Molecular epidemiology of human rhinovirus infections in Kilifi, coastal Kenya.
Bottom Line: Most HRV-C clusters were distinct from reference sequences downloaded from GenBank.In contrast, most HRV-A and HRV-B sequences clustered with either known serotypes or strains from elsewhere within Africa and other regions of the world.This first molecular epidemiological study of HRV in the region defines species distribution in accord with reports from elsewhere in the world, shows considerable strain diversity and does not identify an association between any species and disease severity.
Affiliation: KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya. email@example.comShow MeSH
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Mentions: The Kilifi sequences for each of the species formed numerous unique clusters with mean nucleotide identity of 76.4% (range 52.2%–97.6%) for HRV-A, 74.2% (range 44.5–99.7%) for HRV-B, and 68% (range 51.0–98.9%) for HRV-C, suggesting considerable diversity in strains/serotypes present in the population. In the cases of HRV-A and HRV-B most sequences clustered with known serotypes or strains from around the world (Figs. 3 and 4). In contrast, many of the sequences of HRV-C identified in circulation in Kilifi (Fig. 5) did not cluster with any published strains that also are based on sequencing of the VP4/VP2 junction. The Kilifi sequences (most easily seen for HRV-A and HRV-B) showed reasonable genetic deviation from nearest known strains/serotypes, generally with mean nucleotide differences of 25% (range 15.1–48.0%) for all the three HRV species.
Affiliation: KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya. firstname.lastname@example.org