Identification of key sequence features required for microRNA biogenesis in plants

Rojas, Arantxa M. L.; Drusin, Salvador I.; Chorostecki, Uciel; Mateos, Julieta L.; Moro, Belén

Identification of key sequence features required for microRNA biogenesis in plants

MicroRNAs (miRNAs) are endogenous small RNAs of ∼21 nt that regulate multiple biological pathways in multicellular organisms. They derive from longer transcripts that harbor an imperfect stem-loop structure. In plants, the ribonuclease type III DICER-LIKE1 assisted by accessory proteins cleaves the...

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Autores:	Rojas, Arantxa M. L., Drusin, Salvador I., Chorostecki, Uciel, Mateos, Julieta L., Moro, Belén
Tipo de recurso:	artículo
Fecha de publicación:	2020
País:	España
Institución:	Universitat Politècnica de Catalunya (UPC)
Repositorio:	UPCommons. Portal del coneixement obert de la UPC
Idioma:	inglés
OAI Identifier:	oai:upcommons.upc.edu:2117/345927
Acceso en línea:	https://hdl.handle.net/2117/345927 https://dx.doi.org/10.1038/s41467-020-19129-6
Access Level:	acceso abierto
Palabra clave:	Biogenesis Gene expression MicroRNA Arabidopsis Non-coding RNAs Plant sciences Plant molecular biology RNAi Genètica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica

