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Analysis of the Transmission of SARS-CoV-2 Delta VOC in Yantai, China, August 2021.
Sun, Yulou; Zhang, Yuwei; Liu, Zimo; Li, Xia; Liu, Juan; Tian, Xinghan; Gao, Qiao; Niu, Peihua; Zhai, Hongli; Sun, Zhenlu; Tian, Yunlong; Wang, Ji.
  • Sun Y; Yantai Center for Disease Control and Prevention, Yantai, China.
  • Zhang Y; Shandong Center for Disease Control and Prevention, Jinan, China.
  • Liu Z; Electrocardiogram Room, Yantai Yuhuangding Hospital, Yantai, China.
  • Li X; Yantai Center for Disease Control and Prevention, Yantai, China.
  • Liu J; Yantai Center for Disease Control and Prevention, Yantai, China.
  • Tian X; Department of Critical Care Medicine, Yantai Yuhuangding Hospital Affiliated to Qingdao University, Yantai, China.
  • Gao Q; Yantai Center for Disease Control and Prevention, Yantai, China.
  • Niu P; National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.
  • Zhai H; Research Institute of Luye Public Health, Ludong University, Yantai, China.
  • Sun Z; Yantai Center for Disease Control and Prevention, Yantai, China.
  • Tian Y; National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.
  • Wang J; Yantai Center for Disease Control and Prevention, Yantai, China.
Front Med (Lausanne) ; 9: 842719, 2022.
Article in English | MEDLINE | ID: covidwho-1903039
ABSTRACT

Objective:

Starting 31 July 2021, a SARS-CoV-2 outbreak occurred in Yantai, Shandong Province. The investigation showed that this outbreak was closely related to the epidemic at Nanjing Lukou Airport. In view of the fact that there were many people involved in this outbreak and these people had a complex activity area, the transmission route cannot be analyzed by simple epidemiological investigation. Here we combined the SARS-COV-2 whole-genome sequencing with epidemiology to determine the epidemic transmission route of Yantai.

Methods:

Thirteen samples of SARS-CoV-2 outbreak cases from 31 July to 4 August 2021 were collected and identified by fluorescence quantitative PCR, then whole-genome deep sequencing based on NGS was performed, and the data were analyzed and processed by biological software.

Results:

All sequences were over 29,000 bases in length and all belonged to B.1.617.2, which was the Delta strain. All sequences shared two amino acid deletions and 9 amino acid mutations in Spike protein compared with reference sequence NC_045512.2 (Wuhan virus strain). Compared with the sequence of Lukou Airport Delta strain, the homology was 99.99%. In order to confirm the transmission relationship between patients, we performed a phylogenetic tree analysis. The results showed that patient 1, patient 2, and patient 9 belong to an independent branch, and other patients have a close relationship. Combined with the epidemiological investigation, we speculated that the epidemic of Yantai was transmitted by two routes at the same time. Based on this information, our prevention and control work was carried out in two ways and effectively prevented the further spread of this epidemic.
Keywords

Full text: Available Collection: International databases Database: MEDLINE Type of study: Observational study Topics: Variants Language: English Journal: Front Med (Lausanne) Year: 2022 Document Type: Article Affiliation country: Fmed.2022.842719

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Full text: Available Collection: International databases Database: MEDLINE Type of study: Observational study Topics: Variants Language: English Journal: Front Med (Lausanne) Year: 2022 Document Type: Article Affiliation country: Fmed.2022.842719