Parsimonious scenario for the emergence of viroid-like replicons de novo

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Show simple item record Catalan Fernandez, Pablo Elena, Santiago F. Cuesta, José A. Manrubia, Susanna C. 2022-02-02T09:38:24Z 2022-02-02T09:38:24Z 2019-05
dc.identifier.bibliographicCitation Catalán, P., Elena, S. F., Cuesta, J. A. & Manrubia, S. (2019). Parsimonious Scenario for the Emergence of Viroid-Like Replicons De Novo. Viruses, 11(5), 425.
dc.identifier.issn 1999-4915
dc.description This article belongs to the Special Issue Viroid-2018: International Conference on Viroids and Viroid-Like RNAs.
dc.description.abstract Viroids are small, non-coding, circular RNA molecules that infect plants. Different hypotheses for their evolutionary origin have been put forward, such as an early emergence in a precellular RNA World or several de novo independent evolutionary origins in plants. Here, we discuss the plausibility of de novo emergence of viroid-like replicons by giving theoretical support to the likelihood of different steps along a parsimonious evolutionary pathway. While Avsunviroidae-like structures are relatively easy to obtain through evolution of a population of random RNA sequences of fixed length, rod-like structures typical of Pospiviroidae are difficult to fix. Using different quantitative approaches, we evaluated the likelihood that RNA sequences fold into a rod-like structure and bear specific sequence motifs facilitating interactions with other molecules, e.g., RNA polymerases, RNases, and ligases. By means of numerical simulations, we show that circular RNA replicons analogous to Pospiviroidae emerge if evolution is seeded with minimal circular RNAs that grow through the gradual addition of nucleotides. Further, these rod-like replicons often maintain their structure if independent functional modules are acquired that impose selective constraints. The evolutionary scenario we propose here is consistent with the structural and biochemical properties of viroids described to date.
dc.description.sponsorship P.C. is supported by a Ramón Areces Foundation Postdoctoral Fellowship. The Spanish Ministerio de Ciencia, Innovación y Universidades-FEDER funds of the European Union support Projects BASIC (PGC2018-098186-B-I00, J.A.C. and P.C.), MiMevo (FIS2017-89773-P, S.M.), and EvolSysVir (BFU2015-65037-P, S.F.E.).
dc.format.extent 20
dc.language.iso eng
dc.publisher MDPI
dc.rights © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license.
dc.rights Atribución 3.0 España
dc.subject.other Computational simulations
dc.subject.other Modular evolution
dc.subject.other Population dynamics
dc.subject.other RNA secondary structure
dc.subject.other Simple replicators
dc.subject.other Structure enumeration
dc.subject.other Viroid
dc.title Parsimonious scenario for the emergence of viroid-like replicons de novo
dc.type article
dc.subject.eciencia Biología y Biomedicina
dc.subject.eciencia Matemáticas
dc.rights.accessRights openAccess
dc.relation.projectID Gobierno de España. PGC2018-098186-B-I00
dc.relation.projectID Gobierno de España. FIS2017-89773-P
dc.relation.projectID Gobierno de España. BFU2015-65037-P
dc.type.version publishedVersion
dc.identifier.publicationfirstpage 425
dc.identifier.publicationissue 5
dc.identifier.publicationtitle Viruses
dc.identifier.publicationvolume 11
dc.identifier.uxxi AR/0000025464
dc.contributor.funder Ministerio de Ciencia, Innovación y Universidades (España)
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