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spelling	Identification of key sequence features required for microRNA biogenesis in plantsRojas, Arantxa M. L.Drusin, Salvador I.Chorostecki, UcielMateos, Julieta L.Moro, BelénBiogenesisGene expressionMicroRNAArabidopsisNon-coding RNAsPlant sciencesPlant molecular biologyRNAiGenèticaÀrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::BioinformàticaMicroRNAs (miRNAs) are endogenous small RNAs of ∼21 nt that regulate multiple biological pathways in multicellular organisms. They derive from longer transcripts that harbor an imperfect stem-loop structure. In plants, the ribonuclease type III DICER-LIKE1 assisted by accessory proteins cleaves the precursor to release the mature miRNA. Numerous studies highlight the role of the precursor secondary structure during plant miRNA biogenesis; however, little is known about the relevance of the precursor sequence. Here, we analyzed the sequence composition of plant miRNA primary transcripts and found specifically located sequence biases. We show that changes in the identity of specific nucleotides can increase or abolish miRNA biogenesis. Most conspicuously, our analysis revealed that the identity of the nucleotides at unpaired positions of the precursor plays a crucial role during miRNA biogenesis in Arabidopsis.We thank Daniela Liebsch and members of the Palatnik lab for comments and discussion. We thank Silvana Spinelli and Ramiro Rodriguez for MIR164C and MIR397A vectors. Also, we thank the technical support received from Diego Aguirre. We thank different agencies for funding: Bunge and Born fellow (to U.C.) and CONICET fellows (to A.M.L.R., S.I.D., J.L.M., N.B., B.M., E.G.B.); and J.F.P., R.M.R., and D.M.M. are members of CONICET. Research was supported by grants from the Argentinean Ministry of Science (PICT-2015-3557) and International Centre for Genetic Engineering and Biotechnology (ICGEB CRP/ARG17-01).Peer Reviewed"Article signat per 11 autors/es: Arantxa M. L. Rojas, Salvador I. Drusin, Uciel Chorostecki, Julieta L. Mateos, Belén Moro, Nicolas G. Bologna, Edgardo G. Bresso, Arnaldo Schapire, Rodolfo M. Rasia, Diego M. Moreno & Javier F. Palatnik"Nature Research20202020-01-0120212021-05-19journal articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://hdl.handle.net/2117/345927https://dx.doi.org/10.1038/s41467-020-19129-6reponame:UPCommons. Portal del coneixement obert de la UPCinstname:Universitat Politècnica de Catalunya (UPC)Inglésengopen accesshttp://purl.org/coar/access_right/c_abf2Attribution 3.0 Spainhttp://creativecommons.org/licenses/by/3.0/es/Attribution 3.0 Spainhttps://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:upcommons.upc.edu:2117/3459272026-05-27T15:37:01Z
dc.title.none.fl_str_mv	Identification of key sequence features required for microRNA biogenesis in plants
title	Identification of key sequence features required for microRNA biogenesis in plants
spellingShingle	Identification of key sequence features required for microRNA biogenesis in plants Rojas, Arantxa M. L. Biogenesis Gene expression MicroRNA Arabidopsis Non-coding RNAs Plant sciences Plant molecular biology RNAi Genètica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica
title_short	Identification of key sequence features required for microRNA biogenesis in plants
title_full	Identification of key sequence features required for microRNA biogenesis in plants
title_fullStr	Identification of key sequence features required for microRNA biogenesis in plants
title_full_unstemmed	Identification of key sequence features required for microRNA biogenesis in plants
title_sort	Identification of key sequence features required for microRNA biogenesis in plants
dc.creator.none.fl_str_mv	Rojas, Arantxa M. L. Drusin, Salvador I. Chorostecki, Uciel Mateos, Julieta L. Moro, Belén
author	Rojas, Arantxa M. L.
author_facet	Rojas, Arantxa M. L. Drusin, Salvador I. Chorostecki, Uciel Mateos, Julieta L. Moro, Belén
author_role	author
author2	Drusin, Salvador I. Chorostecki, Uciel Mateos, Julieta L. Moro, Belén
author2_role	author author author author
dc.subject.none.fl_str_mv	Biogenesis Gene expression MicroRNA Arabidopsis Non-coding RNAs Plant sciences Plant molecular biology RNAi Genètica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica
topic	Biogenesis Gene expression MicroRNA Arabidopsis Non-coding RNAs Plant sciences Plant molecular biology RNAi Genètica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica
description	MicroRNAs (miRNAs) are endogenous small RNAs of ∼21 nt that regulate multiple biological pathways in multicellular organisms. They derive from longer transcripts that harbor an imperfect stem-loop structure. In plants, the ribonuclease type III DICER-LIKE1 assisted by accessory proteins cleaves the precursor to release the mature miRNA. Numerous studies highlight the role of the precursor secondary structure during plant miRNA biogenesis; however, little is known about the relevance of the precursor sequence. Here, we analyzed the sequence composition of plant miRNA primary transcripts and found specifically located sequence biases. We show that changes in the identity of specific nucleotides can increase or abolish miRNA biogenesis. Most conspicuously, our analysis revealed that the identity of the nucleotides at unpaired positions of the precursor plays a crucial role during miRNA biogenesis in Arabidopsis.
publishDate	2020
dc.date.none.fl_str_mv	2020 2020-01-01 2021 2021-05-19
dc.type.none.fl_str_mv	journal article http://purl.org/coar/resource_type/c_6501 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	https://hdl.handle.net/2117/345927 https://dx.doi.org/10.1038/s41467-020-19129-6
url	https://hdl.handle.net/2117/345927 https://dx.doi.org/10.1038/s41467-020-19129-6
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 Attribution 3.0 Spain http://creativecommons.org/licenses/by/3.0/es/ Attribution 3.0 Spain https://creativecommons.org/licenses/by/4.0/
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 Attribution 3.0 Spain http://creativecommons.org/licenses/by/3.0/es/ https://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv	openAccess
dc.format.none.fl_str_mv	application/pdf
dc.publisher.none.fl_str_mv	Nature Research
publisher.none.fl_str_mv	Nature Research
dc.source.none.fl_str_mv	reponame:UPCommons. Portal del coneixement obert de la UPC instname:Universitat Politècnica de Catalunya (UPC)
instname_str	Universitat Politècnica de Catalunya (UPC)
reponame_str	UPCommons. Portal del coneixement obert de la UPC
collection	UPCommons. Portal del coneixement obert de la UPC
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score	15,301603

Identification of key sequence features required for microRNA biogenesis in plants

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