瑞丽市2021年7—11月COVID-19境外输入病例分子流行病学分析

郑学东; 赵晓南; 吴研鹏; 陈志元; 王岩; 余宏杰; 伏晓庆; 赵世文

doi:10.16462/j.cnki.zhjbkz.2023.02.006

瑞丽市2021年7—11月COVID-19境外输入病例分子流行病学分析

doi: 10.16462/j.cnki.zhjbkz.2023.02.006

1.
650500 昆明，昆明医科大学公共卫生学院
2.
650022 昆明，云南省疾病预防控制中心急性传染病防制所
3.
200032 上海，复旦大学公共卫生学院流行病学教研室，公共卫生安全教育部重点实验室

基金项目:

云南省科技厅重点研发计划 202103AC100006

详细信息

通讯作者:
赵世文，E-mail：ynzsw1368@sina.com

中图分类号: R181.3
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- 被引次数: 0
出版历程
- 收稿日期: 2022-11-03
- 修回日期: 2023-01-13
- 网络出版日期: 2023-02-20
- 刊出日期: 2023-02-10

Molecular epidemiological analysis of COVID-19 imported cases in Ruili from July to November, 2021

1.
School of public health, Kunming Medical University, Kunming 650500, China
2.
Acute Infectious Disease Prevention and Control Institute, Yunnan Center for Disease Control and Prevention, Kunming 650022, China
3.
School of Public Health/Key Laboratory of Public Health Safety, Ministry of Education, Fudan University, Shanghai 200032, China

Funds:

Key Research and Development Program of Yunnan Province Science and Technology Department 202103AC100006

More Information

Corresponding author: ZHAO Shi-wen, E-mail: ynzsw1368@sina.com

摘要

摘要: 目的分析瑞丽市境外陆路输入COVID-19病例的流行特征和基因组特征，为云南省边境疫情防控工作提供参考依据。方法收集2021年7月至11月瑞丽市境外陆路输入SARS-CoV-2感染者相关信息，对流行病学特征进行统计分析；筛选40例阳性样本使用Illumina公司二代测序平台进行高通量测序，分析基因分型情况及变异特征。结果研究期间瑞丽市累计报告SARS-CoV-2感染者796例，年龄范围1~85岁, 年龄M(IQR)为28.5(10)岁；男女性别比4.61∶1；职业以商业服务49.75%(396/796)为主；轻型、普通型占比95.60%。获得的34例测序结果按照Nextstrain分型法可分为3个型，24例属于21A(Delta)分支，9例属于21I(Delta)分支，1例属于20I(Alpha, V1)分支。结论本研究中的病例病毒基因分型主要分为三大支系且互相之间有一定差异，其中大部分为Delta株。应继续落实好边境管控措施，持续对境外输入病例进行病毒变异监测，以评估变异株对云南省疫情防控现状的威胁。
- 新型冠状病毒肺炎 /
- 境外输入 /
- 流行病学特征 /
- 全基因组测序
Abstract: Objective To analyze the epidemiological and genomic characteristics of COVID-19 cases imported by land in Ruili, and to provide reference for border epidemic prevention and control in Yunnan Province. Methods We collected information about SARS-CoV-2 infected individuals from overseas land in Ruili, Yunnan from July to November, 2021. The epidemiological characteristics were statistically analyzed. The second-generation sequencing platform of Illumina was used to conduct high-throughput sequencing on the selected 40 positive samples and to analyze their genotyping and variation characteristics. Results During the study period, Ruili City reported 796 COVID-19 cases from abroad.The median age of COVID-19 cases was 28.5 years (Interquantile range 10; range 1-85). The gender ratio between men and women was 4.61∶1; Most of these infected individuals engaged in business services, accounting for 49.75% (396/796); 95.60% of COVID-19 cases were mild and moderate cases. The sequencing results of 34 cases can be divided into three clades according to Nextstrain typing method, including 24 cases belong to 21A(Delta) clade, 9 cases belong to 21I(Delta) clade and 1 case belongs to 20I(Alpha V1) clade. Conclusions The virus genotypes of the cases in this study were mainly divided into three branches and there were some differences among them, most of which were Delta mutants.We should continue to implement border control measures and continue to monitor the virus mutation of imported cases, so as to evaluate the threat of the mutant strain to the current situation of epidemic prevention and control in Yunnan Province.
- COVID-19 /
- Imported case /
- Epidemiological characteristic /
- Whole genome sequencing

