Whole-genome characterisation of G12P[6] rotavirus strains possessing two distinct genotype constellations co-circulating in Blantyre, Malawi, 2008


Nakagomi, T, Do, LP, Agbemabiese, CA, Kaneko, M, Gauchan, P, Doan, YH, Jere, KC ORCID: 0000-0003-3376-8529, Steele, AD, Iturriza-Gomara, M ORCID: 0000-0001-5816-6423, Nakagomi, O et al (show 1 more authors) (2017) Whole-genome characterisation of G12P[6] rotavirus strains possessing two distinct genotype constellations co-circulating in Blantyre, Malawi, 2008. ARCHIVES OF VIROLOGY, 162 (1). pp. 213-226.

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Abstract

Rotavirus A strains detected in diarrhoeal children commonly possess any one of the genotypes G1, G2, G3, G4, and G9, with a recent increase in G12 detection globally. G12P[6] strains possessing short RNA (DS-1-like) and long RNA (Wa-like) migration patterns accounted for 27 % of the strains circulating in Blantyre, Malawi, between 2007 and 2008. To understand how the G12P[6] strains with two distinct genetic backgrounds emerged in Malawi, we conducted whole-genome analysis of two long-RNA and two short-RNA strains. While the former had a typical Wa-like genotype constellation of G12-P[6]-I1-R1-C1-M1-A1-N1-T1-E1-H1, the latter was found to have G12-P[6]-I2-R2-C2-M1-A2-N2-T2-E2-H2: a VP3 gene mono-reassortant on the DS-1-like backbone. Phylogenetic and Bayesian Markov chain Monte Carlo analyses showed that the short-RNA G12P[6] strains were generated around 2006 by reassortment between an African Wa-like G12P[6] strain donating three genes (the VP7, VP4, and VP3 genes) and a G2P[4] strain similar to the one circulating in Thailand or the United States of America that donated the remaining eight genes. On the other hand, the long-RNA strains were generated as a result of reassortment events within Wa-like G12 and non-G12 strains commonly circulating in Africa; only the VP4 gene was from a Malawian G8P[6] strain. In conclusion, this study uncovered the evolutionary pathways through which two distinct G12P[6] strains emerged in Malawi.

Item Type: Article
Uncontrolled Keywords: Humans, Reassortant Viruses, Rotavirus, Rotavirus Infections, RNA, Viral, Cluster Analysis, Sequence Analysis, DNA, Evolution, Molecular, Phylogeny, Sequence Homology, Genotype, Genome, Viral, Malawi
Depositing User: Symplectic Admin
Date Deposited: 31 Oct 2016 08:51
Last Modified: 19 Jan 2023 07:27
DOI: 10.1007/s00705-016-3103-5
Related URLs:
URI: https://livrepository.liverpool.ac.uk/id/eprint/3004188
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