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SARS-CoV-2 genomic and subgenomic RNAs in diagnostic samples are not an indicator of active replication

Author

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  • Soren Alexandersen

    (Geelong Centre for Emerging Infectious Diseases
    Deakin University
    University Hospital Geelong)

  • Anthony Chamings

    (Geelong Centre for Emerging Infectious Diseases
    Deakin University)

  • Tarka Raj Bhatta

    (Geelong Centre for Emerging Infectious Diseases
    Deakin University)

Abstract

Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) was first detected in late December 2019 and has spread worldwide. Coronaviruses are enveloped, positive sense, single-stranded RNA viruses and employ a complicated pattern of virus genome length RNA replication as well as transcription of genome length and leader containing subgenomic RNAs. Although not fully understood, both replication and transcription are thought to take place in so-called double-membrane vesicles in the cytoplasm of infected cells. Here we show detection of SARS-CoV-2 subgenomic RNAs in diagnostic samples up to 17 days after initial detection of infection and provide evidence for their nuclease resistance and protection by cellular membranes suggesting that detection of subgenomic RNAs in such samples may not be a suitable indicator of active coronavirus replication/infection.

Suggested Citation

  • Soren Alexandersen & Anthony Chamings & Tarka Raj Bhatta, 2020. "SARS-CoV-2 genomic and subgenomic RNAs in diagnostic samples are not an indicator of active replication," Nature Communications, Nature, vol. 11(1), pages 1-13, December.
    • Handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-19883-7
    DOI: 10.1038/s41467-020-19883-7
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    Cited by:

    1. Ella Borberg & Eran Granot & Fernando Patolsky, 2022. "Ultrafast one-minute electronic detection of SARS-CoV-2 infection by 3CLpro enzymatic activity in untreated saliva samples," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    2. Luisa Zupin & Sabina Licen & Margherita Milani & Libera Clemente & Lorenzo Martello & Sabrina Semeraro & Francesco Fontana & Maurizio Ruscio & Alessandro Miani & Sergio Crovella & Pierluigi Barbieri, 2021. "Evaluation of Residual Infectivity after SARS-CoV-2 Aerosol Transmission in a Controlled Laboratory Setting," IJERPH, MDPI, vol. 18(21), pages 1-14, October.
    3. Orsolya Anna Pipek & Anna Medgyes-Horváth & József Stéger & Krisztián Papp & Dávid Visontai & Marion Koopmans & David Nieuwenhuijse & Bas B. Oude Munnink & István Csabai, 2024. "Systematic detection of co-infection and intra-host recombination in more than 2 million global SARS-CoV-2 samples," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
    4. Yunxi Liu & Nicolae Sapoval & Pilar Gallego-García & Laura Tomás & David Posada & Todd J. Treangen & Lauren B. Stadler, 2024. "Crykey: Rapid identification of SARS-CoV-2 cryptic mutations in wastewater," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
    5. Uddhav Timilsina & Supawadee Umthong & Emily B. Ivey & Brandon Waxman & Spyridon Stavrou, 2022. "SARS-CoV-2 ORF7a potently inhibits the antiviral effect of the host factor SERINC5," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    6. Rúbens Prince dos Santos Alves & Julia Timis & Robyn Miller & Kristen Valentine & Paolla Beatriz Almeida Pinto & Andrew Gonzalez & Jose Angel Regla-Nava & Erin Maule & Michael N. Nguyen & Norazizah Sh, 2024. "Human coronavirus OC43-elicited CD4+ T cells protect against SARS-CoV-2 in HLA transgenic mice," Nature Communications, Nature, vol. 15(1), pages 1-20, December.
    7. Shiv Gandhi & Jonathan Klein & Alexander J. Robertson & Mario A. Peña-Hernández & Michelle J. Lin & Pavitra Roychoudhury & Peiwen Lu & John Fournier & David Ferguson & Shah A. K. Mohamed Bakhash & M. , 2022. "De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: a case report," Nature Communications, Nature, vol. 13(1), pages 1-8, December.

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