SARS-CoV-2 variant transition dynamics are associated with vaccination rates, number of co-circulating variants, and convalescent immunity.
SARS-CoV-2 variant transition dynamics are associated with vaccination rates, number of co-circulating variants, and convalescent immunity.
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DOI：
10.1016/j.ebiom.2023.104534
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发表时间：
2023-05
期刊：
影响因子：
11.1
通讯作者：
Valle, Sara Y. Del
中科院分区：
文献类型：
--
作者：
Beesley, Lauren J.;Moran, Kelly R.;Wagh, Kshitij;Castro, Lauren A.;Theiler, James;Yoon, Hyejin;Fischer, Will;Hengartner, Nick W.;Korber, Bette;Valle, Sara Y. Del
在整个COVID-19大流行期间，SARS-CoV-2病毒持续进化，新的变体胜过现有变体，通常导致疾病传播的不同动态。在本文中，我们使用纵向测序数据进行了回顾性分析，以表征2020年10月至2023年1月期间230个国家和次国家地区的16种SARS-CoV-2变异波/转变的速度，日历时间和幅度的差异。然后，我们根据几个Omicron变体的变体行为对地理位置进行聚类，使我们能够识别出表现出类似变体转变的位置组。最后，我们探讨了这些变异波的异质性与时变因素之间的关系，包括人口的疫苗接种状况、政府政策和同时竞争的变异数量。这项工作证明了新出现的变异的行为与共同传播的变异的数量以及人口统计学背景之间的关联。我们还观察到高疫苗接种率与Mu和Delta变体转换之前的变体转换动态之间的关联。这些结果表明，一个新出现的变异的行为可能是敏感的免疫和人口背景的位置。此外，这项工作代表了迄今为止全球变异转换的最全面表征。 （LDRD），.
Throughout the COVID-19 pandemic, the SARS-CoV-2 virus has continued to evolve, with new variants outcompeting existing variants and often leading to different dynamics of disease spread. In this paper, we performed a retrospective analysis using longitudinal sequencing data to characterize differences in the speed, calendar timing, and magnitude of 16 SARS-CoV-2 variant waves/transitions for 230 countries and sub-country regions, between October 2020 and January 2023. We then clustered geographic locations in terms of their variant behavior across several Omicron variants, allowing us to identify groups of locations exhibiting similar variant transitions. Finally, we explored relationships between heterogeneity in these variant waves and time-varying factors, including vaccination status of the population, governmental policy, and the number of variants in simultaneous competition. This work demonstrates associations between the behavior of an emerging variant and the number of co-circulating variants as well as the demographic context of the population. We also observed an association between high vaccination rates and variant transition dynamics prior to the Mu and Delta variant transitions. These results suggest the behavior of an emergent variant may be sensitive to the immunologic and demographic context of its location. Additionally, this work represents the most comprehensive characterization of variant transitions globally to date. (LDRD), .
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影响因子：
24.8
作者：
通讯作者：
--
SARS-COV-2血统的估计可传播和影响B.1.1.7在英国。
DOI：
10.1126/science.abg3055
发表时间：
2021-04-09
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Davies NG;Abbott S;Barnard RC;Jarvis CI;Kucharski AJ;Munday JD;Pearson CAB;Russell TW;Tully DC;Washburne AD;Wenseleers T;Gimma A;Waites W;Wong KLM;van Zandvoort K;Silverman JD;CMMID COVID-19 Working Group;COVID-19 Genomics UK (COG-UK) Consortium;Diaz-Ordaz K;Keogh R;Eggo RM;Funk S;Jit M;Atkins KE;Edmunds WJ
通讯作者：
Edmunds WJ
影响因子：
30.3
作者：
Qu, Panke;Evans, John P.;Faraone, Julia N.;Zheng, Yi-Min;Carlin, Claire;Anghelina, Mirela;Stevens, Patrick;Fernandez, Soledad;Jones, Daniel;Lozanski, Gerard;Panchal, Ashish;Saif, Linda J.;Oltz, Eugene M.;Xu, Kai;Gumina, Richard J.;Liu, Shan-Lu
通讯作者：
Liu, Shan-Lu
影响因子：
24.8
作者：
通讯作者：
--
影响因子：
8.8
作者：
Gobeil SM;Janowska K;McDowell S;Mansouri K;Parks R;Manne K;Stalls V;Kopp MF;Henderson R;Edwards RJ;Haynes BF;Acharya P
通讯作者：
Acharya P