Detection and whole-genome sequencing analysis of sapovirus in Qinghai Province in 2023
- Author:
TANG Zhijian
;
LI Chonghai
;
ZHAO Shengcang
- Publication Type:Journal Article
- Keywords:
Sapovirus;
viral diarrhea;
whole genome sequencing;
genotype;
amino acid variation
- From:
China Tropical Medicine
2024;24(11):1396-
- CountryChina
- Language:Chinese
-
Abstract:
Objective To conduct surveillance on sapovirus among hospitalized children under five years old with diarrhea in Qinghai Province in 2023, to preliminarily study the positive rate and prevalent genotypes of sapovirus, and to accumulate molecular epidemiological data on sapovirus infections in the province. Methods A surveillance sentinel was established at the Qinghai Provincial Women and Children's Hospital. According to the "National Viral Diarrhea Surveillance Program" (2021 edition), surveillance of viral diarrhea in hospitalized children under five with diarrhea was conducted. Fluorescent quantitative PCR was used to test patient samples, and whole-genome sequencing was performed on positive samples with a CT value ≤32. Sequence analysis of the VP1 gene of sapovirus was conducted, including phylogenetic tree analysis, homology analysis, average genetic distance analysis, and amino acid variation site analysis. Results The positive rate of sapovirus surveillance in Qinghai Province in 2023 was 3.89% (7/180). The VP1 gene sequence analysis showed that the virus had 6 amino acid substitutions and was the closest to the isolates from China in 2013 (MK111629.1), 2014 (MK111630.1), 2015 (MH477433.1), and 2016 (KX980412.1). This virus belongs to the GⅠ.1 genotype, which is currently the predominant genotype currently infecting China. The nucleotide homology between the five reference strains was 93.71%-98.81%, and the amino acid homology was 99.29%-99.82%. The average nucleotide genetic distance was 0.012-0.067. Conclusions The study found that the epidemic level of sapovirus diarrhea in Qinghai Province in 2023 was similar to that reported in several provinces from 2020 to 2023. This is the first time that whole-genome sequencing has been used to identify the genotype of sapovirus in the province, and sequence analysis indicates that the virus strain (23-14) is the dominant strain prevalent in China. This research provides sequence references for molecular evolution studies of sapovirus infections and serves as a reference for future pathogen detection of viral diarrhea and molecular epidemiological analysis of sapovirus.
- Full text:202511121023345096716.Detection and whole-genome sequencing analysis of sapovirus in Qinghai Province in 2023.pdf