HTML全文

图 1 瑞丽市2021年7月1日—11月15日COVID-19境外陆路输入病例确诊时间分布

Figure 1. Diagnostic time distribution for COVID-19 from July 1th to November 15th, 2021 in Ruili

下载: 全尺寸图片幻灯片

图 2 瑞丽市796例境外陆路输入病例输入来源地区分布

Figure 2. Regional distribution of 796 cases imported by overseas land in Ruili City

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图 3 瑞丽市796例COVID-19病例临床分型

Figure 3. Clinical type of 796 COVID-19 cases in Ruili City

下载: 全尺寸图片幻灯片

图 4 瑞丽市34例测序样本病例的时间分布

Figure 4. Time distribution of 34 sequencing sample cases in Ruili City

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图 5 34条SARS-CoV-2序列与25个参比毒株基于最大似然法系统发育树

注：带“▲”标识的为本研究测定的序列。

Figure 5. 34 SARS-CoV-2 sequences and 25 reference strains were phylogenetic tree based on maximum likelihood method

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表 1 2021年7月1日—11月15日瑞丽市境外陆路输入COVID-19病例人群分布[n(%)]

Table 1. The population distribution of COVID-19 infections in Ruili from July 1th to November 15th, 2021 [n(%)]

基本情况	确诊病例(n=768)	无症状感染者(n=28)	合计(N=796)	χ²/Z值	P值
性别				0.062	0.804
男	630(82.03)	24(85.71)	654(82.16)
女	138(17.97)	4(14.29)	142(17.84)
年龄(x±s, 岁)	29.29±9.02	27.36±5.46		-1.167	0.243
0~＜10	7(0.91)	0(0.00)	7(0.88)
10~＜20	75(9.77)	1(3.57)	76(9.55)
20~＜30	344(44.79)	19(67.86)	363(45.60)
30~＜40	260(33.85)	7(25.00)	267(33.54)
40~＜50	59(7.68)	1(3.57)	60(7.54)
50~＜60	19(2.47)	0(0.00)	19(2.39)
60~＜70	3(0.39)	0(0.00)	3(0.38)
70~＜80	0(0.00)	0(0.00)	0(0.00)
≥80	1(0.13)	0(0.00)	1(0.13)
职业				64.468	< 0.001
餐饮食品业	151(19.66)	0(0.00)	151(18.97)
商业服务	390(50.78)	6(21.43)	396(49.75)
工人/农民	101(13.15)	3(10.71)	104(13.07)
家务及待业	37(4.82)	9(32.14)	46(5.78)
教师/学生	8(1.04)	0(0.00)	8(1.01)
散居儿童	10(1.30)	0(0.00)	10(1.26)
其他	719.24)	1035.71)	8110.18)

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表 2 34条全基因组序列核苷酸突变位点统计表

Table 2. Statistical table of nucleotide mutation sites of 34 whole genome sequences

分支	突变位点
簇21A	G210T, C241T, C1191T, C1267T, C3037T, C5184T, C6539T, C9891T, T11418C, T12946C, C14408T, G15451A, C16466T, A20262G, C20320T, C21618G, G21987A, T22917G, C22995A, A23403G, C23604G, G24410A, A28461G, G28881T, G29402T, G29427A, G29742T
簇21I	G210T, C241T, C3037T, C5184T, A5584G, C9891T, T11418C, C11514T, C13019T, C14408T, G15451A, C16466T, C21618G, G21987A, C22227T, T22917G, C22995A, A23403G, C23604G, G24410A, A28461G, G28881T, G29402T, G29742T
簇20I	C241T, C913T, C1825T, C3037T, C3267T, C5388A, C5986T, T6954C, T7462C, C11750T, C14408T, C14676T, T15096C, C15279T, T16176C, C17862T, C21588T, G22273T, C23029T, A23063T, C23063A, A23403G, C23604A, C23709T, C24109T, A28095T, A28111G, G28280C, A28281T, T28282A, G28436T, G28881A, G28882A, G28883C, C28977T, C29149T, C29585T, G29868C

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