tetano
Editor, Senior Moderator
Virol J
. 2023 Apr 2;20(1):59.
doi: 10.1186/s12985-023-02018-x.
A comparison of transmissibility of SARS-CoV-2 variants of concern
S S Manathunga[SUP] 1 [/SUP], I A Abeyagunawardena[SUP] 2 [/SUP], S D Dharmaratne[SUP] 3 4 [/SUP]
Affiliations
Abstract
Background: The World Health Organization (WHO) has currently detected five Variants of Concern of SARS-CoV-2 having the WHO labels of 'Alpha', 'Beta', 'Gamma', 'Delta' and 'Omicron'. We aimed to assess and compare the transmissibility of the five VOCs in terms of basic reproduction number, time-varying reproduction number and growth rate.
Methods: Publicly available data on the number of analyzed sequences over two-week windows for each country were extracted from covariants.org and GISAID initiative database. The ten countries which reported the highest number of analyzed sequences for each of the five variants were included in the final dataset and was analyzed using R language. The epidemic curves for each variant were estimated utilizing the two-weekly discretized incidence data using local regression (LOESS) models. The basic reproduction number was estimated with the exponential growth rate method. The time-varying reproduction number was calculated for the estimated epidemic curves by the ratio of the number of new infections generated at time step t to the total infectiousness of infected individuals at time t, using the EpiEstim package.
Results: The highest R0 for the variants Alpha (1.22), Beta (1.19), Gamma (1.21), Delta (1.38) and Omicron (1.90) were reported from Japan, Belgium, the United States, France and South Africa, respectively. Nine out of ten epidemic curves with the highest estimated growth rates and reproduction numbers were due to the Omicron variant indicating the highest transmissibility.
Conclusions: The transmissibility was highest in the Omicron variant followed by Delta, Alpha, Gamma and Beta respectively.
Keywords: COVID-19 variants; Coronavirus; Transmissibility.
. 2023 Apr 2;20(1):59.
doi: 10.1186/s12985-023-02018-x.
A comparison of transmissibility of SARS-CoV-2 variants of concern
S S Manathunga[SUP] 1 [/SUP], I A Abeyagunawardena[SUP] 2 [/SUP], S D Dharmaratne[SUP] 3 4 [/SUP]
Affiliations
- PMID: 37009864
- DOI: 10.1186/s12985-023-02018-x
Abstract
Background: The World Health Organization (WHO) has currently detected five Variants of Concern of SARS-CoV-2 having the WHO labels of 'Alpha', 'Beta', 'Gamma', 'Delta' and 'Omicron'. We aimed to assess and compare the transmissibility of the five VOCs in terms of basic reproduction number, time-varying reproduction number and growth rate.
Methods: Publicly available data on the number of analyzed sequences over two-week windows for each country were extracted from covariants.org and GISAID initiative database. The ten countries which reported the highest number of analyzed sequences for each of the five variants were included in the final dataset and was analyzed using R language. The epidemic curves for each variant were estimated utilizing the two-weekly discretized incidence data using local regression (LOESS) models. The basic reproduction number was estimated with the exponential growth rate method. The time-varying reproduction number was calculated for the estimated epidemic curves by the ratio of the number of new infections generated at time step t to the total infectiousness of infected individuals at time t, using the EpiEstim package.
Results: The highest R0 for the variants Alpha (1.22), Beta (1.19), Gamma (1.21), Delta (1.38) and Omicron (1.90) were reported from Japan, Belgium, the United States, France and South Africa, respectively. Nine out of ten epidemic curves with the highest estimated growth rates and reproduction numbers were due to the Omicron variant indicating the highest transmissibility.
Conclusions: The transmissibility was highest in the Omicron variant followed by Delta, Alpha, Gamma and Beta respectively.
Keywords: COVID-19 variants; Coronavirus; Transmissibility.