2017
DOI: 10.1038/s41598-017-04145-2
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Abstract: We present the near complete virus genome sequences with phylogenetic and network analyses of potential transmission networks of a total of 18 Australian cases of human parechovirus type 3 (HPeV3) infection in infants in the period from 2012–2015. Overall the results support our previous finding that the Australian outbreak strain/lineage is a result of a major recombination event that took place between March 2012 and November 2013 followed by further virus evolution and possibly recombination. While the nons… Show more

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Cited by 20 publications
(66 citation statements)
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References 52 publications
(66 reference statements)
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“…Across the study, PeV-A3 was detected infrequently until the 2013-2014 spring/summer when it predominated. This coincided with the outbreak of PeV-A3-associated sepsis in Australian infants [5,19], and aligns with the predicted timing of a genomic recombination event leading to a more virulent phenotype [28]. Nevertheless, in our cohort PeV-A3 was not associated with severe symptoms, even when detected during the outbreak period or within the high-risk first 3 months of life.…”
Section: Discussionsupporting
confidence: 85%
See 3 more Smart Citations
“…Across the study, PeV-A3 was detected infrequently until the 2013-2014 spring/summer when it predominated. This coincided with the outbreak of PeV-A3-associated sepsis in Australian infants [5,19], and aligns with the predicted timing of a genomic recombination event leading to a more virulent phenotype [28]. Nevertheless, in our cohort PeV-A3 was not associated with severe symptoms, even when detected during the outbreak period or within the high-risk first 3 months of life.…”
Section: Discussionsupporting
confidence: 85%
“…Although completion rates were excellent for such a demanding study, not all diaries and swabs were returned. Finally, the 2 genotyping regions used in this study are highly conserved within the genome and may not reflect the true genetic diversity shown by the PeV-A3 recombinant variant associated with sepsis [28]. The sharp increase in ORChID PeV-A3 cases observed during the first PeV-A3 outbreak [19] suggests this recombinant variant was circulating within the community.…”
Section: Discussionmentioning
confidence: 99%
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“…Absence of evidence of recombination was confirmed using the Genetic Algorithm Recombination Detection (GARD) method 40 of the HyPhy package hosted on the DataMonkey webserver 41 . Codon specific selection pressure was analysed using the single likelihood ancestor counting (SLAC), fixed effects likelihood (FEL), internal fixed effects likelihood (IFEL) and random effects likelihood (REL) methods available on the DataMonkey server as previously described 42 . All analyses were performed on the optimum model as determined by the model selection algorithm of the server, and using Neighbour-Joining phylogenetic trees.…”
Section: Modified Pancoronavirus Polymerase Real-time Pcr a Non-nestmentioning
confidence: 99%