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Article

Identification of Epidemiological Traits by Analysis of SARS−CoV−2 Sequences

National Center for Toxicological Research, U.S. Food and Drug Administration, 3900 NCTR Road, Jefferson, AR 72079, USA
*
Author to whom correspondence should be addressed.
These authors made equal contributions.
Academic Editors: Jennifer R. Brum and Simon Roux
Received: 25 February 2021 / Revised: 15 April 2021 / Accepted: 25 April 2021 / Published: 27 April 2021
(This article belongs to the Special Issue Viromics)
Severe acute respiratory syndrome coronavirus 2 (SARS−CoV−2) has caused the ongoing global COVID-19 pandemic that began in late December 2019. The rapid spread of SARS−CoV−2 is primarily due to person-to-person transmission. To understand the epidemiological traits of SARS−CoV−2 transmission, we conducted phylogenetic analysis on genome sequences from >54K SARS−CoV−2 cases obtained from two public databases. Hierarchical clustering analysis on geographic patterns in the resulting phylogenetic trees revealed a co-expansion tendency of the virus among neighboring countries with diverse sources and transmission routes for SARS−CoV−2. Pairwise sequence similarity analysis demonstrated that SARS−CoV−2 is transmitted locally and evolves during transmission. However, no significant differences were seen among SARS−CoV−2 genomes grouped by host age or sex. Here, our identified epidemiological traits provide information to better prevent transmission of SARS−CoV−2 and to facilitate the development of effective vaccines and therapeutics against the virus. View Full-Text
Keywords: SARS−CoV−2; COVID-19; genome; sequence; epidemiological trait; phylogenetic analysis; pattern SARS−CoV−2; COVID-19; genome; sequence; epidemiological trait; phylogenetic analysis; pattern
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MDPI and ACS Style

Pan, B.; Ji, Z.; Sakkiah, S.; Guo, W.; Liu, J.; Patterson, T.A.; Hong, H. Identification of Epidemiological Traits by Analysis of SARS−CoV−2 Sequences. Viruses 2021, 13, 764. https://0-doi-org.brum.beds.ac.uk/10.3390/v13050764

AMA Style

Pan B, Ji Z, Sakkiah S, Guo W, Liu J, Patterson TA, Hong H. Identification of Epidemiological Traits by Analysis of SARS−CoV−2 Sequences. Viruses. 2021; 13(5):764. https://0-doi-org.brum.beds.ac.uk/10.3390/v13050764

Chicago/Turabian Style

Pan, Bohu, Zuowei Ji, Sugunadevi Sakkiah, Wenjing Guo, Jie Liu, Tucker A. Patterson, and Huixiao Hong. 2021. "Identification of Epidemiological Traits by Analysis of SARS−CoV−2 Sequences" Viruses 13, no. 5: 764. https://0-doi-org.brum.beds.ac.uk/10.3390/v13050764

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