. In agreement, ASCO-silenced plants are more sensitive to flagellin. However, only a minor subset of deregulated genes overlaps with the AS defects of the nsra/b double mutant, suggesting an alternative way of action for ASCO. Using biotin-labeled oligonucleotides for RNA-mediated ribonucleoprotein purification, we show that ASCO binds to the highly conserved spliceosome component PRP8a. ASCO overaccumulation impairs the recognition of specific flagellin-related transcripts by PRP8a. We further show that ASCO also binds to another spliceosome component, SmD1b, indicating that it interacts with multiple splicing factors. Hence, lncRNAs may integrate a dynamic network including spliceosome core proteins, to modulate transcriptome reprogramming in eukaryotes.Fil: Rigo, Richard. Centre National de la Recherche Scientifique; FranciaFil: Bazin, Jérémie. Centre National de la Recherche Scientifique; FranciaFil: Romero Barrios, Natali. Centre National de la Recherche Scientifique; FranciaFil: Moison, Michael. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; ArgentinaFil: Lucero, Leandro Exequiel. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; ArgentinaFil: Christ, Aurelie. Centre National de la Recherche Scientifique; FranciaFil: Benhamed, Moussa. Centre National de la Recherche Scientifique; FranciaFil: Blein, Thomas. Centre National de la Recherche Scientifique; FranciaFil: Huguet, Stephanie. Centre National de la Recherche Scientifique; FranciaFil: Charon, Celine. Centre National de la Recherche Scientifique; FranciaFil: Crespi, Martin. Centre National de la Recherche Scientifique; FranciaFil: Ariel, Federico Damian. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; ArgentinaNature Publishing Group2020-04info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/145305Rigo, Richard; Bazin, Jérémie; Romero Barrios, Natali; Moison, Michael; Lucero, Leandro Exequiel; et al.; The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors; Nature Publishing Group; Embo Reports; 21; 5; 4-2020; 1-191469-221XCONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.15252/embr.201948977info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:30:09Zoai:ri.conicet.gov.ar:11336/145305instacron: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:34982025-09-29 10:30:09.706CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
title The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
spellingShingle The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
Rigo, Richard
CORE SPLICING FACTORS
FLAGELLIN
LONG NONCODING RNA
PRP8A
SMD1B
title_short The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
title_full The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
title_fullStr The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
title_full_unstemmed The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
title_sort The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors
dc.creator.none.fl_str_mv Rigo, Richard
Bazin, Jérémie
Romero Barrios, Natali
Moison, Michael
Lucero, Leandro Exequiel
Christ, Aurelie
Benhamed, Moussa
Blein, Thomas
Huguet, Stephanie
Charon, Celine
Crespi, Martin
Ariel, Federico Damian
author Rigo, Richard
author_facet Rigo, Richard
Bazin, Jérémie
Romero Barrios, Natali
Moison, Michael
Lucero, Leandro Exequiel
Christ, Aurelie
Benhamed, Moussa
Blein, Thomas
Huguet, Stephanie
Charon, Celine
Crespi, Martin
Ariel, Federico Damian
author_role author
author2 Bazin, Jérémie
Romero Barrios, Natali
Moison, Michael
Lucero, Leandro Exequiel
Christ, Aurelie
Benhamed, Moussa
Blein, Thomas
Huguet, Stephanie
Charon, Celine
Crespi, Martin
Ariel, Federico Damian
author2_role author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv CORE SPLICING FACTORS
FLAGELLIN
LONG NONCODING RNA
PRP8A
SMD1B
topic CORE SPLICING FACTORS
FLAGELLIN
LONG NONCODING RNA
PRP8A
SMD1B
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Alternative splicing (AS) is a major source of transcriptome diversity. Long noncoding RNAs (lncRNAs) have emerged as regulators of AS through different molecular mechanisms. In Arabidopsis thaliana, the AS regulators NSRs interact with the ALTERNATIVE SPLICING COMPETITOR (ASCO) lncRNA. Here, we analyze the effect of the knock-down and overexpression of ASCO at the genome-wide level and find a large number of deregulated and differentially spliced genes related to flagellin responses and biotic stress. In agreement, ASCO-silenced plants are more sensitive to flagellin. However, only a minor subset of deregulated genes overlaps with the AS defects of the nsra/b double mutant, suggesting an alternative way of action for ASCO. Using biotin-labeled oligonucleotides for RNA-mediated ribonucleoprotein purification, we show that ASCO binds to the highly conserved spliceosome component PRP8a. ASCO overaccumulation impairs the recognition of specific flagellin-related transcripts by PRP8a. We further show that ASCO also binds to another spliceosome component, SmD1b, indicating that it interacts with multiple splicing factors. Hence, lncRNAs may integrate a dynamic network including spliceosome core proteins, to modulate transcriptome reprogramming in eukaryotes.
