1
|
Xue L, Cai W, Zhang L, Gao J, Dong R, Li Y, Wu H, Zhang J, Zeng H, Ye Q, Ding Y, Wu Q. Prevalence and genetic diversity of human sapovirus associated with sporadic acute gastroenteritis in South China from 2013 to 2017. J Med Virol 2019; 91:1759-1764. [PMID: 31180139 DOI: 10.1002/jmv.25511] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Accepted: 06/03/2019] [Indexed: 11/07/2022]
Abstract
Human sapovirus (SaV) is an important viral agent for acute diarrhea worldwide, but timely prevalence data of human SaV in South China are still lacking. In this study, a 4-year surveillance was conducted to characterize the prevalence and genetic characteristics of the circulating SaV associated with sporadic diarrhea in South China. From November 2013 to October 2017, 569 fecal samples from patients with acute diarrhea were collected. SaV was detected in 11 samples with a positive rate of 1.93%. Three human genogroups of GI, GII, and GIV were identified, including five GI.1 strains, three GI.2 strains, one GI.3 strain, one GII.8 strain, and one GIV strain. Furthermore, multiple alignments of complete capsid protein VP1 genes of five local GI.1 strains and other available GI.1 strains in GenBank were performed. Average pairwise identities were calculated at 95.33% and 99.36% at nucleotide and amino acid levels, and only six variable amino acid sites were found during its 36-years' evolution process. GI.1 strains could be further phylogenetically divided into four clusters with an approximate temporal evolution pattern, and local strains belonged to Cluster-d with other four strains from China and Japan. In summary, SaV was identified as an etiological agent responsible for sporadic gastroenteritis in Guangzhou with a low prevalence rate as in other Chinese cities, but its high genetic diversity suggested the necessity of continuous SaV surveillance in the future.
Collapse
Affiliation(s)
- Liang Xue
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Weicheng Cai
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Le Zhang
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Junshan Gao
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Ruimin Dong
- Department of Cardiology, Laboratory Department, The Third Affiliated Hospital of Sun Yat-sen University, Guangzhou, P.R. China
| | - Yonglai Li
- Department of Cardiology, Laboratory Department, The Third Affiliated Hospital of Sun Yat-sen University, Guangzhou, P.R. China
| | - Haoming Wu
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Jumei Zhang
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Haiyan Zeng
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Qinghua Ye
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| | - Yu Ding
- Department of Food Science & Technology, Jinan University, Guangzhou, P. R. China.,Institute of Food Safety & Nutrition, Jinan University, Guangzhou, P. R. China
| | - Qingping Wu
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangzhou, P. R. China
| |
Collapse
|
2
|
Cilli A, Luchs A, Leal E, Gill D, Milagres FADP, Komninakis SV, Brustulin R, Teles MDAR, Lobato MCABS, Chagas RTD, Abrão MDFNDS, Soares CVDDA, Deng X, Delwart E, Sabino EC, da Costa AC. Human sapovirus GI.2 and GI.3 from children with acute gastroenteritis in northern Brazil. Mem Inst Oswaldo Cruz 2019; 114:e180574. [PMID: 30970051 PMCID: PMC6452520 DOI: 10.1590/0074-02760180574] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Accepted: 03/18/2019] [Indexed: 01/04/2023] Open
Abstract
Human sapoviruses (HSaV) are considered important causative agents of acute gastroenteritis in humans worldwide. However, knowledge of the genetic characteristics of the whole genome of HSaV in Brazil is limited. Here we report the complete genome sequences of six HSaVs GI.2 and two GI.3 strains obtained from children with acute gastroenteritis in the Northern region of Brazil. Next generation sequencing was used to obtain the full genome and molecular characterization of the genome was performed. Phylogenetic analysis of the genome was also performed. Only one complete HSaV GI.2 genome characterization in the country precedes that of the present study. This is the first complete genome sequence of genotype GI.3 in Brazil. The data obtained in this investigation can contribute to the augmentation of the database on the molecular diversity of HSaVs strains circulating in Brazil, and to the improvement of current typing protocols.
