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1. Adeno-Associated Virus 2 and Human Adenovirus F41 in Wastewater during Outbreak of Severe Acute Hepatitis in Children, Ireland

Author

Niamh A. Martin, Gabriel Gonzalez, Liam J. Reynolds, Charlene Bennett, Christine Campbell, Tristan M. Nolan, Alannah Byrne, Sanne Fennema, Niamh Holohan, Sailusha Ratnam Kuntamukkula, Natasha Sarwar, Laura Sala-Comorera, Jonathan Dean, Jose Maria Urtasun-Elizari, Daniel Hare, Emer Liddy, Eadaoin Joyce, John J. O’Sullivan, John M. Cuddihy, Angeline M. McIntyre, Eve P. Robinson, Darren Dahly, Nicola F. Fletcher, Suzanne Cotter, Emer Fitzpatrick, Michael J. Carr, Cillian F. De Gascun, and Wim G. Meijer

Subjects
adenovirus, hepatitis, viruses, HAdV-F41, AAV2, pediatric hepatitis, Medicine, Infectious and parasitic diseases, RC109-216
Abstract

During April–July 2022, outbreaks of severe acute hepatitis of unknown etiology (SAHUE) were reported in 35 countries. Five percent of cases required liver transplantation, and 22 patients died. Viral metagenomic studies of clinical samples from SAHUE cases showed a correlation with human adenovirus F type 41 (HAdV-F41) and adeno-associated virus type 2 (AAV2). To explore the association between those DNA viruses and SAHUE in children in Ireland, we quantified HAdV-F41 and AAV2 in samples collected from a wastewater treatment plant serving 40% of Ireland’s population. We noted a high correlation between HAdV-F41 and AAV2 circulation in the community and SAHUE clinical cases. Next-generation sequencing of the adenovirus hexon in wastewater demonstrated HAdV-F41 was the predominant HAdV type circulating. Our environmental analysis showed increased HAdV-F41 and AAV2 prevalence in the community during the SAHUE outbreak. Our findings highlight how wastewater sampling could aid in surveillance for respiratory adenovirus species.

Published
2023
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2. SARS-CoV-2 variant trends in Ireland: Wastewater-based epidemiology and clinical surveillance

Author

Liam J. Reynolds, Gabriel Gonzalez, Laura Sala-Comorera, Niamh A. Martin, Alannah Byrne, Sanne Fennema, Niamh Holohan, Sailusha Ratnam Kuntamukkula, Natasha Sarwar, Tristan M. Nolan, Jayne H. Stephens, Megan Whitty, Charlene Bennett, Quynh Luu, Ursula Morley, Zoe Yandle, Jonathan Dean, Eadaoin Joyce, John J. O'Sullivan, John M. Cuddihy, Angeline M. McIntyre, Eve P. Robinson, Darren Dahly, Nicola F. Fletcher, Michael Carr, Cillian De Gascun, and Wim G. Meijer

Subjects
Wastewater-Based Epidemiological Monitoring, Environmental Engineering, SARS-CoV-2, Variants, COVID-19, Wastewater, Pollution, Coronavirus, Genomic surveillance, Environmental Chemistry, Humans, RNA, Viral, Waste Management and Disposal, Digital PCR, Ireland, Wastewater surveillance
Abstract

SARS-CoV-2 RNA quantification in wastewater is an important tool for monitoring the prevalence of COVID-19 disease on a community scale which complements case-based surveillance systems. As novel variants of concern (VOCs) emerge there is also a need to identify the primary circulating variants in a community, accomplished to date by sequencing clinical samples. Quantifying variants in wastewater offers a cost-effective means to augment these sequencing efforts. In this study, SARS-CoV-2 N1 RNA concentrations and daily loadings were determined and compared to case-based data collected as part of a national surveillance programme to determine the validity of wastewater surveillance to monitor infection spread in the greater Dublin area. Further, sequencing of clinical samples was conducted to determine the primary SARS-CoV-2 lineages circulating in Dublin. Finally, digital PCR was employed to determine whether SARS-CoV-2 VOCs, Alpha and Delta, were quantifiable from wastewater. No lead or lag time was observed between SARS-CoV-2 wastewater and case-based data and SARS-CoV-2 trends in Dublin wastewater significantly correlated with the notification of confirmed cases through case-based surveillance preceding collection with a 5-day average. This demonstrates that viral RNA in Dublin's wastewater mirrors the spread of infection in the community. Clinical sequence data demonstrated that increased COVID-19 cases during Ireland's third wave coincided with the introduction of the Alpha variant, while the fourth wave coincided with increased prevalence of the Delta variant. Interestingly, the Alpha variant was detected in Dublin wastewater prior to the first genome being sequenced from clinical samples, while the Delta variant was identified at the same time in clinical and wastewater samples. This work demonstrates the validity of wastewater surveillance for monitoring SARS-CoV-2 infections and also highlights its effectiveness in identifying circulating variants which may prove useful when sequencing capacity is limited. European Commission - European Regional Development Fund Health Service Executive Science Foundation Ireland Ireland Wales Cooperation programme (Acclimatize) To check in date details in 6 months

Published
2022

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