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Article: Quantifying within-host diversity of H5N1 influenza viruses in humans and poultry in Cambodia

TitleQuantifying within-host diversity of H5N1 influenza viruses in humans and poultry in Cambodia
Authors
Editors
Editor(s):Barclay, WS
Issue Date2020
PublisherPublic Library of Science. The Journal's web site is located at http://pathogens.plosjournals.org/perlserv/?request=index-html&issn=1553-7374
Citation
PLoS Pathogens, 2020, v. 16 n. 1, p. article no. e1008191 How to Cite?
AbstractAvian influenza viruses (AIVs) periodically cross species barriers and infect humans. The likelihood that an AIV will evolve mammalian transmissibility depends on acquiring and selecting mutations during spillover, but data from natural infection is limited. We analyze deep sequencing data from infected humans and domestic ducks in Cambodia to examine how H5N1 viruses evolve during spillover. Overall, viral populations in both species are predominated by low-frequency (<10%) variation shaped by purifying selection and genetic drift, and half of the variants detected within-host are never detected on the H5N1 virus phylogeny. However, we do detect a subset of mutations linked to human receptor binding and replication (PB2 E627K, HA A150V, and HA Q238L) that arose in multiple, independent humans. PB2 E627K and HA A150V were also enriched along phylogenetic branches leading to human infections, suggesting that they are likely human-adaptive. Our data show that H5N1 viruses generate putative human-adapting mutations during natural spillover infection, many of which are detected at >5% frequency within-host. However, short infection times, genetic drift, and purifying selection likely restrict their ability to evolve extensively during a single infection. Applying evolutionary methods to sequence data, we reveal a detailed view of H5N1 virus adaptive potential, and develop a foundation for studying host-adaptation in other zoonotic viruses.
Persistent Identifierhttp://hdl.handle.net/10722/304527
ISSN
2023 Impact Factor: 5.5
2023 SCImago Journal Rankings: 2.223
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorMoncla, LH-
dc.contributor.authorBedford, T-
dc.contributor.authorDussart, P-
dc.contributor.authorHorm, SV-
dc.contributor.authorRith, S-
dc.contributor.authorBuchy, P-
dc.contributor.authorKarlsson, EA-
dc.contributor.authorLi, L-
dc.contributor.authorLiu, Y-
dc.contributor.authorZhu, H-
dc.contributor.authorGuan, Y-
dc.contributor.authorFriedrich, TC-
dc.contributor.authorHorwood, PF-
dc.contributor.editorBarclay, WS-
dc.date.accessioned2021-09-23T09:01:18Z-
dc.date.available2021-09-23T09:01:18Z-
dc.date.issued2020-
dc.identifier.citationPLoS Pathogens, 2020, v. 16 n. 1, p. article no. e1008191-
dc.identifier.issn1553-7366-
dc.identifier.urihttp://hdl.handle.net/10722/304527-
dc.description.abstractAvian influenza viruses (AIVs) periodically cross species barriers and infect humans. The likelihood that an AIV will evolve mammalian transmissibility depends on acquiring and selecting mutations during spillover, but data from natural infection is limited. We analyze deep sequencing data from infected humans and domestic ducks in Cambodia to examine how H5N1 viruses evolve during spillover. Overall, viral populations in both species are predominated by low-frequency (<10%) variation shaped by purifying selection and genetic drift, and half of the variants detected within-host are never detected on the H5N1 virus phylogeny. However, we do detect a subset of mutations linked to human receptor binding and replication (PB2 E627K, HA A150V, and HA Q238L) that arose in multiple, independent humans. PB2 E627K and HA A150V were also enriched along phylogenetic branches leading to human infections, suggesting that they are likely human-adaptive. Our data show that H5N1 viruses generate putative human-adapting mutations during natural spillover infection, many of which are detected at >5% frequency within-host. However, short infection times, genetic drift, and purifying selection likely restrict their ability to evolve extensively during a single infection. Applying evolutionary methods to sequence data, we reveal a detailed view of H5N1 virus adaptive potential, and develop a foundation for studying host-adaptation in other zoonotic viruses.-
dc.languageeng-
dc.publisherPublic Library of Science. The Journal's web site is located at http://pathogens.plosjournals.org/perlserv/?request=index-html&issn=1553-7374-
dc.relation.ispartofPLoS Pathogens-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.titleQuantifying within-host diversity of H5N1 influenza viruses in humans and poultry in Cambodia-
dc.typeArticle-
dc.identifier.emailLi, L: lifeng@hkucc.hku.hk-
dc.identifier.emailLiu, Y: yongmei@hkucc.hku.hk-
dc.identifier.emailZhu, H: zhuhch@hku.hk-
dc.identifier.emailGuan, Y: yguan@hkucc.hku.hk-
dc.identifier.authorityZhu, H=rp01535-
dc.identifier.authorityGuan, Y=rp00397-
dc.description.naturepublished_or_final_version-
dc.identifier.doi10.1371/journal.ppat.1008191-
dc.identifier.pmid31951644-
dc.identifier.pmcidPMC6992230-
dc.identifier.scopuseid_2-s2.0-85078814352-
dc.identifier.hkuros325470-
dc.identifier.volume16-
dc.identifier.issue1-
dc.identifier.spagearticle no. e1008191-
dc.identifier.epagearticle no. e1008191-
dc.identifier.isiWOS:000510746400015-
dc.publisher.placeUnited States-

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