A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands

Objective: To analyze the SARS-CoV-2 genomic epidemiology in the Balearic Islands, a unique setting in which the course of the pandemic has been influenced by a complex interplay between insularity, severe social restrictions and tourism travels.Methods: Since the onset of the pandemic, more than 2,...

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Autores: López-Causapé C, Fraile-Ribot PA, Jiménez-Serrano S, Cabot G, Del Barrio-Tofiño E, Prado MC, Linares JM, López A, Hurtado A, Riera E, Serra A, Roselló E, Carbó L, Fernández-Baca MV, Gallegos C, Saurina J, Arteaga E, Salom MM, Salvá A, Nicolau A, González-Candelas F, Comas I, Oliver A
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2022
País:España
Institución:Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana (FISABIO)
Repositorio:r-FISABIO. Repositorio Institucional de Producción Científica
OAI Identifier:oai:fisabio.fundanetsuite.com:p12786
Acceso en línea:https://fisabio.portalinvestigacion.com/publicaciones/12786
Access Level:acceso abierto
Palabra clave:SARS-CoV-2
genomic evolution
variants
genomic epidemiology
spike mutations
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spelling A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic IslandsLópez-Causapé CFraile-Ribot PAJiménez-Serrano SCabot GDel Barrio-Tofiño EPrado MCLinares JMLópez AHurtado ARiera ESerra ARoselló ECarbó LFernández-Baca MVGallegos CSaurina JArteaga ESalom MMSalvá ANicolau AGonzález-Candelas FComas IOliver ASARS-CoV-2genomic evolutionvariantsgenomic epidemiologyspike mutationsObjective: To analyze the SARS-CoV-2 genomic epidemiology in the Balearic Islands, a unique setting in which the course of the pandemic has been influenced by a complex interplay between insularity, severe social restrictions and tourism travels.Methods: Since the onset of the pandemic, more than 2,700 SARS-CoV-2 positive respiratory samples have been randomly selected and sequenced in the Balearic Islands. Genetic diversity of circulating variants was assessed by lineage assignment of consensus whole genome sequences with PANGOLIN and investigation of additional spike mutations.Results: Consensus sequences were assigned to 46 different PANGO lineages and 75% of genomes were classified within a VOC, VUI, or VUM variant according to the WHO definitions. Highest genetic diversity was documented in the island of Majorca (42 different lineages detected). Globally, lineages B.1.1.7 and B.1.617.2/AY.X were identified as the 2 major lineages circulating in the Balearic Islands during the pandemic, distantly followed by lineages B.1.177/B.1.177.X. However, in Ibiza/Formentera lineage distribution was slightly different and lineage B.1.221 was the third most prevalent. Temporal distribution analysis showed that B.1 and B.1.5 lineages dominated the first epidemic wave, lineage B.1.177 dominated the second and third, and lineage B.1.617.2 the fourth. Of note, lineage B.1.1.7 became the most prevalent circulating lineage during first half of 2021; however, it was not associated with an increased in COVID-19 cases likely due to severe social restrictions and limited travels. Additional spike mutations were rarely documented with the exception of mutation S:Q613H which has been detected in several genomes (n = 25) since July 2021.Conclusion: Virus evolution, mainly driven by the acquisition and selection of spike substitutions conferring biological advantages, social restrictions, and size population are apparently key factors for explaining the epidemic patterns registered in the Balearic Islands.FRONTIERS MEDIA SA2022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttps://fisabio.portalinvestigacion.com/publicaciones/12786Frontiers in MicrobiologyISSN: 1664302Xreponame:r-FISABIO. Repositorio Institucional de Producción Científicainstname:Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana (FISABIO)Inglésinfo:eu-repo/semantics/openAccessoai:fisabio.fundanetsuite.com:p127862026-06-11T12:45:17Z
dc.title.none.fl_str_mv A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
title A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
spellingShingle A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
López-Causapé C
SARS-CoV-2
genomic evolution
variants
genomic epidemiology
spike mutations
