tetano
Editor, Senior Moderator
Gene
. 2021 Feb 12;145496.
doi: 10.1016/j.gene.2021.145496. Online ahead of print.
Transmission dynamics of SARS-CoV-2 on the Diamond Princess uncovered using viral genome sequence analysis
Kunikazu Hoshino[SUP] 1 [/SUP], Tatsuji Maeshiro[SUP] 2 [/SUP], Nao Nishida[SUP] 3 [/SUP], Masaya Sugiyama[SUP] 3 [/SUP], Jiro Fujita[SUP] 2 [/SUP], Takashi Gojobori[SUP] 4 [/SUP], Masashi Mizokami[SUP] 3 [/SUP]
Affiliations
Abstract
An outbreak of coronavirus disease 2019 (COVID-19) caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) occurred aboard the Diamond Princess cruise ship between her January 20 departure and late February 2020. Here, we used phylodynamic analyses to investigate the transmission dynamics of SARS-CoV-2 during the outbreak. Using a Bayesian coalescent-based method, the estimated mean nucleotide substitution rate of 240 SARS-CoV-2 whole-genome sequences was approximately 7.13 ? 10[SUP]-4[/SUP] substitutions per site per year. Population dynamics and the effective reproductive number (R[SUB]e[/SUB]) of SARS-CoV-2 infections were estimated using a Bayesian framework. The estimated origin of the outbreak was January 21, 2020. The infection spread substantially before quarantine on February 5. The R[SUB]e[/SUB] peaked at 6.06 on February 4 and gradually declined to 1.51, suggesting that transmission continued slowly even after quarantine. These findings highlight the high transmissibility of SARS-CoV-2 and the need for effective measures to control outbreaks in confined settings.
. 2021 Feb 12;145496.
doi: 10.1016/j.gene.2021.145496. Online ahead of print.
Transmission dynamics of SARS-CoV-2 on the Diamond Princess uncovered using viral genome sequence analysis
Kunikazu Hoshino[SUP] 1 [/SUP], Tatsuji Maeshiro[SUP] 2 [/SUP], Nao Nishida[SUP] 3 [/SUP], Masaya Sugiyama[SUP] 3 [/SUP], Jiro Fujita[SUP] 2 [/SUP], Takashi Gojobori[SUP] 4 [/SUP], Masashi Mizokami[SUP] 3 [/SUP]
Affiliations
- PMID: 33588037
- DOI: 10.1016/j.gene.2021.145496
Abstract
An outbreak of coronavirus disease 2019 (COVID-19) caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) occurred aboard the Diamond Princess cruise ship between her January 20 departure and late February 2020. Here, we used phylodynamic analyses to investigate the transmission dynamics of SARS-CoV-2 during the outbreak. Using a Bayesian coalescent-based method, the estimated mean nucleotide substitution rate of 240 SARS-CoV-2 whole-genome sequences was approximately 7.13 ? 10[SUP]-4[/SUP] substitutions per site per year. Population dynamics and the effective reproductive number (R[SUB]e[/SUB]) of SARS-CoV-2 infections were estimated using a Bayesian framework. The estimated origin of the outbreak was January 21, 2020. The infection spread substantially before quarantine on February 5. The R[SUB]e[/SUB] peaked at 6.06 on February 4 and gradually declined to 1.51, suggesting that transmission continued slowly even after quarantine. These findings highlight the high transmissibility of SARS-CoV-2 and the need for effective measures to control outbreaks in confined settings.