Genomic epidemiological analysis of SARS-CoV-2 household transmission

DC FieldValueLanguage
dc.contributor.authorHare, Daniel-
dc.contributor.authorGonzalez, Gabriel-
dc.contributor.authorDean, Jonathan-
dc.contributor.authorMcDonnell, Kathleen-
dc.contributor.authorCarr, Michael J.-
dc.contributor.authorDe Gascun, Cillian-
dc.date.accessioned2021-07-23T15:59:19Z-
dc.date.available2021-07-23T15:59:19Z-
dc.date.copyright2021 the Authorsen_US
dc.date.issued2021-07-19-
dc.identifier.citationAccess Microbiologyen_US
dc.identifier.urihttp://hdl.handle.net/10197/12347-
dc.description.abstractFamily clusters have contributed significantly to the onward spread of SARS-CoV-2. However, the dynamics of viral transmission in this setting remain incompletely understood. We describe the clinical and viral-phylogenetic characteristics of a family cluster of SARS-CoV-2 infections with a high attack rate, and explore how whole-genome sequencing (WGS) can inform outbreak investigations in this context. In this cluster, the first symptomatic case was a 22-month-old infant who developed rhinorrhoea and sneezing 2 days prior to attending a family gathering. Subsequently, seven family members in attendance at this event were diagnosed with SARS-CoV-2 infections, including the infant described. WGS revealed indistinguishable SARS-CoV-2 genomes recovered from the adults at the gathering, which were closely related genetically to B.1 lineage viruses circulating in the local community. However, a divergent viral sub-lineage was recovered from the infant and another child, each harbouring a distinguishing spike substitution (N30S). This suggested that the infant was unlikely to be the primary case, despite displaying symptoms first, and additional analysis of her nasopharyngeal swab revealed a picornavirus co-infection to account for her early symptoms. Our findings demonstrate how WGS can elucidate the transmission dynamics of SARS-CoV-2 infections within household clusters and provide useful information to support outbreak investigations. Additionally, our description of SARS-CoV-2 viral lineages and notable variants circulating in Ireland to date provides an important genomic-epidemiological baseline in the context of vaccine introduction.en_US
dc.language.isoenen_US
dc.publisherMicrobiology Societyen_US
dc.subjectSARS-CoV-2en_US
dc.subjectCOVID-19en_US
dc.subjectWhole genome sequencingen_US
dc.subjectHousehold transmissionen_US
dc.subjectGenomic epidemiologyen_US
dc.subjectOutbreaken_US
dc.subjectCoronavirusen_US
dc.titleGenomic epidemiological analysis of SARS-CoV-2 household transmissionen_US
dc.typeJournal Articleen_US
dc.statusPeer revieweden_US
dc.identifier.volume3en_US
dc.identifier.issue7en_US
dc.citation.otherArticle Number: 000252en_US
dc.identifier.doi10.1099/acmi.0.000252-
dc.neeo.contributorHare|Daniel|aut|-
dc.neeo.contributorGonzalez|Gabriel|aut|-
dc.neeo.contributorDean|Jonathan|aut|-
dc.neeo.contributorMcDonnell|Kathleen|aut|-
dc.neeo.contributorCarr|Michael J.|aut|-
dc.neeo.contributorDe Gascun|Cillian|aut|-
dc.rights.licensehttps://creativecommons.org/licenses/by/3.0/ie/en_US
item.fulltextWith Fulltext-
item.grantfulltextopen-
Appears in Collections:Medicine Research Collection
UCD National Virus Reference Laboratory Research Collection
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