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Resumen
Deep sequencing of viral genomes is a powerful tool to study RNA virus complexity. However, the analysis of next-generation sequencing data might be challenging for researchers who have never approached the study of viral quasispecies by this methodology. In this work we present a suitable and affordable guide to explore the sub-consensus variability and to reconstruct viral quasispecies from Illumina sequencing data. The guide includes a complete
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dc.contributor.author | Cacciabue, Marco Polo | |
dc.contributor.author | Curra, Anabella Paola | |
dc.contributor.author | Carrillo, Elisa Cristina | |
dc.contributor.author | Konig, Guido Alberto | |
dc.contributor.author | Gismondi, Maria Ines | |
dc.date.accessioned | 2021-11-15T17:31:28Z | |
dc.date.available | 2021-11-15T17:31:28Z | |
dc.date.issued | 2020-09 | |
dc.identifier.issn | 1477-4054 | |
dc.identifier.other | https://doi.org/10.1093/bib/bbz086 | |
dc.identifier.uri | http://hdl.handle.net/20.500.12123/10781 | |
dc.identifier.uri | https://academic.oup.com/bib/article/21/5/1766/5565040 | |
dc.description.abstract | Deep sequencing of viral genomes is a powerful tool to study RNA virus complexity. However, the analysis of next-generation sequencing data might be challenging for researchers who have never approached the study of viral quasispecies by this methodology. In this work we present a suitable and affordable guide to explore the sub-consensus variability and to reconstruct viral quasispecies from Illumina sequencing data. The guide includes a complete analysis pipeline along with user-friendly descriptions of software and file formats. In addition, we assessed the feasibility of the workflow proposed by analyzing a set of foot-and-mouth disease viruses (FMDV) with different degrees of variability. This guide introduces the analysis of quasispecies of FMDV and other viruses through this kind of approach. | eng |
dc.format | application/pdf | es_AR |
dc.language.iso | eng | es_AR |
dc.publisher | Oxford Academic Press | es_AR |
dc.relation | info:eu-repograntAgreement/INTA/PNSA-1115052/AR./Epidemiología y desarrollo de estrategias para la prevención y control de enfermedades que afectan la salud pública, enfermedades exóticas y limitantes del comercio internacional. | es_AR |
dc.rights | info:eu-repo/semantics/openAccess | es_AR |
dc.rights.uri | http://creativecommons.org/licenses/by-nc-sa/4.0/ | |
dc.source | Briefings in Bioinformatics 21 (5) : 1766-1775. (September 2020) | es_AR |
dc.subject | Genética | es_AR |
dc.subject | Genetics | eng |
dc.subject | Secuencia de ARN | es_AR |
dc.subject | RNA Sequence | eng |
dc.subject | Fiebre Aftosa | es_AR |
dc.subject | Foot and Mouth Disease | eng |
dc.subject | Virus Fiebre Aftosa | es_AR |
dc.subject | Aphthovirus | eng |
dc.title | A beginner’s guide for FMDV quasispecies analysis: sub-consensus variant detection and haplotype reconstruction using next-generation sequencing | es_AR |
dc.type | info:ar-repo/semantics/artículo | es_AR |
dc.type | info:eu-repo/semantics/article | es_AR |
dc.type | info:eu-repo/semantics/publishedVersion | es_AR |
dc.rights.license | Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) | |
dc.description.origen | Instituto de Biotecnología | es_AR |
dc.description.fil | Fil: Cacciabue, Marco Polo. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina | es_AR |
dc.description.fil | Fil: Cacciabue, Marco Polo. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | es_AR |
dc.description.fil | Fil: Cacciabue, Marco Polo. Universidad Nacional de Luján. Departamento de Ciencias Básicas; Argentina | es_AR |
dc.description.fil | Fil: Curra, Anabella Paola. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina | es_AR |
dc.description.fil | Fil: Curra, Anabella Paola. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | es_AR |
dc.description.fil | Fil: Curra, Anabella Paola. Universidad Nacional de Luján. Departamento de Ciencias Básicas; Argentina | es_AR |
dc.description.fil | Fil: Carrillo, Elisa Cristina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina | es_AR |
dc.description.fil | Fil: Carrillo, Elisa Cristina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | es_AR |
dc.description.fil | Fil: Konig, Guido Alberto. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina | es_AR |
dc.description.fil | Fil: Konig, Guido Alberto. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | es_AR |
dc.description.fil | Fil: Gismondi, Maria Ines. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina | es_AR |
dc.description.fil | Fil: Gismondi, Maria Ines. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | es_AR |
dc.description.fil | Fil: Gismondi, Maria Ines. Universidad Nacional de Luján. Departamento de Ciencias Básicas; Argentina | es_AR |
dc.subtype | cientifico |
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