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Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic. / Palyanova, Natalia; Sobolev, Ivan; Alekseev, Alexander et al.

In: Viruses, Vol. 14, No. 9, 2036, 09.2022.

Research output: Contribution to journal › Article › peer-review

Harvard

Palyanova, N, Sobolev, I, Alekseev, A, Glushenko, A, Kazachkova, E, Markhaev, A, Kononova, Y, Gulyaeva, M, Adamenko, L, Kurskaya, O, Bi, Y, Xin, Y, Sharshov, K & Shestopalov, A 2022, 'Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic', Viruses, vol. 14, no. 9, 2036. https://doi.org/10.3390/v14092036

APA

Palyanova, N., Sobolev, I., Alekseev, A., Glushenko, A., Kazachkova, E., Markhaev, A., Kononova, Y., Gulyaeva, M., Adamenko, L., Kurskaya, O., Bi, Y., Xin, Y., Sharshov, K., & Shestopalov, A. (2022). Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic. Viruses, 14(9), [2036]. https://doi.org/10.3390/v14092036

Vancouver

Palyanova N, Sobolev I, Alekseev A, Glushenko A, Kazachkova E, Markhaev A et al. Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic. Viruses. 2022 Sept;14(9):2036. doi: 10.3390/v14092036

Author

Palyanova, Natalia ; Sobolev, Ivan ; Alekseev, Alexander et al. / Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic. In: Viruses. 2022 ; Vol. 14, No. 9.

BibTeX

@article{26cbc8975f7a4ac89e8e8c817d3ab1b3,
title = "Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic",
abstract = "In this retrospective, single-center study, we conducted an analysis of 13,699 samples from different individuals obtained from the Federal Research Center of Fundamental and Translational Medicine, from 1 April to 30 May 2020 in Novosibirsk region (population 2.8 million people). We identified 6.49% positive for SARS-CoV-2 cases out of the total number of diagnostic tests, and 42% of them were from asymptomatic people. We also detected two asymptomatic people, who had no confirmed contact with patients with COVID-19. The highest percentage of positive samples was observed in the 80+ group (16.3%), while among the children and adults it did not exceed 8%. Among all the people tested, 2423 came from a total of 80 different destinations and only 27 of them were positive for SARS-CoV-2. Out of all the positive samples, 15 were taken for SARS-CoV-2 sequencing. According to the analysis of the genome sequences, the SARS-CoV-2 variants isolated in the Novosibirsk region at the beginning of the pandemic belonged to three phylogenetic lineages according to the Pangolin classification: B.1, B.1.1, and B.1.1.129. All Novosibirsk isolates contained the D614G substitution in the Spike protein, two isolates werecharacterized by an additional M153T mutation, and one isolate wascharacterized by the L5F mutation.",
keywords = "COVID-19, epidemiology, first wave, phylogeny, Russia, SARS-CoV-2, Genome, Viral, Pandemics, SARS-CoV-2/genetics, Genomics, Humans, Phylogeny, Spike Glycoprotein, Coronavirus/genetics, COVID-19/epidemiology, Adult, Retrospective Studies, Mutation, Child",
author = "Natalia Palyanova and Ivan Sobolev and Alexander Alekseev and Alexandra Glushenko and Evgeniya Kazachkova and Alexander Markhaev and Yulia Kononova and Marina Gulyaeva and Lubov Adamenko and Olga Kurskaya and Yuhai Bi and Yuhua Xin and Kirill Sharshov and Alexander Shestopalov",
note = "Funding Information: This research was funded by RFBR and NSFC, CNPq, DST according to the research project 20-54-80012 of BRICS STI Framework Programme. Additionally research was partially supported by RSF according to the research project 22-24-00199 and by the State funded budget project 122012400086-2. Publisher Copyright: {\textcopyright} 2022 by the authors.",
year = "2022",
month = sep,
doi = "10.3390/v14092036",
language = "English",
volume = "14",
journal = "Viruses",
issn = "1999-4915",
publisher = "Multidisciplinary Digital Publishing Institute (MDPI)",
number = "9",

}

RIS

TY - JOUR

T1 - Genomic and Epidemiological Features of COVID-19 in the Novosibirsk Region during the Beginning of the Pandemic

