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Laboratory validation of a clinical metagenomic next-generation sequencing assay for respiratory virus detection and discovery

Author

Listed:
  • Jessica Karielle Tan

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Venice Servellita

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Doug Stryke

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Emily Kelly

    (University of California San Francisco)

  • Jessica Streithorst

    (University of California San Francisco)

  • Nanami Sumimoto

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Abiodun Foresythe

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Hee Jae Huh

    (University of California San Francisco
    Abbott Pandemic Defense Coalition
    Samsung Medical Center, Sungkyunkwan University School of Medicine)

  • Jenny Nguyen

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Miriam Oseguera

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Noah Brazer

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Jack Tang

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Danielle Ingebrigtsen

    (University of California San Francisco)

  • Becky Fung

    (University of California San Francisco)

  • Helen Reyes

    (University of California San Francisco)

  • Melissa Hillberg

    (University of California San Francisco)

  • Alice Chen

    (Center for Laboratory Sciences, California Department of Public Health)

  • Hugo Guevara

    (Center for Laboratory Sciences, California Department of Public Health)

  • Shigeo Yagi

    (Center for Laboratory Sciences, California Department of Public Health)

  • Christina Morales

    (Center for Laboratory Sciences, California Department of Public Health)

  • Debra A. Wadford

    (Center for Laboratory Sciences, California Department of Public Health)

  • Peter M. Mourani

    (University of Arkansas for Medical Sciences)

  • Charles R. Langelier

    (University of California San Francisco
    Chan-Zuckerberg Biohub)

  • Mikael de Lorenzi-Tognon

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Patrick Benoit

    (University of California San Francisco
    Abbott Pandemic Defense Coalition)

  • Charles Y. Chiu

    (University of California San Francisco
    Abbott Pandemic Defense Coalition
    University of California San Francisco
    Chan-Zuckerberg Biohub)

Abstract

Tools for rapid identification of novel and/or emerging viruses are urgently needed for clinical diagnosis of unexplained infections and pandemic preparedness. Here we developed and clinically validated a largely automated metagenomic next-generation sequencing (mNGS) assay for agnostic detection of respiratory viral pathogens from upper respiratory swab and bronchoalveolar lavage samples in

Suggested Citation

  • Jessica Karielle Tan & Venice Servellita & Doug Stryke & Emily Kelly & Jessica Streithorst & Nanami Sumimoto & Abiodun Foresythe & Hee Jae Huh & Jenny Nguyen & Miriam Oseguera & Noah Brazer & Jack Tan, 2024. "Laboratory validation of a clinical metagenomic next-generation sequencing assay for respiratory virus detection and discovery," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-51470-y
    DOI: 10.1038/s41467-024-51470-y
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    References listed on IDEAS

    as
    1. Peng Zhou & Xing-Lou Yang & Xian-Guang Wang & Ben Hu & Lei Zhang & Wei Zhang & Hao-Rui Si & Yan Zhu & Bei Li & Chao-Lin Huang & Hui-Dong Chen & Jing Chen & Yun Luo & Hua Guo & Ren-Di Jiang & Mei-Qin L, 2020. "Addendum: A pneumonia outbreak associated with a new coronavirus of probable bat origin," Nature, Nature, vol. 588(7836), pages 6-6, December.
    2. Heike Sichtig & Timothy Minogue & Yi Yan & Christopher Stefan & Adrienne Hall & Luke Tallon & Lisa Sadzewicz & Suvarna Nadendla & William Klimke & Eneida Hatcher & Martin Shumway & Dayanara Lebron Ald, 2019. "FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science," Nature Communications, Nature, vol. 10(1), pages 1-13, December.
    3. Kate E. Jones & Nikkita G. Patel & Marc A. Levy & Adam Storeygard & Deborah Balk & John L. Gittleman & Peter Daszak, 2008. "Global trends in emerging infectious diseases," Nature, Nature, vol. 451(7181), pages 990-993, February.
    4. Peng Zhou & Xing-Lou Yang & Xian-Guang Wang & Ben Hu & Lei Zhang & Wei Zhang & Hao-Rui Si & Yan Zhu & Bei Li & Chao-Lin Huang & Hui-Dong Chen & Jing Chen & Yun Luo & Hua Guo & Ren-Di Jiang & Mei-Qin L, 2020. "A pneumonia outbreak associated with a new coronavirus of probable bat origin," Nature, Nature, vol. 579(7798), pages 270-273, March.
    5. Venice Servellita & Alicia Sotomayor Gonzalez & Daryl M. Lamson & Abiodun Foresythe & Hee Jae Huh & Adam L. Bazinet & Nicholas H. Bergman & Robert L. Bull & Karla Y. Garcia & Jennifer S. Goodrich & Se, 2023. "Adeno-associated virus type 2 in US children with acute severe hepatitis," Nature, Nature, vol. 617(7961), pages 574-580, May.
    Full references (including those not matched with items on IDEAS)

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