Genomic Epidemiology of SARS-CoV-2 in Guangdong Province, China
2020
Lu, Jing | Du Plessis, Louis | Liu, Zhe | Hill, Verity | Kang, Min | Lin, Huifang | Sun, Jiufeng | François, Sarah | Kraemer, Moritz U.G. | Faria, Nuno, R | Mccrone, John, T | Peng, Jinju | Xiong, Qianling | Yuan, Runyu | Zeng, Lilian | Zhou, Pingping | Liang, Chumin | Yi, Lina | Liu, Jun | Xiao, Jianpeng | Hu, Jianxiong | Liu, Tao | Ma, Wenjun | Li, Wei | Su, Juan | Zheng, Huanying | Peng, Bo | Fang, Shisong | Su, Wenzhe | Li, Kuibiao | Sun, Ruilin | Bai, Ru | Tang, Xi | Liang, Minfeng | Quick, Josh | Song, Tie | Rambaut, Andrew | Loman, Nick | Raghwani, Jayna | Pybus, Oliver, G | Ke, Changwen | Guangdong Provincial Center for Disease Control and Prevention ; Guangdong Provincial Center for Disease Control and Prevention | Department of Zoology [Oxford] ; University of Oxford | Institute of Evolutionary Biology [Edinburgh] ; School of Biological Sciences [Edinburgh] ; University of Edinburgh-University of Edinburgh | Shenzhen Center for Disease Control and Prevention | Guangzhou Center for Disease Control and Prevention | Guangdong Provincial Second People’s hospital | The First Foshan People's Hospital [Foshan, China] | Institute of Microbiology and Infection ; University of Birmingham [Birmingham]
International audience
Afficher plus [+] Moins [-]anglais. Coronavirus disease 2019 (COVID-19) is caused by SARS-CoV-2 infection and was first reported in central China in December 2019. Extensive molecular surveillance in Guangdong, China’s most populous province, during early 2020 resulted in 1,388 reported RNA-positive cases from 1.6 million tests. In order to understand the molecular epidemiology and genetic diversity of SARS-CoV-2 in China, we generated 53 genomes from infected individuals in Guangdong using a combination of metagenomic sequencing and tiling amplicon ap- proaches. Combined epidemiological and phylogenetic analyses indicate multiple independent introduc- tions to Guangdong, although phylogenetic clustering is uncertain because of low virus genetic variation early in the pandemic. Our results illustrate how the timing, size, and duration of putative local transmission chains were constrained by national travel restrictions and by the province’s large-scale intensive surveil- lance and intervention measures. Despite these successes, COVID-19 surveillance in Guangdong is still required, because the number of cases imported from other countries has increased.
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