Complete genome analysis of a sapovirus in a mixed infected patient of hand foot and mouth disease
10.3760/cma.j.issn.1003-9279.2017.01.011
- VernacularTitle: 1株与手足口病病原混合感染的札如病毒全基因组序列测定与分析
- Author:
Chunhua WANG
1
;
Wei HUANG
2
;
Shuaifeng ZHOU
2
;
Panhui YU
3
;
Suxia DUAN
3
;
Yi ZHANG
1
;
Lidong GAO
2
;
Xuejue MA
1
Author Information
1. National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
2. Hunan Provincial Center for Disease Control and Prevention, Changsha 410005, China
3. Hebei Medical University, Shijiazhuang 050017, China
- Publication Type:Journal Article
- Keywords:
Sapovirus;
Deep sequencing;
Complete genome sequence;
Phylogenetic analysis
- From:
Chinese Journal of Experimental and Clinical Virology
2017;31(1):53-56
- CountryChina
- Language:Chinese
-
Abstract:
Objective:To understand the potential viral pathogens other than enteroviruses existing in samples of hand foot and mouth disease (HFMD) patient and study their molecular feature and genotype.
Methods:The deep sequencing analysis of a fecal specimen collected from HFMD patient was conducted by metagenomics and bioinformatics.
Results:Enterovirus A71 and sapovirus mixed infection was found in this case. The nucleic acid of sapovirus was confirmed positive by RT-PCR and the 7 429 bp complete genome sequence of sapovirus was obtained by assembling sequencing reads which consisted of 3 open reading frames. Phylogenetic analysis revealed that this strain of virus should belong to the genotype 1 of sapovirus having a homology of 99.4% with sapovirus Hu/G1/Zhejiang1/China/2014 strain, which is a currently predominant genotype circulating in China.
Conclusions:The sapovirus, which is a predominant strain circulating in China, was a mixed infected causative agent existing in HFMD sample identified by deep sequencing. This study will serve as a reference for pathogen detection of HFMD and diarrheal related diseases, as well as provide a sequence reference for molecular feature study of sapovirus in China in the future.
