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Phylogenetic analysis of SARS-CoV-2 genomes in Turkey
COVID-19 has effectively spread worldwide. As of May 2020, Turkey is among the top ten countries with the most cases. A comprehensive genomic characterization of the virus isolates in Turkey is yet to be carried out. Here, we built a phylogenetic tree with globally obtained 15,277 severe acute respi...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
The Scientific and Technological Research Council of Turkey
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7314511/ https://www.ncbi.nlm.nih.gov/pubmed/32595351 http://dx.doi.org/10.3906/biy-2005-35 |
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author | ADEBALİ, Ogün BİRCAN, Aylin ÇİRCİ, Defne İŞLEK, Burak KILINÇ, Zeynep SELÇUK, Berkay TURHAN, Berk |
author_facet | ADEBALİ, Ogün BİRCAN, Aylin ÇİRCİ, Defne İŞLEK, Burak KILINÇ, Zeynep SELÇUK, Berkay TURHAN, Berk |
author_sort | ADEBALİ, Ogün |
collection | PubMed |
description | COVID-19 has effectively spread worldwide. As of May 2020, Turkey is among the top ten countries with the most cases. A comprehensive genomic characterization of the virus isolates in Turkey is yet to be carried out. Here, we built a phylogenetic tree with globally obtained 15,277 severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genomes. We identified the subtypes based on the phylogenetic clustering in comparison with the previously annotated classifications. We performed a phylogenetic analysis of the first 30 SARS-CoV-2 genomes isolated and sequenced in Turkey. We suggest that the first introduction of the virus to the country is earlier than the first reported case of infection. Virus genomes isolated from Turkey are dispersed among most types in the phylogenetic tree. We find 2 of the seventeen subclusters enriched with the isolates of Turkey, which likely have spread expansively in the country. Finally, we traced virus genomes based on their phylogenetic placements. This analysis suggested multiple independent international introductions of the virus and revealed a hub for the inland transmission. We released a web application to track the global and interprovincial virus spread of the isolates from Turkey in comparison to thousands of genomes worldwide. |
format | Online Article Text |
id | pubmed-7314511 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | The Scientific and Technological Research Council of Turkey |
record_format | MEDLINE/PubMed |
spelling | pubmed-73145112020-06-26 Phylogenetic analysis of SARS-CoV-2 genomes in Turkey ADEBALİ, Ogün BİRCAN, Aylin ÇİRCİ, Defne İŞLEK, Burak KILINÇ, Zeynep SELÇUK, Berkay TURHAN, Berk Turk J Biol Article COVID-19 has effectively spread worldwide. As of May 2020, Turkey is among the top ten countries with the most cases. A comprehensive genomic characterization of the virus isolates in Turkey is yet to be carried out. Here, we built a phylogenetic tree with globally obtained 15,277 severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genomes. We identified the subtypes based on the phylogenetic clustering in comparison with the previously annotated classifications. We performed a phylogenetic analysis of the first 30 SARS-CoV-2 genomes isolated and sequenced in Turkey. We suggest that the first introduction of the virus to the country is earlier than the first reported case of infection. Virus genomes isolated from Turkey are dispersed among most types in the phylogenetic tree. We find 2 of the seventeen subclusters enriched with the isolates of Turkey, which likely have spread expansively in the country. Finally, we traced virus genomes based on their phylogenetic placements. This analysis suggested multiple independent international introductions of the virus and revealed a hub for the inland transmission. We released a web application to track the global and interprovincial virus spread of the isolates from Turkey in comparison to thousands of genomes worldwide. The Scientific and Technological Research Council of Turkey 2020-06-21 /pmc/articles/PMC7314511/ /pubmed/32595351 http://dx.doi.org/10.3906/biy-2005-35 Text en Copyright © 2020 The Author(s) This article is distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use and redistribution provided that the original author and source are credited. |
spellingShingle | Article ADEBALİ, Ogün BİRCAN, Aylin ÇİRCİ, Defne İŞLEK, Burak KILINÇ, Zeynep SELÇUK, Berkay TURHAN, Berk Phylogenetic analysis of SARS-CoV-2 genomes in Turkey |
title | Phylogenetic analysis of SARS-CoV-2 genomes in Turkey |
title_full | Phylogenetic analysis of SARS-CoV-2 genomes in Turkey |
title_fullStr | Phylogenetic analysis of SARS-CoV-2 genomes in Turkey |
title_full_unstemmed | Phylogenetic analysis of SARS-CoV-2 genomes in Turkey |
title_short | Phylogenetic analysis of SARS-CoV-2 genomes in Turkey |
title_sort | phylogenetic analysis of sars-cov-2 genomes in turkey |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7314511/ https://www.ncbi.nlm.nih.gov/pubmed/32595351 http://dx.doi.org/10.3906/biy-2005-35 |
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