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Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran

Iran was among countries which was hard hit at the early stage of the coronavirus disease 2019 (COVID-19) pandemic and dealt with the second wave of the pandemic in May and June 2020; however, there are a very limited number of complete genome sequences of acute respiratory syndrome coronavirus 2 (S...

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Autores principales: Kaffashi, Amir, Huang, Jiabin, Bairami, Amir, Fallah Mehrabadi, Mohammad Hossein, Yaslianifard, Somayeh, Bashashati, Mohsen, Banihashemi, S Reza, Soleimanifar, Fatemeh, Lotfi, Mohsen, Taghizadeh, Morteza, Soleimani, Alireza, Khorasani, Akbar, Moshiri, Farzaneh, Mozhgani, Sayed-Hamidreza
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8447724/
https://www.ncbi.nlm.nih.gov/pubmed/34549097
http://dx.doi.org/10.1016/j.heliyon.2021.e08027
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author Kaffashi, Amir
Huang, Jiabin
Bairami, Amir
Fallah Mehrabadi, Mohammad Hossein
Yaslianifard, Somayeh
Bashashati, Mohsen
Banihashemi, S Reza
Soleimanifar, Fatemeh
Lotfi, Mohsen
Taghizadeh, Morteza
Soleimani, Alireza
Khorasani, Akbar
Moshiri, Farzaneh
Mozhgani, Sayed-Hamidreza
author_facet Kaffashi, Amir
Huang, Jiabin
Bairami, Amir
Fallah Mehrabadi, Mohammad Hossein
Yaslianifard, Somayeh
Bashashati, Mohsen
Banihashemi, S Reza
Soleimanifar, Fatemeh
Lotfi, Mohsen
Taghizadeh, Morteza
Soleimani, Alireza
Khorasani, Akbar
Moshiri, Farzaneh
Mozhgani, Sayed-Hamidreza
author_sort Kaffashi, Amir
collection PubMed
description Iran was among countries which was hard hit at the early stage of the coronavirus disease 2019 (COVID-19) pandemic and dealt with the second wave of the pandemic in May and June 2020; however, there are a very limited number of complete genome sequences of acute respiratory syndrome coronavirus 2 (SARS-CoV-2) from Iran. In this study, complete genome sequences of the virus in the samples obtained from three patients in Alborz province in May and June 2020 were generated and analyzed using bioinformatic methods. The sequenced genomes were positioned in a cluster with B.4 lineage along with the sequences from other countries namely, United Arab Emirates and Oman. There were seven single nucleotide variations (SNVs) in common in all samples and only one of the sequenced genomes showed the D614G amino acid substitution. Three SNVs, 1397 G > A, 28688T > C, 29742 G > T, which had already been reported in February, were found with high frequency in all the sequenced genomes in this study, implying that viral diversity reflected in the early stages of viral transmission in Iran were established in the second wave. Considering the importance of molecular epidemiology in response to ongoing pandemic, there is an urgent need for more complete genome sequencing and comprehensive analyses to gain insight into the transmission, adaptation and evolution of the virus in Iran.
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spelling pubmed-84477242021-09-17 Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran Kaffashi, Amir Huang, Jiabin Bairami, Amir Fallah Mehrabadi, Mohammad Hossein Yaslianifard, Somayeh Bashashati, Mohsen Banihashemi, S Reza Soleimanifar, Fatemeh Lotfi, Mohsen Taghizadeh, Morteza Soleimani, Alireza Khorasani, Akbar Moshiri, Farzaneh Mozhgani, Sayed-Hamidreza Heliyon Research Article Iran was among countries which was hard hit at the early stage of the coronavirus disease 2019 (COVID-19) pandemic and dealt with the second wave of the pandemic in May and June 2020; however, there are a very limited number of complete genome sequences of acute respiratory syndrome coronavirus 2 (SARS-CoV-2) from Iran. In this study, complete genome sequences of the virus in the samples obtained from three patients in Alborz province in May and June 2020 were generated and analyzed using bioinformatic methods. The sequenced genomes were positioned in a cluster with B.4 lineage along with the sequences from other countries namely, United Arab Emirates and Oman. There were seven single nucleotide variations (SNVs) in common in all samples and only one of the sequenced genomes showed the D614G amino acid substitution. Three SNVs, 1397 G > A, 28688T > C, 29742 G > T, which had already been reported in February, were found with high frequency in all the sequenced genomes in this study, implying that viral diversity reflected in the early stages of viral transmission in Iran were established in the second wave. Considering the importance of molecular epidemiology in response to ongoing pandemic, there is an urgent need for more complete genome sequencing and comprehensive analyses to gain insight into the transmission, adaptation and evolution of the virus in Iran. Elsevier 2021-09-17 /pmc/articles/PMC8447724/ /pubmed/34549097 http://dx.doi.org/10.1016/j.heliyon.2021.e08027 Text en © 2021 The Authors https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Research Article
Kaffashi, Amir
Huang, Jiabin
Bairami, Amir
Fallah Mehrabadi, Mohammad Hossein
Yaslianifard, Somayeh
Bashashati, Mohsen
Banihashemi, S Reza
Soleimanifar, Fatemeh
Lotfi, Mohsen
Taghizadeh, Morteza
Soleimani, Alireza
Khorasani, Akbar
Moshiri, Farzaneh
Mozhgani, Sayed-Hamidreza
Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran
title Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran
title_full Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran
title_fullStr Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran
title_full_unstemmed Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran
title_short Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran
title_sort complete genome sequencing and molecular characterization of sars-cov-2 from covid-19 cases in alborz province in iran
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8447724/
https://www.ncbi.nlm.nih.gov/pubmed/34549097
http://dx.doi.org/10.1016/j.heliyon.2021.e08027
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