title_short A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
title_full A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
title_fullStr A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
title_full_unstemmed A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
title_sort A Genomic Snapshot of the SARS-CoV-2 Pandemic in the Balearic Islands
dc.creator.none.fl_str_mv López-Causapé C
Fraile-Ribot PA
Jiménez-Serrano S
Cabot G
Del Barrio-Tofiño E
Prado MC
Linares JM
López A
Hurtado A
Riera E
Serra A
Roselló E
Carbó L
Fernández-Baca MV
Gallegos C
Saurina J
Arteaga E
Salom MM
Salvá A
Nicolau A
González-Candelas F
Comas I
Oliver A
author López-Causapé C
author_facet López-Causapé C
Fraile-Ribot PA
Jiménez-Serrano S
Cabot G
Del Barrio-Tofiño E
Prado MC
Linares JM
López A
Hurtado A
Riera E
Serra A
Roselló E
Carbó L
Fernández-Baca MV
Gallegos C
Saurina J
Arteaga E
Salom MM
Salvá A
Nicolau A
González-Candelas F
Comas I
Oliver A
author_role author
author2 Fraile-Ribot PA
Jiménez-Serrano S
Cabot G
Del Barrio-Tofiño E
Prado MC
Linares JM
López A
Hurtado A
Riera E
Serra A
Roselló E
Carbó L
Fernández-Baca MV
Gallegos C
Saurina J
Arteaga E
Salom MM
Salvá A
Nicolau A
González-Candelas F
Comas I
Oliver A
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv SARS-CoV-2
genomic evolution
variants
genomic epidemiology
spike mutations
topic SARS-CoV-2
genomic evolution
variants
genomic epidemiology
spike mutations
description Objective: To analyze the SARS-CoV-2 genomic epidemiology in the Balearic Islands, a unique setting in which the course of the pandemic has been influenced by a complex interplay between insularity, severe social restrictions and tourism travels.Methods: Since the onset of the pandemic, more than 2,700 SARS-CoV-2 positive respiratory samples have been randomly selected and sequenced in the Balearic Islands. Genetic diversity of circulating variants was assessed by lineage assignment of consensus whole genome sequences with PANGOLIN and investigation of additional spike mutations.Results: Consensus sequences were assigned to 46 different PANGO lineages and 75% of genomes were classified within a VOC, VUI, or VUM variant according to the WHO definitions. Highest genetic diversity was documented in the island of Majorca (42 different lineages detected). Globally, lineages B.1.1.7 and B.1.617.2/AY.X were identified as the 2 major lineages circulating in the Balearic Islands during the pandemic, distantly followed by lineages B.1.177/B.1.177.X. However, in Ibiza/Formentera lineage distribution was slightly different and lineage B.1.221 was the third most prevalent. Temporal distribution analysis showed that B.1 and B.1.5 lineages dominated the first epidemic wave, lineage B.1.177 dominated the second and third, and lineage B.1.617.2 the fourth. Of note, lineage B.1.1.7 became the most prevalent circulating lineage during first half of 2021; however, it was not associated with an increased in COVID-19 cases likely due to severe social restrictions and limited travels. Additional spike mutations were rarely documented with the exception of mutation S:Q613H which has been detected in several genomes (n = 25) since July 2021.Conclusion: Virus evolution, mainly driven by the acquisition and selection of spike substitutions conferring biological advantages, social restrictions, and size population are apparently key factors for explaining the epidemic patterns registered in the Balearic Islands.
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
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://fisabio.portalinvestigacion.com/publicaciones/12786
url https://fisabio.portalinvestigacion.com/publicaciones/12786
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv FRONTIERS MEDIA SA
publisher.none.fl_str_mv FRONTIERS MEDIA SA
dc.source.none.fl_str_mv Frontiers in Microbiology
ISSN: 1664302X
reponame:r-FISABIO. Repositorio Institucional de Producción Científica
instname:Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana (FISABIO)
instname_str Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana (FISABIO)
reponame_str r-FISABIO. Repositorio Institucional de Producción Científica
collection r-FISABIO. Repositorio Institucional de Producción Científica
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,812429

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