Double-stranded RNA bending by AU-tract sequences

© The Author(s) 2020.

Detalles Bibliográficos
Autores: Marin-González, Alberto, Aicart-Ramos, Clara, Marin-Baquero, Mikel, Martín-González, Alejandro, Suomalainen, Maarit, Kannan, Abhilash, Vilhena, J. G., Greber, Urs F., Moreno-Herrero, Fernando, Pérez, Rubén
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2020
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/228940
Acceso en línea:http://hdl.handle.net/10261/228940
Access Level:acceso abierto
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dc.title.none.fl_str_mv Double-stranded RNA bending by AU-tract sequences
title Double-stranded RNA bending by AU-tract sequences
spellingShingle Double-stranded RNA bending by AU-tract sequences
Marin-González, Alberto
title_short Double-stranded RNA bending by AU-tract sequences
title_full Double-stranded RNA bending by AU-tract sequences
title_fullStr Double-stranded RNA bending by AU-tract sequences
title_full_unstemmed Double-stranded RNA bending by AU-tract sequences
title_sort Double-stranded RNA bending by AU-tract sequences
dc.creator.none.fl_str_mv Marin-González, Alberto
Aicart-Ramos, Clara
Marin-Baquero, Mikel
Martín-González, Alejandro
Suomalainen, Maarit
Kannan, Abhilash
Vilhena, J. G.
Greber, Urs F.
Moreno-Herrero, Fernando
Pérez, Rubén
author Marin-González, Alberto
author_facet Marin-González, Alberto
Aicart-Ramos, Clara
Marin-Baquero, Mikel
Martín-González, Alejandro
Suomalainen, Maarit
Kannan, Abhilash
Vilhena, J. G.
Greber, Urs F.
Moreno-Herrero, Fernando
Pérez, Rubén
author_role author
author2 Aicart-Ramos, Clara
Marin-Baquero, Mikel
Martín-González, Alejandro
Suomalainen, Maarit
Kannan, Abhilash
Vilhena, J. G.
Greber, Urs F.
Moreno-Herrero, Fernando
Pérez, Rubén
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Ministerio de Ciencia, Innovación y Universidades (España)
Agencia Estatal de Investigación (España)
European Research Council
European Commission
Swiss National Science Foundation
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
description © The Author(s) 2020.
publishDate 2020
dc.date.none.fl_str_mv 2020
2021
2021
2021
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dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/228940
url http://hdl.handle.net/10261/228940
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dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
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spelling Double-stranded RNA bending by AU-tract sequencesMarin-González, AlbertoAicart-Ramos, ClaraMarin-Baquero, MikelMartín-González, AlejandroSuomalainen, MaaritKannan, AbhilashVilhena, J. G.Greber, Urs F.Moreno-Herrero, FernandoPérez, Rubén© The Author(s) 2020.Sequence-dependent structural deformations of the DNA double helix (dsDNA) have been extensively studied, where adenine tracts (A-tracts) provide a striking example for global bending in the molecule. However, in contrast to dsDNA, sequence-dependent structural features of dsRNA have received little attention. In this work, we demonstrate that the nucleotide sequence can induce a bend in a canonical Watson-Crick base-paired dsRNA helix. Using all-atom molecular dynamics simulations, we identified a sequence motif consisting of alternating adenines and uracils, or AU-tracts, that strongly bend the RNA double-helix. This finding was experimentally validated using atomic force microscopy imaging of dsRNA molecules designed to display macroscopic curvature via repetitions of phased AU-tract motifs. At the atomic level, this novel phenomenon originates from a localized compression of the dsRNA major groove and a large propeller twist at the position of the AU-tract. Moreover, the magnitude of the bending can be modulated by changing the length of the AU-tract. Altogether, our results demonstrate the possibility of modifying the dsRNA curvature by means of its nucleotide sequence, which may be exploited in the emerging field of RNA nanotechnology and might also constitute a natural mechanism for proteins to achieve recognition of specific dsRNA sequences.Spanish MINECO [MAT2017-83273-R (AEI/FEDER, UE) to R.P., BFU2017-83794-P (AEI/FEDER, UE to F.M.-H.) and Comunidad de Madrid (Tec4Bio – S2018/NMT-4443 and NanoBioCancer – Y2018/BIO-4747 to F.M.-H.]; R.P. acknowledges support from the Spanish Ministry of Science and Innovation, through the ‘María de Maeztu’ Programme for Units of Excellence in R&D [CEX2018-000805-M]; F.M.-H. acknowledges support from European Research Council (ERC) under the European Union Horizon 2020 research and innovation [681299]; J. G. V. acknowledges funding from a Marie Sklodowska-Curie Fellowship within the Horizons 2020 framework (DLV-795286) and the Swiss National Science Foundation (grant number CRSK-2 190731/1). Alberto M.-G. acknowledges support from the International PhD Program of ‘La Caixa-Severo Ochoa’ as a recipient of a PhD fellowship; U.F.G. acknowledges support from the Swiss National Science Foundation [31003A_179256/1]; Alejandro M.-G. and MM-B acknowledge support from the Spanish Ministry of Competitiveness and Industry as a recipients of a FPI fellowship [REFs BES-2015-071244, PRE2018-083464, respectively]. Funding for open access charge: European Research Council (ERC) [681299].Oxford University PressMinisterio de Ciencia, Innovación y Universidades (España)Agencia Estatal de Investigación (España)European Research CouncilEuropean CommissionSwiss National Science FoundationConsejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]2021202120202021info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/228940reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/MAT2017-83273-RMAT2017-83273-R/AEI/10.13039/501100011033info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/BFU2017-83794-PBFU2017-83794-P/AEI/10.13039/501100011033info:eu-repo/grantAgreement/EC/H2020/681299info:eu-repo/grantAgreement/EC/H2020/795286info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/PRE2018-083464PRE2018-083464/AEI/10.13039/501100011033info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/681299http://dx.doi.org/10.1093/nar/gkaa1128Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/2289402026-05-22T06:33:51Z
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