Molecular evolution and genomic characteristics of genotype H1 of measles virus.
H1 genotype
Mainland China
genetic diversity
measles virus
Journal
Journal of medical virology
ISSN: 1096-9071
Titre abrégé: J Med Virol
Pays: United States
ID NLM: 7705876
Informations de publication
Date de publication:
02 2022
02 2022
Historique:
revised:
25
10
2021
received:
14
09
2021
accepted:
09
11
2021
pubmed:
12
11
2021
medline:
18
12
2021
entrez:
11
11
2021
Statut:
ppublish
Résumé
Measles is one of the most infectious diseases of humans. It is caused by the measles virus (MeV) and can lead to serious illness, lifelong complications, and even death. Whole-genome sequencing (WGS) is now available to study molecular epidemiology and identify MeV transmission pathways. In the present study, WGS of 23 MeV strains of genotype H1, collected in Mainland China between 2006 and 2018, were generated and compared to 31 WGSs from the public domain to analyze genomic characteristics, evolutionary rates and date of emergence of H1 genotype. The noncoding region between M and F protein genes (M/F NCR) was the most variable region throughout the genome. Although the nucleotide substitution rate of H1 WGS was around 0.75 × 10
Substances chimiques
RNA, Viral
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
521-530Subventions
Organisme : Key Technologies R&D Program of the National Ministry of Science
ID : 2017ZX10104001-002
Organisme : Key Technologies R&D Program of the National Ministry of Science
ID : 2018ZX10713002
Organisme : Key Technologies R&D Program of the National Ministry of Science
ID : 2018ZX10201002-006
Informations de copyright
© 2021 Wiley Periodicals LLC.
Références
WHO. Measles vaccines: WHO position paper, April 2017-recommendations. Wkly Epidemiol Rec. 2017;17:1873-2518.
Griffin DE. Measles Virus. Fields. Virology. 2013:1042-1069.
WHO. The role of extended and whole genome sequencing for tracking transmission of measles and rubella viruses: report from the Global Measles and Rubella Laboratory Network meeting, 2017. Wkly Epidemiol Rec. 2018;93(6):55-59.
Brown KE, Rota PA, Goodson JL, et al. Genetic characterization of measles and rubella viruses detected through global measles and rubella elimination surveillance, 2016-2018. MMWR Morb Mortal Wkly Rep. 2019;68(26):587-591.
Wang H, Zhang Y, Mao N, et al. Molecular characterization of measles viruses in China: circulation dynamics of the endemic H1 genotype from 2011 to 2017. PLoS One. 2019;14(6):e0218782.
Penedos AR, Myers R, Hadef B, Aladin F, Brown KE. Assessment of the utility of whole genome sequencing of measles virus in the characterisation of outbreaks. PLoS One. 2015;10(11):e0143081.
Gardy JL, Naus M, Amlani A, et al. Whole-genome sequencing of measles virus genotypes H1 and D8 during outbreaks of infection following the 2010 Olympic Winter games reveals viral transmission routes. J Infect Dis. 2015;212(10):1574-1578.
Xu S, Zhang Y, Rivailler P, et al. Evolutionary genetics of genotype H1 measles viruses in China from 1993 to 2012. J Gen Virol. 2014;95(Pt 9):1892-1899.
Bankamp B, Hodge G, McChesney MB, Bellini WJ, Rota PA. Genetic changes that affect the virulence of measles virus in a rhesus macaque model. Virology. 2008;373(1):39-50.
Parks CL, Lerch RA, Walpita P, Wang HP, Sidhu MS, Udem SA. Comparison of predicted amino acid sequences of measles virus strains in the Edmonston vaccine lineage. J Virol. 2001;75(2):910-920.
Edgar RC. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics. 2004;5:113.
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 2011;28(10):2731-2739.
Lole KS, Bollinger RC, Paranjape RS, et al. Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol. 1999;73(1):152-160.
Efron B, Halloran E, Holmes S. Bootstrap confidence levels for phylogenetic trees. Proc Natl Acad Sci U S A. 1996;93(14):7085-7090.
Rambaut A, Lam TT, Max CL, Pybus OG. Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen. Virus Evol. 2016;2(1):vew007.
Drummond AJ, Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol. 2007;7:214.
Guindon S, Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 2003;52(5):696-704.
Posada D. jModelTest: phylogenetic model averaging. Mol Biol Evol. 2008;25(7):1253-1256.
Drummond AJ, Suchard MA, Xie D, Rambaut A. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol. 2012;29(8):1969-1973.
Drummond AJ, Rambaut A, Shapiro B, Pybus OG. Bayesian coalescent inference of past population dynamics from molecular sequences. Mol Biol Evol. 2005;22(5):1185-1192.
Zhang Y, Wang H, Xu S, et al. Monitoring progress toward measles elimination by genetic diversity analysis of measles viruses in China 2009-2010. Clin Microbiol Infect. 2014;20(9):O566-O577.
Ma C, An Z, Hao L, et al. Progress toward measles elimination in the People's Republic of China, 2000-2009. J Infect Dis. 2011;204(Suppl 1):S447-S454.
Nicolay N, Mirinaviciute G, Mollet T, Celentano LP, Bacci S. Epidemiology of measles during the COVID-19 pandemic, a description of the surveillance data, 29 EU/EEA countries and the United Kingdom, January to May 2020. Euro Surveill. 2020;25(31):2001390.
Durrheim DN, Andrus JK, Tabassum S, Bashour H, Githanga D, Pfaff G. A dangerous measles future looms beyond the COVID-19 pandemic. Nat Med. 2021;27(3):360-361.
Harvala H, Wiman Å, Wallensten A, Zakikhany K, Englund H, Brytting M. Role of sequencing the measles virus hemagglutinin gene and hypervariable region in the measles outbreak investigations in Sweden during 2013-2014. J Infect Dis. 2016;213(4):592-599.
Thomas S, Hiebert J, Gubbay JB, et al. Measles outbreak with unique virus genotyping, Ontario, Canada, 2015. Emerg Infect Dis. 2017;23(7):1063-1069.