Статья

Global landscape of SARS-CoV-2 genomic surveillance and data sharing

Zhiyuan ChenDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaAndrew S. AzmanDepartment of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USAXinhua ChenDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaJunyi ZouDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaYuyang TianDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaRuijia SunDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaXiangyanyu XuDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaYani WuSchool of Public Health, School of Medicine, Shanghai Jiao Tong University, Shanghai, ChinaWanying LuDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaShijia GeDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaZeyao ZhaoDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaJuan YangDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, ChinaDaniel T. LeungDivision of Infectious Diseases, University of Utah School of Medicine, Salt Lake City, UT, USADaryl DommanCenter for Global Health, Department of Internal Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, USAHongjie YuDepartment of Infectious Diseases, Huashan Hospital, School of Public Health, Fudan University, Shanghai, China. [email protected]

2022en

ABI

Аннотация

Genomic surveillance has shaped our understanding of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants. We performed a global landscape analysis on SARS-CoV-2 genomic surveillance and genomic data using a collection of country-specific data. Here, we characterize increasing circulation of the Alpha variant in early 2021, subsequently replaced by the Delta variant around May 2021. SARS-CoV-2 genomic surveillance and sequencing availability varied markedly across countries, with 45 countries performing a high level of routine genomic surveillance and 96 countries with a high availability of SARS-CoV-2 sequencing. We also observed a marked heterogeneity of sequencing percentage, sequencing technologies, turnaround time and completeness of released metadata across regions and income groups. A total of 37% of countries with explicit reporting on variants shared less than half of their sequences of variants of concern (VOCs) in public repositories. Our findings indicate an urgent need to increase timely and full sharing of sequences, the standardization of metadata files and support for countries with limited sequencing and bioinformatics capacity.

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Идентификаторы

DOI: 10.1038/s41588-022-01033-y

Цитирования и источники

Цитирований: 2Использованных источников: 0

Показатели — AkademScholar