Fil: Rigo, Richard. Centre National de la Recherche Scientifique; Francia
Fil: Bazin, Jérémie. Centre National de la Recherche Scientifique; Francia
Fil: Romero Barrios, Natali. Centre National de la Recherche Scientifique; Francia
Fil: Moison, Michael. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Lucero, Leandro Exequiel. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Christ, Aurelie. Centre National de la Recherche Scientifique; Francia
Fil: Benhamed, Moussa. Centre National de la Recherche Scientifique; Francia
Fil: Blein, Thomas. Centre National de la Recherche Scientifique; Francia
Fil: Huguet, Stephanie. Centre National de la Recherche Scientifique; Francia
Fil: Charon, Celine. Centre National de la Recherche Scientifique; Francia
Fil: Crespi, Martin. Centre National de la Recherche Scientifique; Francia
Fil: Ariel, Federico Damian. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
description Alternative splicing (AS) is a major source of transcriptome diversity. Long noncoding RNAs (lncRNAs) have emerged as regulators of AS through different molecular mechanisms. In Arabidopsis thaliana, the AS regulators NSRs interact with the ALTERNATIVE SPLICING COMPETITOR (ASCO) lncRNA. Here, we analyze the effect of the knock-down and overexpression of ASCO at the genome-wide level and find a large number of deregulated and differentially spliced genes related to flagellin responses and biotic stress. In agreement, ASCO-silenced plants are more sensitive to flagellin. However, only a minor subset of deregulated genes overlaps with the AS defects of the nsra/b double mutant, suggesting an alternative way of action for ASCO. Using biotin-labeled oligonucleotides for RNA-mediated ribonucleoprotein purification, we show that ASCO binds to the highly conserved spliceosome component PRP8a. ASCO overaccumulation impairs the recognition of specific flagellin-related transcripts by PRP8a. We further show that ASCO also binds to another spliceosome component, SmD1b, indicating that it interacts with multiple splicing factors. Hence, lncRNAs may integrate a dynamic network including spliceosome core proteins, to modulate transcriptome reprogramming in eukaryotes.
publishDate 2020
dc.date.none.fl_str_mv 2020-04
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/11336/145305
Rigo, Richard; Bazin, Jérémie; Romero Barrios, Natali; Moison, Michael; Lucero, Leandro Exequiel; et al.; The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors; Nature Publishing Group; Embo Reports; 21; 5; 4-2020; 1-19
1469-221X
CONICET Digital
CONICET
url http://hdl.handle.net/11336/145305
identifier_str_mv Rigo, Richard; Bazin, Jérémie; Romero Barrios, Natali; Moison, Michael; Lucero, Leandro Exequiel; et al.; The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors; Nature Publishing Group; Embo Reports; 21; 5; 4-2020; 1-19
1469-221X
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.15252/embr.201948977
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 Nature Publishing Group
publisher.none.fl_str_mv Nature Publishing Group
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 13.070432

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