دورية أكاديمية
أعرض في EDS

A multiplexed, next generation sequencing platform for high-throughput detection of SARS-CoV-2.

التفاصيل البيبلوغرافية
العنوان: A multiplexed, next generation sequencing platform for high-throughput detection of SARS-CoV-2.
المؤلفون: Aynaud MM; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Hernandez JJ; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada.; Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, M5S 3E1, ON, Canada.; Department of Molecular Genetics, University of Toronto, Toronto, M5S 1A8, ON, Canada., Barutcu S; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Braunschweig U; Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, M5S 3E1, ON, Canada., Chan K; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Pearson JD; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Trcka D; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Prosser SL; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Kim J; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Barrios-Rodiles M; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Jen M; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Song S; Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, M5S 3E1, ON, Canada.; Department of Biochemistry, University of Toronto, Toronto, M5S 1A8, ON, Canada., Shen J; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Bruce C; Department of Microbiology, Mount Sinai Hospital/University Health Network, Toronto, M5G 1X5, ON, Canada., Hazlett B; Department of Microbiology, Mount Sinai Hospital/University Health Network, Toronto, M5G 1X5, ON, Canada., Poutanen S; Department of Microbiology, Mount Sinai Hospital/University Health Network, Toronto, M5G 1X5, ON, Canada., Attisano L; Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, M5S 3E1, ON, Canada.; Department of Biochemistry, University of Toronto, Toronto, M5S 1A8, ON, Canada., Bremner R; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada., Blencowe BJ; Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, M5S 3E1, ON, Canada.; Department of Molecular Genetics, University of Toronto, Toronto, M5S 1A8, ON, Canada., Mazzulli T; Department of Microbiology, Mount Sinai Hospital/University Health Network, Toronto, M5G 1X5, ON, Canada., Han H; Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, M5S 3E1, ON, Canada., Pelletier L; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada. pelletier@lunenfeld.ca.; Department of Molecular Genetics, University of Toronto, Toronto, M5S 1A8, ON, Canada. pelletier@lunenfeld.ca., Wrana JL; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, ON, Canada. wrana@lunenfeld.ca.; Department of Molecular Genetics, University of Toronto, Toronto, M5S 1A8, ON, Canada. wrana@lunenfeld.ca.
المصدر: Nature communications [Nat Commun] 2021 Mar 03; Vol. 12 (1), pp. 1405. Date of Electronic Publication: 2021 Mar 03.
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
أسماء مطبوعة: Original Publication: [London] : Nature Pub. Group
مواضيع طبية MeSH: High-Throughput Nucleotide Sequencing/*methods , SARS-CoV-2/*growth & development , SARS-CoV-2/*pathogenicity, COVID-19/genetics ; COVID-19/immunology ; COVID-19/virology ; Humans ; Molecular Diagnostic Techniques ; Nucleic Acid Amplification Techniques ; RNA, Viral/genetics ; Reverse Transcriptase Polymerase Chain Reaction ; Viral Load
مستخلص: Population scale sweeps of viral pathogens, such as SARS-CoV-2, require high intensity testing for effective management. Here, we describe "Systematic Parallel Analysis of RNA coupled to Sequencing for Covid-19 screening" (C19-SPAR-Seq), a multiplexed, scalable, readily automated platform for SARS-CoV-2 detection that is capable of analyzing tens of thousands of patient samples in a single run. To address strict requirements for control of assay parameters and output demanded by clinical diagnostics, we employ a control-based Precision-Recall and Receiver Operator Characteristics (coPR) analysis to assign run-specific quality control metrics. C19-SPAR-Seq coupled to coPR on a trial cohort of several hundred patients performs with a specificity of 100% and sensitivity of 91% on samples with low viral loads, and a sensitivity of >95% on high viral loads associated with disease onset and peak transmissibility. This study establishes the feasibility of employing C19-SPAR-Seq for the large-scale monitoring of SARS-CoV-2 and other pathogens.
References: Genome Biol. 2009;10(3):R25. (PMID: 19261174)
Nat Med. 2020 Apr;26(4):450-452. (PMID: 32284615)
Cell. 2020 Apr 16;181(2):281-292.e6. (PMID: 32155444)
Nat Commun. 2020 Jun 1;11(1):2704. (PMID: 32483174)
J Intern Med. 2021 Feb;289(2):255-258. (PMID: 32558969)
Nat Commun. 2021 Mar 3;12(1):1405. (PMID: 33658502)
Nat Med. 2020 Jun;26(6):855-860. (PMID: 32322102)
Nat Med. 2020 May;26(5):672-675. (PMID: 32296168)
Lancet Infect Dis. 2020 Sep;20(9):1025-1033. (PMID: 32445710)
Microbes Infect. 2020 Nov - Dec;22(10):617-621. (PMID: 32911086)
RNA. 2020 Jul;26(7):771-783. (PMID: 32358057)
Nature. 2020 Mar;579(7798):265-269. (PMID: 32015508)
Int J Environ Res Public Health. 2020 May 22;17(10):. (PMID: 32456072)
Transbound Emerg Dis. 2021 May;68(3):1625-1638. (PMID: 32954666)
N Engl J Med. 2020 Nov 26;383(22):e120. (PMID: 32997903)
Euro Surveill. 2021 Jan;26(1):. (PMID: 33413740)
Mol Cell. 2017 Feb 2;65(3):539-553.e7. (PMID: 28157508)
Cell. 2020 Sep 3;182(5):1284-1294.e9. (PMID: 32730807)
المشرفين على المادة: 0 (RNA, Viral)
تواريخ الأحداث: Date Created: 20210304 Date Completed: 20210311 Latest Revision: 20240331
رمز التحديث: 20240331
مُعرف محوري في PubMed: PMC7930244
DOI: 10.1038/s41467-021-21653-y
PMID: 33658502
قاعدة البيانات: MEDLINE
الوصف
تدمد:2041-1723
DOI:10.1038/s41467-021-21653-y