AU - Palyanova, Natalia

AU - Sobolev, Ivan

AU - Alekseev, Alexander

AU - Glushenko, Alexandra

AU - Kazachkova, Evgeniya

AU - Markhaev, Alexander

AU - Kononova, Yulia

AU - Gulyaeva, Marina

AU - Adamenko, Lubov

AU - Kurskaya, Olga

AU - Bi, Yuhai

AU - Xin, Yuhua

AU - Sharshov, Kirill

AU - Shestopalov, Alexander

N1 - Funding Information: This research was funded by RFBR and NSFC, CNPq, DST according to the research project 20-54-80012 of BRICS STI Framework Programme. Additionally research was partially supported by RSF according to the research project 22-24-00199 and by the State funded budget project 122012400086-2. Publisher Copyright: © 2022 by the authors.

PY - 2022/9

Y1 - 2022/9

N2 - In this retrospective, single-center study, we conducted an analysis of 13,699 samples from different individuals obtained from the Federal Research Center of Fundamental and Translational Medicine, from 1 April to 30 May 2020 in Novosibirsk region (population 2.8 million people). We identified 6.49% positive for SARS-CoV-2 cases out of the total number of diagnostic tests, and 42% of them were from asymptomatic people. We also detected two asymptomatic people, who had no confirmed contact with patients with COVID-19. The highest percentage of positive samples was observed in the 80+ group (16.3%), while among the children and adults it did not exceed 8%. Among all the people tested, 2423 came from a total of 80 different destinations and only 27 of them were positive for SARS-CoV-2. Out of all the positive samples, 15 were taken for SARS-CoV-2 sequencing. According to the analysis of the genome sequences, the SARS-CoV-2 variants isolated in the Novosibirsk region at the beginning of the pandemic belonged to three phylogenetic lineages according to the Pangolin classification: B.1, B.1.1, and B.1.1.129. All Novosibirsk isolates contained the D614G substitution in the Spike protein, two isolates werecharacterized by an additional M153T mutation, and one isolate wascharacterized by the L5F mutation.

AB - In this retrospective, single-center study, we conducted an analysis of 13,699 samples from different individuals obtained from the Federal Research Center of Fundamental and Translational Medicine, from 1 April to 30 May 2020 in Novosibirsk region (population 2.8 million people). We identified 6.49% positive for SARS-CoV-2 cases out of the total number of diagnostic tests, and 42% of them were from asymptomatic people. We also detected two asymptomatic people, who had no confirmed contact with patients with COVID-19. The highest percentage of positive samples was observed in the 80+ group (16.3%), while among the children and adults it did not exceed 8%. Among all the people tested, 2423 came from a total of 80 different destinations and only 27 of them were positive for SARS-CoV-2. Out of all the positive samples, 15 were taken for SARS-CoV-2 sequencing. According to the analysis of the genome sequences, the SARS-CoV-2 variants isolated in the Novosibirsk region at the beginning of the pandemic belonged to three phylogenetic lineages according to the Pangolin classification: B.1, B.1.1, and B.1.1.129. All Novosibirsk isolates contained the D614G substitution in the Spike protein, two isolates werecharacterized by an additional M153T mutation, and one isolate wascharacterized by the L5F mutation.

KW - COVID-19

KW - epidemiology

KW - first wave

KW - phylogeny

KW - Russia

KW - SARS-CoV-2

KW - Genome, Viral

KW - Pandemics

KW - SARS-CoV-2/genetics

KW - Genomics

KW - Humans

KW - Phylogeny

KW - Spike Glycoprotein, Coronavirus/genetics

KW - COVID-19/epidemiology

KW - Adult

KW - Retrospective Studies

KW - Mutation

KW - Child

UR - http://www.scopus.com/inward/record.url?scp=85138403275&partnerID=8YFLogxK

UR - https://www.mendeley.com/catalogue/142b0815-14d3-3d43-87b5-01b8190e6bce/

U2 - 10.3390/v14092036

DO - 10.3390/v14092036

M3 - Article

C2 - 36146842

AN - SCOPUS:85138403275

VL - 14

JO - Viruses

JF - Viruses

SN - 1999-4915

IS - 9

M1 - 2036

ER -

ID: 38016007