Genomic epidemiological analysis of SARS-CoV-2 household transmission

Files in This Item:
 File SizeFormat
DownloadGenomic epidemiological analysis of SARS-CoV-2.pdf1.4 MBAdobe PDF
Title: Genomic epidemiological analysis of SARS-CoV-2 household transmission
Authors: Hare, DanielGonzalez, GabrielDean, JonathanMcDonnell, KathleenCarr, Michael J.De Gascun, Cillian
Permanent link:
Date: 19-Jul-2021
Online since: 2021-07-23T15:59:19Z
Abstract: Family 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.
Type of material: Journal Article
Publisher: Microbiology Society
Journal: Access Microbiology
Volume: 3
Issue: 7
Copyright (published version): 2021 the Authors
Keywords: SARS-CoV-2COVID-19Whole genome sequencingHousehold transmissionGenomic epidemiologyOutbreakCoronavirus
DOI: 10.1099/acmi.0.000252
Language: en
Status of Item: Peer reviewed
This item is made available under a Creative Commons License:
Appears in Collections:Medicine Research Collection
UCD National Virus Reference Laboratory Research Collection

Show full item record

Page view(s)

Last Week
Last month
checked on Sep 24, 2021


checked on Sep 24, 2021

Google ScholarTM



If you are a publisher or author and have copyright concerns for any item, please email and the item will be withdrawn immediately. The author or person responsible for depositing the article will be contacted within one business day.