Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic
- Autores
- Mogro, Ezequiel Gerardo; Bottero, Daniela; Lozano, Mauricio Javier
- Año de publicación
- 2022
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- SARS-CoV-2, the seventh coronavirus known to infect humans, can cause severe life-threatening respiratory pathologies. To better understand SARS-CoV-2 evolution, genome-wide analyses have been made, including the general characterization of its codons usage profile. Here we present a bioinformatic analysis of the evolution of SARS-CoV-2 codon usage over time using complete genomes collected since December 2019. Our results show that SARS-CoV-2 codon usage pattern is antagonistic to, and it is getting farther away from that of the human host. Further, a selection of deoptimized codons over time, which was accompanied by a decrease in both the codon adaptation index and the effective number of codons, was observed. All together, these findings suggest that SARS-CoV-2 could be evolving, at least from the perspective of the synonymous codon usage, to become less pathogenic.
Instituto de Biotecnología y Biología Molecular - Materia
-
Biología
Codon usage bias
SARS-CoV-2
COVID-19
Betacoronavirus - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- http://creativecommons.org/licenses/by-nc-sa/4.0/
- Repositorio
- Institución
- Universidad Nacional de La Plata
- OAI Identificador
- oai:sedici.unlp.edu.ar:10915/159865
Ver los metadatos del registro completo
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Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemicMogro, Ezequiel GerardoBottero, DanielaLozano, Mauricio JavierBiologíaCodon usage biasSARS-CoV-2COVID-19BetacoronavirusSARS-CoV-2, the seventh coronavirus known to infect humans, can cause severe life-threatening respiratory pathologies. To better understand SARS-CoV-2 evolution, genome-wide analyses have been made, including the general characterization of its codons usage profile. Here we present a bioinformatic analysis of the evolution of SARS-CoV-2 codon usage over time using complete genomes collected since December 2019. Our results show that SARS-CoV-2 codon usage pattern is antagonistic to, and it is getting farther away from that of the human host. Further, a selection of deoptimized codons over time, which was accompanied by a decrease in both the codon adaptation index and the effective number of codons, was observed. All together, these findings suggest that SARS-CoV-2 could be evolving, at least from the perspective of the synonymous codon usage, to become less pathogenic.Instituto de Biotecnología y Biología Molecular2022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionArticulohttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://sedici.unlp.edu.ar/handle/10915/159865enginfo:eu-repo/semantics/altIdentifier/issn/1096-0341info:eu-repo/semantics/altIdentifier/doi/10.1016/j.virol.2022.01.011info:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by-nc-sa/4.0/Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)reponame:SEDICI (UNLP)instname:Universidad Nacional de La Platainstacron:UNLP2025-09-29T11:41:47Zoai:sedici.unlp.edu.ar:10915/159865Institucionalhttp://sedici.unlp.edu.ar/Universidad públicaNo correspondehttp://sedici.unlp.edu.ar/oai/snrdalira@sedici.unlp.edu.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:13292025-09-29 11:41:47.775SEDICI (UNLP) - Universidad Nacional de La Platafalse |
dc.title.none.fl_str_mv |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
title |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
spellingShingle |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic Mogro, Ezequiel Gerardo Biología Codon usage bias SARS-CoV-2 COVID-19 Betacoronavirus |
title_short |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
title_full |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
title_fullStr |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
title_full_unstemmed |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
title_sort |
Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic |
dc.creator.none.fl_str_mv |
Mogro, Ezequiel Gerardo Bottero, Daniela Lozano, Mauricio Javier |
author |
Mogro, Ezequiel Gerardo |
author_facet |
Mogro, Ezequiel Gerardo Bottero, Daniela Lozano, Mauricio Javier |
author_role |
author |
author2 |
Bottero, Daniela Lozano, Mauricio Javier |
author2_role |
author author |
dc.subject.none.fl_str_mv |
Biología Codon usage bias SARS-CoV-2 COVID-19 Betacoronavirus |
topic |
Biología Codon usage bias SARS-CoV-2 COVID-19 Betacoronavirus |
dc.description.none.fl_txt_mv |
SARS-CoV-2, the seventh coronavirus known to infect humans, can cause severe life-threatening respiratory pathologies. To better understand SARS-CoV-2 evolution, genome-wide analyses have been made, including the general characterization of its codons usage profile. Here we present a bioinformatic analysis of the evolution of SARS-CoV-2 codon usage over time using complete genomes collected since December 2019. Our results show that SARS-CoV-2 codon usage pattern is antagonistic to, and it is getting farther away from that of the human host. Further, a selection of deoptimized codons over time, which was accompanied by a decrease in both the codon adaptation index and the effective number of codons, was observed. All together, these findings suggest that SARS-CoV-2 could be evolving, at least from the perspective of the synonymous codon usage, to become less pathogenic. Instituto de Biotecnología y Biología Molecular |
description |
SARS-CoV-2, the seventh coronavirus known to infect humans, can cause severe life-threatening respiratory pathologies. To better understand SARS-CoV-2 evolution, genome-wide analyses have been made, including the general characterization of its codons usage profile. Here we present a bioinformatic analysis of the evolution of SARS-CoV-2 codon usage over time using complete genomes collected since December 2019. Our results show that SARS-CoV-2 codon usage pattern is antagonistic to, and it is getting farther away from that of the human host. Further, a selection of deoptimized codons over time, which was accompanied by a decrease in both the codon adaptation index and the effective number of codons, was observed. All together, these findings suggest that SARS-CoV-2 could be evolving, at least from the perspective of the synonymous codon usage, to become less pathogenic. |
publishDate |
2022 |
dc.date.none.fl_str_mv |
2022 |
dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion Articulo http://purl.org/coar/resource_type/c_6501 info:ar-repo/semantics/articulo |
format |
article |
status_str |
publishedVersion |
dc.identifier.none.fl_str_mv |
http://sedici.unlp.edu.ar/handle/10915/159865 |
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http://sedici.unlp.edu.ar/handle/10915/159865 |
dc.language.none.fl_str_mv |
eng |
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eng |
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info:eu-repo/semantics/altIdentifier/issn/1096-0341 info:eu-repo/semantics/altIdentifier/doi/10.1016/j.virol.2022.01.011 |
dc.rights.none.fl_str_mv |
info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) |
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openAccess |
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http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) |
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