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Respiratory viral co-infections among SARS-CoV-2 cases confirmed by virome capture sequencing.
Kim, Ki Wook; Deveson, 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.
Afiliación
  • Kim KW; School of Women's and Children's Health, Faculty of Medicine, University of New South Wales, Sydney, NSW, Australia.
  • Deveson IW; Virology Research Laboratory, Serology and Virology Division (SAViD), NSW Health Pathology, Prince of Wales Hospital, Sydney, NSW, Australia.
  • Pang CNI; Kinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Sydney, Australia.
  • Yeang M; St Vincent's Clinical School, Faculty of Medicine, University of New South Wales, Sydney, NSW, Australia.
  • Naing Z; School of Biotechnology and Biomolecular Sciences, Faculty of Science, University of New South Wales, Sydney, NSW, Australia.
  • Adikari T; Virology Research Laboratory, Serology and Virology Division (SAViD), NSW Health Pathology, Prince of Wales Hospital, Sydney, NSW, Australia.
  • Hammond JM; Virology Research Laboratory, Serology and Virology Division (SAViD), NSW Health Pathology, Prince of Wales Hospital, Sydney, NSW, Australia.
  • Stevanovski I; School of Medical Sciences, Faculty of Medicine, University of New South Wales, Sydney, NSW, Australia.
  • Beukers AG; The Kirby Institute for Infection and Immunity, University of New South Wales, Sydney, NSW, Australia.
  • Verich A; Kinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Sydney, Australia.
  • Yin S; Kinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Sydney, Australia.
  • McFarlane D; Department of Infectious Diseases and Microbiology, NSW Health Pathology, Royal Prince Alfred Hospital, Sydney, NSW, Australia.
  • Wilkins MR; The Kirby Institute for Infection and Immunity, University of New South Wales, Sydney, NSW, Australia.
  • Stelzer-Braid S; Research Technology Services, Research Infrastructure Division, University of New South Wales, Sydney, NSW, Australia.
  • Bull RA; Research Technology Services, Research Infrastructure Division, University of New South Wales, Sydney, NSW, Australia.
  • Craig ME; School of Biotechnology and Biomolecular Sciences, Faculty of Science, University of New South Wales, Sydney, NSW, Australia.
  • van Hal SJ; Virology Research Laboratory, Serology and Virology Division (SAViD), NSW Health Pathology, Prince of Wales Hospital, Sydney, NSW, Australia.
  • Rawlinson WD; School of Medical Sciences, Faculty of Medicine, University of New South Wales, Sydney, NSW, Australia.
Sci Rep ; 11(1): 3934, 2021 02 16.
Article en En | MEDLINE | ID: mdl-33594223
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 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 < 30. Our results highlight the importance of assessing all pathogens in symptomatic patients, and the dual-functionality of Twist hybrid-capture, for SARS-CoV-2 whole-genome sequencing without amplicon generation and the simultaneous identification of viral co-infections with ease.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Análisis de Secuencia de ADN / Coinfección / Viroma / SARS-CoV-2 / COVID-19 Tipo de estudio: Prognostic_studies / Risk_factors_studies Límite: Humans País/Región como asunto: Oceania Idioma: En Revista: Sci Rep Año: 2021 Tipo del documento: Article País de afiliación: Australia Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Análisis de Secuencia de ADN / Coinfección / Viroma / SARS-CoV-2 / COVID-19 Tipo de estudio: Prognostic_studies / Risk_factors_studies Límite: Humans País/Región como asunto: Oceania Idioma: En Revista: Sci Rep Año: 2021 Tipo del documento: Article País de afiliación: Australia Pais de publicación: Reino Unido