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Multiple introductions and predominance of 3 rotavirus group A genotype G3P[8] in Kilifi, coastal Kenya, 4 years after nationwide vaccine introduction

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Mwanga, Mike J., Verani, Jennifer R., Omore, Richard, Tate, Jacqueline E., Parashar, Umesh D., Murunga, Nickson, Gicheru, Elijah, Breiman, Robert F., Nokes, D. James and Agoti, Charles N. (2020) Multiple introductions and predominance of 3 rotavirus group A genotype G3P[8] in Kilifi, coastal Kenya, 4 years after nationwide vaccine introduction. Pathogens, 9 (12). 981. doi:10.3390/pathogens9120981

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Official URL: https://doi.org/10.3390/pathogens9120981

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Abstract

Globally, rotavirus group A (RVA) remains a major cause of severe childhood diarrhea, despite the use of vaccines in more than 100 countries. RVA sequencing for local outbreaks facilitates investigation into strain composition, origins, spread, and vaccine failure. In 2018, we collected 248 stool samples from children aged less than 13 years admitted with diarrheal illness to Kilifi County Hospital, coastal Kenya. Antigen screening detected RVA in 55 samples (22.2%). Of these, VP7 (G) and VP4 (P) segments were successfully sequenced in 48 (87.3%) and phylogenetic analysis based on the VP7 sequences identified seven genetic clusters with six different GP combinations: G3P[8], G1P[8], G2P[4], G2P[8], G9P[8] and G12P[8]. The G3P[8] strains predominated the season (n = 37, 67.2%) and comprised three distinct G3 genetic clusters that fell within Lineage I and IX (the latter also known as equine-like G3 Lineage). Both the two G3 lineages have been recently detected in several countries. Our study is the first to document African children infected with G3 Lineage IX. These data highlight the global nature of RVA transmission and the importance of increasing global rotavirus vaccine coverage.

Item Type: Journal Article
Subjects: Q Science > QR Microbiology > QR355 Virology
R Medicine > RC Internal medicine
Divisions: Faculty of Science > Life Sciences (2010- )
Library of Congress Subject Headings (LCSH): Gastroenteritis -- Kenya -- Prevention, Rotaviruses -- Kenya, Phylogeny, Viral vaccines, Gastroenteritis in children
Journal or Publication Title: Pathogens
Publisher: MDPI
ISSN: 2076-0817
Official Date: 24 November 2020
Dates:
DateEvent
24 November 2020Published
20 November 2020Accepted
Date of first compliant deposit: 23 November 2020
Volume: 9
Number: 12
Article Number: 981
DOI: 10.3390/pathogens9120981
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Open Access
RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
UNSPECIFIEDGlobal Alliance for Vaccines and Immunizationhttp://viaf.org/viaf/167122966
203077 Wellcome Trusthttp://dx.doi.org/10.13039/100010269
102975Wellcome Trusthttp://dx.doi.org/10.13039/100010269
107769/Z/10/ZWellcome Trusthttp://dx.doi.org/10.13039/100010269
UNSPECIFIEDAfrican Academy of Scienceshttp://dx.doi.org/10.13039/501100011858
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