Whole-genome analysis of a rare human rotavirus strain of genotype G4P[6]-I5-A8
Che Ruyi, Zhou Jieying, Fan Jiaxin, Tang Xiaoping, Dong Mengjie, Xiong Guangping, Sun Xiaoman, Wang Hong, Zhang Qing, Pang Lili, Kong Xiangyu, Li Dandi
Abstract
ObjectiveTo study the whole genome characteristics and evolutionary pattern of a genotype G4P[6] strain of group A rotavirus (RVA) CZ079 in China.
MethodsThe genomic segments of CZ079, VP7, VP4, VP6 and NSP1 were amplified by reverse transcription polymerase chain reaction (RT-PCR), and the genotyping used online RVA automatic typing tool. DNAstar 5.1 and MEGA 11.0 were used in homology and genetic evolution analyses.
ResultsThe genotype of the CZ079 strain was G4-P[6]-I5-R1-C1-M1-A8-N1-T1-E1-H1. The typing by VP6 was type I5, and type A8 by NSP1. The amino acid differences were found between CZ079 and all three vaccine strains of LLR™, RotaTeq™ and Rotarix™ in the region 7-1b within the antigenic epitopes of VP7. After degradation of VP4, the 8-1, 8-2, 8-3, 8-4 and 5-1 regions of VP8* antigenic epitopes showed large differences.
ConclusionsThe RVA strain CZ079 detected in China in 2022 was a rare strain of genotype G4P[6]-I5-A8. It is hypothesized that this genotype of RVA was imported to China from Vietnam and other Southeast Asian regions, and formed a new reassortment strain by reassortment with RVA strains in China.
Key words:
Group A rotavirus; Genotype; Reassortant; Phylogenetic analysis; Antigenic epitopes
Contributor Information
Che Ruyi
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Zhou Jieying
Chenzhou First Municipal People’s Hospital, Chenzhou 423000, China
Fan Jiaxin
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Tang Xiaoping
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Dong Mengjie
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Xiong Guangping
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Sun Xiaoman
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Wang Hong
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Zhang Qing
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Pang Lili
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Kong Xiangyu
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
Li Dandi
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Beijing 102206, China
