Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis

Autores
Schor, Ignacio Esteban; Bussotti, Giovanni; Maleš, Matilda; Forneris, Mattia; Viales, Rebecca R.; Enright, Anton J.; Furlong, Eileen E. M.
Año de publicación
2018
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles.
Fil: Schor, Ignacio Esteban. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina. European Molecular Biology Laboratory; Alemania
Fil: Bussotti, Giovanni. European Bioinformatics Institute; Reino Unido
Fil: Maleš, Matilda. European Molecular Biology Laboratory; Alemania
Fil: Forneris, Mattia. European Molecular Biology Laboratory; Alemania
Fil: Viales, Rebecca R.. European Molecular Biology Laboratory; Alemania
Fil: Enright, Anton J.. European Bioinformatics Institute; Reino Unido
Fil: Furlong, Eileen E. M.. European Molecular Biology Laboratory; Alemania
Materia
BYSTANDER EXPRESSION
EMBRYONIC DEVELOPMENT
GENETIC VARIATION
LNCRNA
NON-CODING RNA
NON-ESSENTIAL GENES
TRANSCRIPTION
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:11336/88518
Acceder
id CONICETDig_8fab20124c0b3bf3a900908f22dc48d3
oai_identifier_str oai:ri.conicet.gov.ar:11336/88518
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Non-coding RNA Expression, Function, and Variation during Drosophila EmbryogenesisSchor, Ignacio EstebanBussotti, GiovanniMaleš, MatildaForneris, MattiaViales, Rebecca R.Enright, Anton J.Furlong, Eileen E. M.BYSTANDER EXPRESSIONEMBRYONIC DEVELOPMENTGENETIC VARIATIONLNCRNANON-CODING RNANON-ESSENTIAL GENESTRANSCRIPTIONhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1https://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles.Fil: Schor, Ignacio Esteban. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina. European Molecular Biology Laboratory; AlemaniaFil: Bussotti, Giovanni. European Bioinformatics Institute; Reino UnidoFil: Maleš, Matilda. European Molecular Biology Laboratory; AlemaniaFil: Forneris, Mattia. European Molecular Biology Laboratory; AlemaniaFil: Viales, Rebecca R.. European Molecular Biology Laboratory; AlemaniaFil: Enright, Anton J.. European Bioinformatics Institute; Reino UnidoFil: Furlong, Eileen E. M.. European Molecular Biology Laboratory; AlemaniaCell Press2018-11info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/88518Schor, Ignacio Esteban; Bussotti, Giovanni; Maleš, Matilda; Forneris, Mattia; Viales, Rebecca R.; et al.; Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis; Cell Press; Current Biology; 28; 22; 11-2018; 3547-3561.e90960-9822CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1016/j.cub.2018.09.026info:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S0960982218312211info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:06:17Zoai:ri.conicet.gov.ar:11336/88518instacron: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 10:06:17.859CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
spellingShingle Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
Schor, Ignacio Esteban
BYSTANDER EXPRESSION
EMBRYONIC DEVELOPMENT
GENETIC VARIATION
LNCRNA
NON-CODING RNA
NON-ESSENTIAL GENES
TRANSCRIPTION
title_short Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_full Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_fullStr Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_full_unstemmed Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
title_sort Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis
dc.creator.none.fl_str_mv Schor, Ignacio Esteban
Bussotti, Giovanni
Maleš, Matilda
Forneris, Mattia
Viales, Rebecca R.
Enright, Anton J.
Furlong, Eileen E. M.
author Schor, Ignacio Esteban
author_facet Schor, Ignacio Esteban
Bussotti, Giovanni
Maleš, Matilda
Forneris, Mattia
Viales, Rebecca R.
Enright, Anton J.
Furlong, Eileen E. M.
author_role author
author2 Bussotti, Giovanni
Maleš, Matilda
Forneris, Mattia
Viales, Rebecca R.
Enright, Anton J.
Furlong, Eileen E. M.
author2_role author
author
author
author
author
author
dc.subject.none.fl_str_mv BYSTANDER EXPRESSION
EMBRYONIC DEVELOPMENT
GENETIC VARIATION
LNCRNA
NON-CODING RNA
NON-ESSENTIAL GENES
TRANSCRIPTION
topic BYSTANDER EXPRESSION
EMBRYONIC DEVELOPMENT
GENETIC VARIATION
LNCRNA
NON-CODING RNA
NON-ESSENTIAL GENES
TRANSCRIPTION
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles.
Fil: Schor, Ignacio Esteban. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina. European Molecular Biology Laboratory; Alemania
Fil: Bussotti, Giovanni. European Bioinformatics Institute; Reino Unido
Fil: Maleš, Matilda. European Molecular Biology Laboratory; Alemania
Fil: Forneris, Mattia. European Molecular Biology Laboratory; Alemania
Fil: Viales, Rebecca R.. European Molecular Biology Laboratory; Alemania
Fil: Enright, Anton J.. European Bioinformatics Institute; Reino Unido
Fil: Furlong, Eileen E. M.. European Molecular Biology Laboratory; Alemania
description Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles.
publishDate 2018
dc.date.none.fl_str_mv 2018-11
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/11336/88518
Schor, Ignacio Esteban; Bussotti, Giovanni; Maleš, Matilda; Forneris, Mattia; Viales, Rebecca R.; et al.; Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis; Cell Press; Current Biology; 28; 22; 11-2018; 3547-3561.e9
0960-9822
CONICET Digital
CONICET
url http://hdl.handle.net/11336/88518
identifier_str_mv Schor, Ignacio Esteban; Bussotti, Giovanni; Maleš, Matilda; Forneris, Mattia; Viales, Rebecca R.; et al.; Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis; Cell Press; Current Biology; 28; 22; 11-2018; 3547-3561.e9
0960-9822
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1016/j.cub.2018.09.026
info:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S0960982218312211
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 Cell Press
publisher.none.fl_str_mv Cell Press
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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