| 李爽,高志勇,李伟红,田祎,刘白薇,沈玲羽,严寒秋,贾蕾,张代涛,王全意.北京市2019年腹泻病例中札如病毒基因特征分析[J].Chinese journal of Epidemiology,2023,44(11):1787-1794 |
| 北京市2019年腹泻病例中札如病毒基因特征分析 |
| Gene characteristics analysis on Sapovirus from diarrhea cases in Beijing, 2019 |
| Received:May 05, 2023 |
| DOI：10.3760/cma.j.cn112338-20230505-00278 |
| KeyWord: 腹泻 札如病毒 基因型 基因特征 |
| English Key Word: Diarrhea Sapovirus Genotype Gene characteristic |
| FundProject:首都卫生发展科研专项（2020-2-1011） |
| Author Name | Affiliation | E-mail | | Li Shuang | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Gao Zhiyong | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Li Weihong | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Tian Yi | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Liu Baiwei | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Shen Lingyu | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Yan Hanqiu | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | 13671113791@163.com | | Jia Lei | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Zhang Daitao | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | | | Wang Quanyi | Institute for Infectious Disease and Endemic Disease Control, Beijing Center for Disease Prevention and Control, Beijing 100013, China | |
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| Abstract: |
| 目的 了解北京市肠道门诊散发腹泻病例中札如病毒的基因型别及特征。方法 收集2019年北京市肠道门诊散发腹泻病例的粪便样本，应用实时荧光RT-PCR对样本进行札如病毒核酸检测，对阳性样本应用不同种RT-PCR方法进行札如病毒衣壳蛋白VP1区和聚合酶RdRp区部分基因片段扩增，对扩增阳性产物进行测序，应用BioEdit 7.0.9.0软件对序列进行比对，应用Mega 6.06软件构建进化树进行分析。结果 札如病毒总检出率为2.89%（44/1 522），<5岁病例的检出率为3.34%（18/539），≥5岁病例的检出率为2.64%（26/983）。衣壳蛋白VP1区基因测序成功23株，包括8个基因型（GⅠ.2型6株、GⅠ.1型和GⅡ.3型各5株，GⅠ.3型和GⅡ.5型各2株，GⅠ.5型、GⅡ.1型和GⅣ.1型各1株）；≥5岁病例占16株，GⅠ.2型构成比最高（37.50%，6/16），<5岁病例占7株，GⅠ.1型和GⅡ.3型构成比最高（均为42.86%，3/7）；每个基因型内部相似性为95.5%~100.0%，与不同年份、不同国家的人源或污水源的51株参考株相似性为92.2%~100.0%。聚合酶RdRp区测序成功25株8个基因型（9株GⅡ.P3型，4株GⅠ.P3型，GⅠ.P1型、GⅠ.P2型和GⅡ.P1型各为3株，GⅠ.P5型、GⅡ.P5型和GⅣ.P1型各为1株）；≥5岁病例占15株，GⅡ.P3型构成比最高（40.00%，6/15），<5岁病例占10株，GⅠ.P1型、GⅡ.P1型和GⅡ.P3型构成比最高（均为30.00%，3/10）；每个基因型内部相似性为94.0%~100.0%，与不同年份、不同国家的人源或污水源的39株参考株相似性为90.2%~99.1%。结论 札如病毒是北京市散发腹泻病例的病原之一，主要基因组为GⅠ和GⅡ，基因型多样且分散；≥5岁和<5岁人群腹泻病例主要基因型不同。 |
| English Abstract: |
| Objective To understand the gene characteristics of Sapovirus from diarrhea cases in diarrhoeal disease clinics in Beijing. Methods In 2019, stool samples were collected from diarrhea cases in diarrhoeal disease clinics in Beijing. The samples were used for the detection of nucleic acid of Sapovirus with real-time RT-PCR. Different RT-PCR methods were used for the partial gene segment amplification in the capsid protein VP1 region and the polymerase RdRp region, and sequencing was conducted for amplified positive products. The sequences were aligned with software BioEdit 7.0.9.0 and analyzed with software Mega 6.06. Results The overall detection rate of Sapovirus was 2.89% (44/1 522), the detection rate in children under 5 years old was 3.34% (18/539) and 2.64% (26/983) in children aged ≥ 5 years. The capsid protein VP1 region was sequenced in 23 strains belonging to 8 genotypes (GⅠ.2 had 6 strains, GⅠ.1 and GⅡ.3 had 5 strains, respectively, GⅠ.3 and GⅡ.5 had 2 strains, respectively, GⅠ.5, GⅡ.1 and GⅣ.1 had 1 strain, respectively). A total of 16 strains were detected in the cases aged ≥ 5 years, and the proportion of GⅠ.2 was highest (37.50%, 6/16), and 7 strains were detected in the cases under 5 years old, the proportions of GⅠ.1 and GⅡ.3 were highest (both 42.86%, 3/7); The internal similarity of each genotype was 95.5%-100.0%, and the similarity with the 51 reference strains of human or sewage sources in different years and different countries was 92.2%-100.0%. The polymerase RdRp region was sequenced in 25 strains belonging to 8 genotypes (GⅡ.P3 had 9 strains, GⅠ.P3 had 4 strains, GⅠ.P1, GⅠ.P2 and GⅡ.P1 had 3 strains, respectively, GⅠ.P5, GⅡ.P5 and GⅣ.P1 had 1 strain, respectively). Fifteen strains were detected in the cases aged ≥ 5 years, and GⅡ.P3 had the highest proportion (40.00%, 6/15). Ten strains were detected in the cases under 5 years old, and the proportions of GⅠ. P1, GⅡ.P1 and GⅡ.P3 were highest (all 30.00%, 3/10); The internal similarity of each genotype was 94.0%-100.0%, and the similarity with the 39 reference strains of human or sewage sources in different years and different countries was 90.2%-99.1%. Conclusions Sapovirus is one of the pathogens among diarrhea cases in Beijing. The main genome is GⅠ and GⅡ, and the genotypes are diverse and dispersed. The main genotypes of diarrhea cases in people aged ≥ 5 years and less than 5 years are different. |
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