High frequency and diversity of parechovirus A in a cohort of Malawian children View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-01-22

AUTHORS

Lieke Brouwer, Eveliina Karelehto, Alvin X. Han, Xiomara V. Thomas, Andrea H. L. Bruning, Job C. J. Calis, Michaël Boele van Hensbroek, Brenda M. Westerhuis, Darsha Amarthalingam, Sylvie M. Koekkoek, Sjoerd P. H. Rebers, Kamija S. Phiri, Katja C. Wolthers, Dasja Pajkrt

ABSTRACT

Parechoviruses (PeVs) are highly prevalent viruses worldwide. Over the last decades, several studies have been published on PeV epidemiology in Europe, Asia and North America, while information on other continents is lacking. The aim of this study was to describe PeV circulation in a cohort of children in Malawi, Africa. A total of 749 stool samples obtained from Malawian children aged 6 to 60 months were tested for the presence of PeV by real-time PCR. We performed typing by phylogenetic and Basic Local Alignment Search Tool (BLAST) analysis. PeV was found in 57% of stool samples. Age was significantly associated with PeV positivity (p = 0.01). Typing by phylogenetic analysis resulted in 15 different types, while BLAST typing resulted in 14 different types and several indeterminate strains. In total, six strains showed inconsistencies in typing between the two methods. One strain, P02-4058, remained untypable by all methods, but appeared to belong to the recently reclassified PeV-A19 genotype. PeV-A1, -A2 and -A3 were the most prevalent types (26.8%, 13.8% and 9.8%, respectively). Both the prevalence and genetic diversity found in our study were remarkably high. Our data provide an important contribution to the scarce data available on PeV epidemiology in Africa. More... »

PAGES

799-806

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s00705-018-04131-7

DOI

http://dx.doi.org/10.1007/s00705-018-04131-7

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1111577193

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/30666460


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25 schema:description Parechoviruses (PeVs) are highly prevalent viruses worldwide. Over the last decades, several studies have been published on PeV epidemiology in Europe, Asia and North America, while information on other continents is lacking. The aim of this study was to describe PeV circulation in a cohort of children in Malawi, Africa. A total of 749 stool samples obtained from Malawian children aged 6 to 60 months were tested for the presence of PeV by real-time PCR. We performed typing by phylogenetic and Basic Local Alignment Search Tool (BLAST) analysis. PeV was found in 57% of stool samples. Age was significantly associated with PeV positivity (p = 0.01). Typing by phylogenetic analysis resulted in 15 different types, while BLAST typing resulted in 14 different types and several indeterminate strains. In total, six strains showed inconsistencies in typing between the two methods. One strain, P02-4058, remained untypable by all methods, but appeared to belong to the recently reclassified PeV-A19 genotype. PeV-A1, -A2 and -A3 were the most prevalent types (26.8%, 13.8% and 9.8%, respectively). Both the prevalence and genetic diversity found in our study were remarkably high. Our data provide an important contribution to the scarce data available on PeV epidemiology in Africa.
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31 schema:keywords A2
32 A3
33 Africa
34 America
35 Asia
36 Basic Local Alignment Search Tool (BLAST) analysis
37 Europe
38 Malawi
39 Malawian children
40 North America
41 P02
42 PCR
43 PEVs
44 Parechovirus A
45 PeV-A1
46 age
47 aim
48 analysis
49 children
50 circulation
51 cohort
52 cohort of children
53 continent
54 contribution
55 data
56 decades
57 different types
58 diversity
59 epidemiology
60 frequency
61 genetic diversity
62 genotypes
63 high frequency
64 important contribution
65 inconsistencies
66 information
67 last decade
68 method
69 months
70 parechovirus
71 phylogenetic analysis
72 positivity
73 presence
74 presence of PEVs
75 prevalence
76 prevalent type
77 prevalent virus
78 real-time PCR
79 samples
80 scarce data
81 stool samples
82 strains
83 study
84 tool analysis
85 total
86 types
87 typing
88 virus
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