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Cui X, Li Y, Yang Y, Tang W, Li Z, Chen H, Li Y, Cui X, Huang Z, Sun X, Xu S, Zhang Y, Li C, Zhang X. Characteristics and Genomic Diversity of Measles Virus From Measles Cases With Known Vaccination Status in Shanghai, China. Front Med (Lausanne) 2022; 9:841650. [PMID: 35847814 PMCID: PMC9281471 DOI: 10.3389/fmed.2022.841650] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Accepted: 05/18/2022] [Indexed: 11/13/2022] Open
Abstract
Although the highly effective measles vaccine has dramatically reduced the incidence of measles, measles, and outbreaks continue to occur in individuals who received the measles vaccine because of immunization failure. In this study, patients who have definite records of immunization were enrolled based on measles surveillance in Shanghai, China, from 2009 to 2017, and genomic characteristics regarding viruses retrieved from these cases provided insights into immunization failure. A total of 147 complete genomes of measles virus (MV) were obtained from the laboratory-confirmed cases through Illumina MiSeq. Epidemiological, and genetic characteristics of the MV were focused on information about age, gender, immunization record, variation, and evolution of the whole genome. Furthermore, systematic genomics using phylogeny and selection pressure approaches were analyzed. Our analysis based on the whole genome of 147 isolates revealed 4 clusters: 2 for the genotype H1 (clusters named H1-A, including 73 isolates; H1-B, including 72 isolates) and the other 2 for D8 and B3, respectively. Estimated nucleotide substitution rates of genotype H1 MV derived using genome and individual genes are lower than other genotypes. Our study contributes to global measles epidemiology and proves that whole-genome sequencing was a useful tool for more refined genomic characterization. The conclusion indicates that vaccination may have an effect on virus evolution. However, no major impact was found on the antigenicity in Shanghai isolates.
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Affiliation(s)
- Xiaoxian Cui
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Yunyi Li
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Yuying Yang
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Wei Tang
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Zhi Li
- Department of Immunization Program, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Hongyou Chen
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Yang Li
- Chongqing School, University of Chinese Academy of Sciences, Chongqing, China
| | - Xinyi Cui
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Zhuoying Huang
- Department of Immunization Program, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Xiaodong Sun
- Department of Immunization Program, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Songtao Xu
- National Health Commission (NHC) Key Laboratory of Medical Virology and Viral Diseases, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Yan Zhang
- National Health Commission (NHC) Key Laboratory of Medical Virology and Viral Diseases, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Chongshan Li
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
| | - Xi Zhang
- Division of Microbiology, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
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Wang S, Wang C, Liu X, Liu Y, Xiong P, Tao Z, Chen M, Xu Q, Zhang L, Xu A. Comparative study on molecular epidemiology of measles H1 outbreak and sporadic cases in Shandong Province, 2013–2019. BMC Genomics 2022; 23:305. [PMID: 35421927 PMCID: PMC9011973 DOI: 10.1186/s12864-022-08492-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Accepted: 03/15/2022] [Indexed: 11/10/2022] Open
Abstract
Abstract
Background
Measles caused by measles virus (MeV) is a highly contagious viral disease which has also been associated with complications including pneumonia, myocarditis, encephalitis, and subacute sclerosing panencephalitis. The current study isolated 33 strains belonging to 2 groups, outbreak and sporadic strains, in 13 cities of Shandong province, China from 2013 to 2019. Comparison of genetic characterization among 15 outbreak strains and 18 sporadic strains was performed by analyzing nucleotide sequences of the C-terminal region of N protein gene (N-450).
Results
All 33 stains belonged to genotype H1. The outbreak strains and sporadic strains distributed crossly in phylogenetic tree. Sequences alignment revealed some interesting G to A transversion which changed the amino acids on genomic sites 1317, 1422, and 1543. The nucleotide and amino acid similarities among outbreak isolates were 98–100% (0–10 nucleotide variations) and 97.7–100%, respectively; They were 97.3–100% and 96.6–100%, respectively for sporadic isolates. Evolutionary genetics analysis revealed that the mean evolution rates of outbreak and sporadic isolates were 1.26 N 10− 3 and 1.48 N 10− 3 substitutions per site per year separately, which were similar with corresponding data before 2012. Local transmission analysis suggested that there were three transmission chains in this study, two of them originated from Japan. Outbreak cases and sporadic cases emerged alternatively and were reciprocal causation on the transmission chains.
Conclusions
Our study investigated the phylogeny and evolutional genetics of MeV during a 7-year surveillance, and compared epidemic and genetic characteristics of outbreak strains and sporadic strains. These results underscore the importance of evolutionary study alongside with sporadic cases in discovering and tracing possible outbreaks, especially in the stage of measles elimination.
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