Respiratory viral co-infections among SARS-CoV-2 cases confirmed by virome capture sequencing
Type
ArticleAuthor/s
Kim, Ki WookDeveson, Ira W.
Pang, Chi Nam I.
Yeang, Malinna
Naing, Zin
Adikari, Thiruni
Hammond, Jillian M.
Stevanovski, Igor
Beukers, Alicia G.
Verich, Andrey
Yin, Simon
McFarlane, David
Wilkins, Marc R.
Stelzer-Braid, Sacha
Bull, Rowena A.
Craig, Maria E.
van Hal, Sebastiaan J.
Rawlinson, William D.
Abstract
Accumulating evidence supports the high prevalence of co-infections among Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) patients, and their potential to worsen the clinical outcome of COVID-19. However, there are few data on Southern Hemisphere populations, and most ...
See moreAccumulating evidence supports the high prevalence of co-infections among Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) patients, and their potential to worsen the clinical outcome of COVID-19. However, there are few data on Southern Hemisphere populations, and most studies to date have investigated a narrow spectrum of viruses using targeted qRT-PCR. Here we assessed respiratory viral co-infections among SARS-CoV-2 patients in Australia, through respiratory virome characterization. Nasopharyngeal swabs of 92 SARS-CoV-2-positive cases were sequenced using pan-viral hybrid-capture and the Twist Respiratory Virus Panel. In total, 8% of cases were co-infected, with rhinovirus (6%) or influenzavirus (2%). Twist capture also achieved near-complete sequencing (> 90% coverage, > tenfold depth) of the SARS-CoV-2 genome in 95% of specimens with Ct
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See moreAccumulating evidence supports the high prevalence of co-infections among Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) patients, and their potential to worsen the clinical outcome of COVID-19. However, there are few data on Southern Hemisphere populations, and most studies to date have investigated a narrow spectrum of viruses using targeted qRT-PCR. Here we assessed respiratory viral co-infections among SARS-CoV-2 patients in Australia, through respiratory virome characterization. Nasopharyngeal swabs of 92 SARS-CoV-2-positive cases were sequenced using pan-viral hybrid-capture and the Twist Respiratory Virus Panel. In total, 8% of cases were co-infected, with rhinovirus (6%) or influenzavirus (2%). Twist capture also achieved near-complete sequencing (> 90% coverage, > tenfold depth) of the SARS-CoV-2 genome in 95% of specimens with Ct
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Date
2021Funding information
Juvenile Diabetes Research Foundation
Cancer Institute of New South Wales
Licence
Copyright All Rights ReservedFaculty/School
Faculty of Medicine and HealthShare