Collapse
Affiliation(s)
- Audrey Cilli
- Instituto Adolfo Lutz, Centro de Virologia, Núcleo de Doenças
Entéricas, São Paulo, SP, Brasil
| | - Adriana Luchs
- Instituto Adolfo Lutz, Centro de Virologia, Núcleo de Doenças
Entéricas, São Paulo, SP, Brasil
| | - Elcio Leal
- Universidade Federal do Pará, Instituto de Ciências Biológicas,
Belém, PA, Brasil
| | - Danielle Gill
- Universidade de São Paulo, Instituto de Medicina Tropical, São
Paulo, SP, Brasil
- Universidade de São Paulo, Faculdade de Medicina, LIM/46, São Paulo,
SP, Brasil
| | - Flavio Augusto de Pádua Milagres
- Universidade Federal de Tocantins, Palmas, TO, Brasil
- Laboratório Central de Saúde Pública do Tocantins, Palmas, TO,
Brasil
- Secretaria da Saúde do Tocantins, Palmas, TO, Brasil
| | - Shirley Vasconcelos Komninakis
- Faculdade de Medicina do ABC, Programa de Pós-Graduação em Ciências
da Saúde, Santo André, SP, Brasil
- Universidade Federal de São Paulo, Laboratório de Retrovirologia,
São Paulo, SP, Brasil
| | - Rafael Brustulin
- Universidade Federal de Tocantins, Palmas, TO, Brasil
- Laboratório Central de Saúde Pública do Tocantins, Palmas, TO,
Brasil
- Secretaria da Saúde do Tocantins, Palmas, TO, Brasil
| | | | | | - Rogério Togisaki das Chagas
- Laboratório Central de Saúde Pública do Tocantins, Palmas, TO,
Brasil
- Secretaria da Saúde do Tocantins, Palmas, TO, Brasil
| | | | | | - Xutao Deng
- Blood Systems Research Institute, San Francisco, CA, USA
- University of California, Department Laboratory Medicine, San
Francisco, CA, USA
| | - Eric Delwart
- Blood Systems Research Institute, San Francisco, CA, USA
- University of California, Department Laboratory Medicine, San
Francisco, CA, USA
| | - Ester Cerdeira Sabino
- Universidade de São Paulo, Instituto de Medicina Tropical, São
Paulo, SP, Brasil
- Universidade de São Paulo, Faculdade de Medicina, LIM/46, São Paulo,
SP, Brasil
| | - Antonio Charlys da Costa
- Universidade de São Paulo, Instituto de Medicina Tropical, São
Paulo, SP, Brasil
- Universidade de São Paulo, Faculdade de Medicina, LIM/46, São Paulo,
SP, Brasil
| |
Collapse
|
3
|
Wang MD J, Li PhD Y, Kong MD X, Li PhD H, Zhang BA Q, Jin PhD M, Wang PhD Y, Duan PhD Z. Two gastroenteritis outbreaks caused by sapovirus in Shenzhen, China. J Med Virol 2018; 90:1695-1702. [DOI: 10.1002/jmv.25236] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2017] [Accepted: 05/14/2018] [Indexed: 12/22/2022]
Affiliation(s)
- Jinjin Wang MD
- College of Food Science and TechnologyShanghai Ocean UniversityShanghai China
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and PreventionChinese Center for Disease Control and Prevention Beijing China
| | - Yuan Li PhD
- Shenzhen Baoan Center for Disease Control and Prevention Shenzhen Guangdong China
| | - Xiangxu Kong MD
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and PreventionChinese Center for Disease Control and Prevention Beijing China
| | - Huiying Li PhD
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and PreventionChinese Center for Disease Control and Prevention Beijing China
| | - Qing Zhang BA
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and PreventionChinese Center for Disease Control and Prevention Beijing China
| | - Miao Jin PhD
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and PreventionChinese Center for Disease Control and Prevention Beijing China
| | - Yongjie Wang PhD
- College of Food Science and TechnologyShanghai Ocean UniversityShanghai China
- Laboratory of Quality and Safety Risk Assessment for Aquatic Products on Storage and PreservationMinistry of Agriculture (Shanghai) Shanghai China
| | - Zhaojun Duan PhD
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and PreventionChinese Center for Disease Control and Prevention Beijing China
| |
Collapse
|