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Mapping genome variation of SARS-CoV-2 worldwide highlights the impact of COVID-19 super-spreaders
dc.contributor.author | Gómez Carballa, Alberto | |
dc.contributor.author | Bello Paderne, Xabier | |
dc.contributor.author | Pardo Seco, Jacobo José | |
dc.contributor.author | Martinón Torres, Federico | |
dc.contributor.author | Salas Ellacuriaga, Antonio | |
dc.date.accessioned | 2022-04-26T07:42:30Z | |
dc.date.available | 2022-04-26T07:42:30Z | |
dc.date.issued | 2020 | |
dc.identifier.issn | 1088-9051 | |
dc.identifier.other | https://www.ncbi.nlm.nih.gov/pubmed/32878977 | es |
dc.identifier.uri | http://hdl.handle.net/20.500.11940/16511 | |
dc.description.abstract | The human pathogen severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is responsible for the major pandemic of the twenty-first century. We analyzed more than 4700 SARS-CoV-2 genomes and associated metadata retrieved from public repositories. SARS-CoV-2 sequences have a high sequence identity (>99.9%), which drops to >96% when compared to bat coronavirus genome. We built a mutation-annotated reference SARS-CoV-2 phylogeny with two main macro-haplogroups, A and B, both of Asian origin, and more than 160 sub-branches representing virus strains of variable geographical origins worldwide, revealing a rather uniform mutation occurrence along branches that could have implications for diagnostics and the design of future vaccines. Identification of the root of SARS-CoV-2 genomes is not without problems, owing to conflicting interpretations derived from either using the bat coronavirus genomes as an outgroup or relying on the sampling chronology of the SARS-CoV-2 genomes and TMRCA estimates; however, the overall scenario favors haplogroup A as the ancestral node. Phylogenetic analysis indicates a TMRCA for SARS-CoV-2 genomes dating to November 12, 2019, thus matching epidemiological records. Sub-haplogroup A2 most likely originated in Europe from an Asian ancestor and gave rise to subclade A2a, which represents the major non-Asian outbreak, especially in Africa and Europe. Multiple founder effect episodes, most likely associated with super-spreader hosts, might explain COVID-19 pandemic to a large extent. | en |
dc.rights | Atribución-NoComercial 4.0 Internacional | |
dc.rights.uri | http://creativecommons.org/licenses/by-nc/4.0/ | |
dc.subject.mesh | Phylogeny | * |
dc.subject.mesh | Base Sequence | * |
dc.subject.mesh | Chiroptera | * |
dc.subject.mesh | Pandemics | * |
dc.subject.mesh | Genome | * |
dc.subject.mesh | Chromosome Mapping | * |
dc.subject.mesh | Coronavirus Infections | * |
dc.subject.mesh | Genetic Variation | * |
dc.subject.mesh | Pneumonia | * |
dc.subject.mesh | Animals | * |
dc.subject.mesh | Humans | * |
dc.subject.mesh | Phylogeography | * |
dc.subject.mesh | Sequence Homology | * |
dc.title | Mapping genome variation of SARS-CoV-2 worldwide highlights the impact of COVID-19 super-spreaders | en |
dc.type | Journal Article | es |
dc.authorsophos | Gómez-Carballa, A.;Bello, X.;Pardo-Seco, J.;Martinón-Torres, F.;Salas, A. | |
dc.identifier.doi | 10.1101/gr.266221.120 | |
dc.identifier.pmid | 32878977 | |
dc.identifier.sophos | 39095 | |
dc.issue.number | 10 | es |
dc.journal.title | GENOME RESEARCH | es |
dc.organization | Servizo Galego de Saúde::Estrutura de Xestión Integrada (EOXI)::EOXI de Santiago de Compostela - Complexo Hospitalario Universitario de Santiago de Compostela::Pediatría | es |
dc.organization | Servizo Galego de Saúde::Estrutura de Xestión Integrada (EOXI)::Instituto de Investigación Sanitaria de Santiago de Compostela (IDIS) | es |
dc.page.initial | 1434 | es |
dc.page.final | 1448 | es |
dc.rights.accessRights | openAccess | |
dc.subject.decs | homología de secuencias | * |
dc.subject.decs | animales | * |
dc.subject.decs | variación genética | * |
dc.subject.decs | mapeo cromosómico | * |
dc.subject.decs | genoma | * |
dc.subject.decs | pandemias | * |
dc.subject.decs | Chiroptera | * |
dc.subject.decs | filogeografía | * |
dc.subject.decs | secuencia de bases | * |
dc.subject.decs | neumonía | * |
dc.subject.decs | filogenia | * |
dc.subject.decs | humanos | * |
dc.subject.decs | infecciones por Coronavirus | * |
dc.subject.keyword | CHUS | es |
dc.subject.keyword | IDIS | es |
dc.typefides | Artículo Original | es |
dc.typesophos | Artículo Original | es |
dc.volume.number | 30 | es |
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