Signatures of genetic variation in human microRNAs point to processes of positive selection and population-specific disease risks

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• dc.contributor.author Villegas Mirón, Pablo
• dc.contributor.author Gallego, Alicia
• dc.contributor.author Bertranpetit, Jaume, 1952-
• dc.contributor.author Laayouni, Hafid, 1968-
• dc.date.accessioned 2022-04-25T06:36:57Z
• dc.date.available 2022-04-25T06:36:57Z
• dc.date.issued 2022
• dc.description.abstract The occurrence of natural variation in human microRNAs has been the focus of numerous studies during the last 20 years. Most of them have been focused on the role of specific mutations in disease, while a minor proportion seek to analyse microRNA diversity in the genomes of human populations. We analyse the latest human microRNA annotations in the light of the most updated catalogue of genetic variation provided by the 1000 Genomes Project. By means of the in silico analysis of microRNA genetic variation we show that the level of evolutionary constraint of these sequences is governed by the interplay of different factors, like their evolutionary age or genomic location. The role of mutations in the shaping of microRNA-driven regulatory interactions is emphasized with the acknowledgement that, while the whole microRNA sequence is highly conserved, the seed region shows a pattern of higher genetic diversity that appears to be caused by the dramatic frequency shifts of a fraction of human microRNAs. We highlight the participation of these microRNAs in population-specific processes by identifying that not only the seed, but also the loop, are particularly differentiated regions among human populations. The quantitative computational comparison of signatures of population differentiation showed that candidate microRNAs with the largest differences are enriched in variants implicated in gene expression levels (eQTLs), selective sweeps and pathological processes. We explore the implication of these evolutionary-driven microRNAs and their SNPs in human diseases, such as different types of cancer, and discuss their role in population-specific disease risk.
• dc.description.sponsorship This study has been possible thanks to the Chilean Agencia Nacional de Investigación y Desarrollo—ANID (FONDECYT regular nº 1170446), the Chilean Ministry of Education (MAG-1995), grant PID2019-110933 GB-I00/AEI/10. 13039/501100011033 awarded by the Spanish Agencia Estatal de Investigación (AEI), Ministerio de Ciencia, Innovación y Universidades (MCIU, Spain), the support of Secretaria d’Universitats i Recerca del Departament d’Economia i Coneixement de la Generalitat de Catalunya (GRC 2017 SGR 702), part of the “Unidad de Excelencia María de Maeztu”, funded by the AEI (CEX2018-000792-M). P.V-M is supported by an FPI PhD fellowship (FPI-BES-2016-077706) part of the “Unidad de Excelencia María de Maeztu” funded by MINECO (ref: MDM-2014-0370).
• dc.format.mimetype application/pdf
• dc.identifier.citation Villegas-Mirón P, Gallego A, Bertranpetit J, Laayouni H, Espinosa-Parrilla Y. Signatures of genetic variation in human microRNAs point to processes of positive selection and population-specific disease risks. Hum Genet. 2022 Oct;141(10):1673-93. DOI: 10.1007/s00439-021-02423-8
• dc.identifier.doi http://dx.doi.org/10.1007/s00439-021-02423-8
• dc.identifier.issn 0340-6717
• dc.identifier.uri http://hdl.handle.net/10230/52879
• dc.language.iso eng
• dc.publisher Springer
• dc.relation.ispartof Hum Genet. 2022 Oct;141(10):1673-93
• dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/PID2019-110933GB-I00
• dc.rights © The Author(s) 2022. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.title Signatures of genetic variation in human microRNAs point to processes of positive selection and population-specific disease risks
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion