TY - JOUR
T1 - Whole-genome characterisation of G12P[6] rotavirus strains possessing two distinct genotype constellations co-circulating in Blantyre, Malawi, 2008
AU - Nakagomi, T.
AU - Do, L. P.
AU - Agbemabiese, C. A.
AU - Kaneko, M.
AU - Gauchan, P.
AU - Doan, Y. H.
AU - Jere, K. C.
AU - Steele, A. D.
AU - Iturriza-Gomara, M.
AU - Nakagomi, O.
AU - Cunliffe, N. A.
N1 - Funding Information:
This study was supported by a Grant-in-aid for overseas scientific research from Japan Society for the Promotion of Science awarded to Toyoko Nakagomi (No. 22406014). This study was also supported by the Global Centre of Excellence Program on Integrated Global Control Strategy for Tropical and Emerging Infectious Diseases from the Ministry of Education, Culture, Sports, Science and Technology, Japan.
Funding Information:
The clinical trial of Rotarix® in Malawi, through which the strains characterised in this study were identified, was supported by PATH’s Rotavirus Vaccine Program (funded by GAVI) and by GlaxoSmithKline Biologicals. This study was performed under the Agreement on Academic Partnership between The University of Liverpool and Nagasaki University.
Publisher Copyright:
© 2016, Springer-Verlag Wien.
PY - 2017/1/1
Y1 - 2017/1/1
N2 - 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.
AB - 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.
UR - http://www.scopus.com/inward/record.url?scp=84990876781&partnerID=8YFLogxK
U2 - 10.1007/s00705-016-3103-5
DO - 10.1007/s00705-016-3103-5
M3 - Article
C2 - 27718073
AN - SCOPUS:84990876781
SN - 0304-8608
VL - 162
SP - 213
EP - 226
JO - Archives of Virology
JF - Archives of Virology
IS - 1
ER -