Comparative analysis of spatial-temporal patterns of human metapneumovirus and respiratory syncytial virus in Africa using genetic data, 2011–2014

Virology Journal

Everlyn Kamau¹  Anthony Mwema¹  John W. Oketch¹  Clement Lewa¹  James R. Otieno¹  Charles N. Agoti²  D. James Nokes³  Everlyne Isoe⁴ 

[1] Kenya Medical Research Institute (KEMRI) -Wellcome Trust Research Programme, Kilifi, Kenya;Kenya Medical Research Institute (KEMRI) -Wellcome Trust Research Programme, Kilifi, Kenya;School of Pure and Applied Sciences, Pwani University, Kilifi, Kenya;Kenya Medical Research Institute (KEMRI) -Wellcome Trust Research Programme, Kilifi, Kenya;School of Pure and Applied Sciences, Pwani University, Kilifi, Kenya;School of Life Sciences, and Zeeman Institute for Systems Biology and Infectious Disease Epidemiology Research (SBIDER), University of Warwick, Coventry, UK;School of Pure and Applied Sciences, Pwani University, Kilifi, Kenya;

关键词: Human metapneumovirus;    Respiratory syncytial virus;    Phylogeographic analysis;    Spatial-temporal;   

DOI  :  10.1186/s12985-021-01570-8

来源: Springer

【 摘 要 】

BackgroundHuman metapneumovirus (HMPV) and respiratory syncytial virus (RSV) are leading causes of viral severe acute respiratory illnesses in childhood. Both the two viruses belong to the Pneumoviridae family and show overlapping clinical, epidemiological and transmission features. However, it is unknown whether these two viruses have similar geographic spread patterns which may inform designing and evaluating their epidemic control measures.MethodsWe conducted comparative phylogenetic and phylogeographic analyses to explore the spatial-temporal patterns of HMPV and RSV across Africa using 232 HMPV and 842 RSV attachment (G) glycoprotein gene sequences obtained from 5 countries (The Gambia, Zambia, Mali, South Africa, and Kenya) between August 2011 and January 2014.ResultsPhylogeographic analyses found frequently similar patterns of spread of RSV and HMPV. Viral sequences commonly clustered by region, i.e., West Africa (Mali, Gambia), East Africa (Kenya) and Southern Africa (Zambia, South Africa), and similar genotype dominance patterns were observed between neighbouring countries. Both HMPV and RSV country epidemics were characterized by co-circulation of multiple genotypes. Sequences from different African sub-regions (East, West and Southern Africa) fell into separate clusters interspersed with sequences from other countries globally.ConclusionThe spatial clustering patterns of viral sequences and genotype dominance patterns observed in our analysis suggests strong regional links and predominant local transmission. The geographical clustering further suggests independent introduction of HMPV and RSV variants in Africa from the global pool, and local regional diversification.

【 授权许可】

CC BY