Complete Genome Sequence of a Sapovirus from a Child in Zhejiang, China

Overview

Journal Virus Genes

Specialties Microbiology
Molecular Biology

Date 2016 Apr 29

PMID 27122130

Citations 2

Authors

Xiaohong Zhou

Yi Sun

Xiaochun Shang

Jian Gao

Xueqin Zhao

Huiqun Shuai

Rui Zhang

Yanjun Zhang

Affiliations

Soon will be listed here.

Abstract

Although Sapovirus (Caliciviridae) has been accepted as one of the causes of acute gastroenteritis worldwide, little is known about the genetic characteristics of the whole genome of sapoviruses in China, especially those that infect humans. Here we report the complete genome sequence of a sapovirus strain, Human/Zhejiang1/2015/China, obtained from a child with acute gastroenteritis in Hangzhou, Zhejiang Province, China. Samples were collected and delivered to the CDC laboratories and were detected by RT-PCR. Sanger sequencing was used to obtain the full genome and molecular characterization of the genome was determined. A phylogenetic analysis of the genome was also performed. The results indicated that Human/Zhejiang1/2015/China belongs to Genogroup I. No recombination events were detected. This is the first complete sequence from a child to be reported in China. The sequence information is important for surveillance of this emerging gastrointestinal infection.

Citing Articles

The analysis of the genotype of Sapovirus outbreaks in Zhejiang Province.

Su L, Mao H, Sun Y, Yan H, Ge Q, Gong L Virol J. 2023; 20(1):268.

PMID: 37974193 PMC: 10655437. DOI: 10.1186/s12985-023-02202-z.

Human sapovirus GI.2 and GI.3 from children with acute gastroenteritis in northern Brazil.

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References

Lee L, Cebelinski E, Fuller C, Keene W, Smith K, Vinje J . Sapovirus outbreaks in long-term care facilities, Oregon and Minnesota, USA, 2002-2009. Emerg Infect Dis. 2012; 18(5):873-6. PMC: 3358050. DOI: 10.3201/eid1805.111843. View

Chen R, Neill J, Noel J, Hutson A, Glass R, Estes M . Inter- and intragenus structural variations in caliciviruses and their functional implications. J Virol. 2004; 78(12):6469-79. PMC: 416503. DOI: 10.1128/JVI.78.12.6469-6479.2004. View

Martin D, Rybicki E . RDP: detection of recombination amongst aligned sequences. Bioinformatics. 2000; 16(6):562-3. DOI: 10.1093/bioinformatics/16.6.562. View

Kobayashi S, Fujiwara N, Yasui Y, Yamashita T, Hiramatsu R, Minagawa H . A foodborne outbreak of sapovirus linked to catered box lunches in Japan. Arch Virol. 2012; 157(10):1995-7. DOI: 10.1007/s00705-012-1394-8. View

Oka T, Saif L, Yang Z, Scheuer K, Stoltzfus G, Wang Q . First Complete Genome Sequences of Genogroup VI Porcine Sapoviruses. Genome Announc. 2014; 2(2). PMC: 3974945. DOI: 10.1128/genomeA.00275-14. View

Okada M, Yamashita Y, Oseto M, Shinozaki K . The detection of human sapoviruses with universal and genogroup-specific primers. Arch Virol. 2006; 151(12):2503-9. DOI: 10.1007/s00705-006-0820-1. View

Farkas T, Zhong W, Jing Y, Huang P, Espinosa S, Martinez N . Genetic diversity among sapoviruses. Arch Virol. 2004; 149(7):1309-23. DOI: 10.1007/s00705-004-0296-9. View

Liu X, Yamamoto D, Saito M, Imagawa T, Ablola A, Tandoc 3rd A . Molecular detection and characterization of sapovirus in hospitalized children with acute gastroenteritis in the Philippines. J Clin Virol. 2015; 68:83-8. DOI: 10.1016/j.jcv.2015.05.001. View

Posada D, Crandall K . MODELTEST: testing the model of DNA substitution. Bioinformatics. 1999; 14(9):817-8. DOI: 10.1093/bioinformatics/14.9.817. View

10.

Madeley C, Cosgrove B . Letter: Caliciviruses in man. Lancet. 1976; 1(7952):199-200. DOI: 10.1016/s0140-6736(76)91309-x. View

11.

Akihara S, Phan T, Nguyen T, Yagyu F, Okitsu S, Muller W . Identification of sapovirus infection among Japanese infants in a day care center. J Med Virol. 2005; 77(4):595-601. DOI: 10.1002/jmv.20497. View

12.

Oka T, Wang Q, Katayama K, Saif L . Comprehensive review of human sapoviruses. Clin Microbiol Rev. 2015; 28(1):32-53. PMC: 4284302. DOI: 10.1128/CMR.00011-14. View

13.

Oka T, Mori K, Iritani N, Harada S, Ueki Y, Iizuka S . Human sapovirus classification based on complete capsid nucleotide sequences. Arch Virol. 2011; 157(2):349-52. DOI: 10.1007/s00705-011-1161-2. View

14.

Smith J . Analyzing the mosaic structure of genes. J Mol Evol. 1992; 34(2):126-9. DOI: 10.1007/BF00182389. View

15.

Dufkova L, Scigalkova I, Moutelikova R, Malenovska H, Prodelalova J . Genetic diversity of porcine sapoviruses, kobuviruses, and astroviruses in asymptomatic pigs: an emerging new sapovirus GIII genotype. Arch Virol. 2012; 158(3):549-58. DOI: 10.1007/s00705-012-1528-z. View

16.

Hansman G, Takeda N, Oka T, Oseto M, Hedlund K, Katayama K . Intergenogroup recombination in sapoviruses. Emerg Infect Dis. 2006; 11(12):1916-20. PMC: 3367643. DOI: 10.3201/eid1112.050722. View

17.

Svraka S, Vennema H, van der Veer B, Hedlund K, Thorhagen M, Siebenga J . Epidemiology and genotype analysis of emerging sapovirus-associated infections across Europe. J Clin Microbiol. 2010; 48(6):2191-8. PMC: 2884469. DOI: 10.1128/JCM.02427-09. View

18.

Hansman G, Oka T, Takeda N . Sapovirus-like particles derived from polyprotein. Virus Res. 2008; 137(2):261-5. DOI: 10.1016/j.virusres.2008.07.002. View