دورية أكاديمية
Genome-wide tiled detection of circulating Mycobacterium tuberculosis cell-free DNA using Cas13.
العنوان: | Genome-wide tiled detection of circulating Mycobacterium tuberculosis cell-free DNA using Cas13. |
---|---|
المؤلفون: | Thakku SG; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Lirette J; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Murugesan K; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA., Chen J; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Theron G; DSI-NRF Centre of Excellence for Biomedical Tuberculosis Research and SAMRC Centre for Tuberculosis Research, Division of Molecular Biology and Human Genetics, Faculty of Medicine and Health Sciences, Stellenbosch University, Cape Town, South Africa., Banaei N; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.; Department of Medicine, Division of Infectious Diseases and Geographic Medicine, Stanford University School of Medicine, Stanford, CA, USA.; Clinical Microbiology Laboratory, Stanford Health Care, Palo Alto, CA, USA., Blainey PC; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.; Koch Institute for Integrative Cancer Research at MIT, Cambridge, MA, USA., Gomez J; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Wong SY; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Hung DT; Broad Institute of MIT and Harvard, Cambridge, MA, USA. dhung@broadinstitute.org.; Department of Genetics, Harvard Medical School, Boston, MA, USA. dhung@broadinstitute.org.; Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA, USA. dhung@broadinstitute.org. |
المصدر: | Nature communications [Nat Commun] 2023 Mar 31; Vol. 14 (1), pp. 1803. Date of Electronic Publication: 2023 Mar 31. |
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: | Mycobacterium tuberculosis*/genetics, Cell-Free System ; DNA, Bacterial/analysis ; DNA, Bacterial/genetics ; Genome, Bacterial ; CRISPR-Cas Systems ; Humans ; Tuberculosis/diagnosis ; Tuberculosis/microbiology |
مستخلص: | Detection of microbial cell-free DNA (cfDNA) circulating in the bloodstream has emerged as a promising new approach for diagnosing infection. Microbial diagnostics based on cfDNA require assays that can detect rare and highly fragmented pathogen nucleic acids. We now report WATSON (Whole-genome Assay using Tiled Surveillance Of Nucleic acids), a method to detect low amounts of pathogen cfDNA that couples pooled amplification of genomic targets tiled across the genome with pooled CRISPR/Cas13-based detection of these targets. We demonstrate that this strategy of tiling improves cfDNA detection compared to amplification and detection of a single targeted locus. WATSON can detect cfDNA from Mycobacterium tuberculosis in plasma of patients with active pulmonary tuberculosis, a disease that urgently needs accurate, minimally-invasive, field-deployable diagnostics. We thus demonstrate the potential for translating WATSON to a lateral flow platform. WATSON demonstrates the ability to capitalize on the strengths of targeting microbial cfDNA to address the need for point-of-care diagnostic tests for infectious diseases. (© 2023. The Author(s).) |
References: | Clin Chem. 2004 Jun;50(6):1002-11. (PMID: 15073090) Lancet Microbe. 2022 Jul;3(7):e482-e492. (PMID: 35659882) Nature. 2020 Jun;582(7811):277-282. (PMID: 32349121) Science. 2016 Aug 5;353(6299):aaf5573. (PMID: 27256883) Infection. 2017 Jun;45(3):269-276. (PMID: 27798774) Sci Rep. 2016 Jun 14;6:27859. (PMID: 27297799) Tuberculosis (Edinb). 2016 Jul;99:47-53. (PMID: 27450004) J Infect Dis. 2019 Oct 8;220(220 Suppl 3):S91-S98. (PMID: 31593596) BMC Med Genomics. 2018 Feb 13;11(Suppl 1):16. (PMID: 29504912) J Mol Diagn. 2018 Mar;20(2):215-224. (PMID: 29269279) Science. 2017 Apr 28;356(6336):438-442. (PMID: 28408723) Nat Rev Cancer. 2017 Apr;17(4):223-238. (PMID: 28233803) Am Rev Respir Dis. 1980 Jun;121(6):939-49. (PMID: 6774638) Science. 2018 Apr 27;360(6387):439-444. (PMID: 29449508) Semin Immunol. 2014 Dec;26(6):431-44. (PMID: 25453224) Proc Natl Acad Sci U S A. 2017 Sep 5;114(36):9623-9628. (PMID: 28830999) Commun Biol. 2021 Jun 2;4(1):664. (PMID: 34079045) Nat Microbiol. 2019 Apr;4(4):663-674. (PMID: 30742071) PLoS One. 2014 Mar 03;9(3):e87838. (PMID: 24595313) BMC Genomics. 2013 Jun 25;14:422. (PMID: 23800083) J Clin Microbiol. 2019 Oct 23;57(11):. (PMID: 31511335) J Clin Microbiol. 2019 Mar 28;57(4):. (PMID: 30404942) J Clin Microbiol. 2005 Jun;43(6):2996-7. (PMID: 15956443) PLoS One. 2021 Jun 24;16(6):e0253879. (PMID: 34166477) Nat Rev Clin Oncol. 2021 May;18(5):297-312. (PMID: 33473219) Lancet Infect Dis. 2009 Aug;9(8):505-11. (PMID: 19628175) Sci Rep. 2015 Jul 28;5:12567. (PMID: 26215170) Theranostics. 2020 Apr 7;10(12):5501-5513. (PMID: 32373224) Sci Transl Med. 2010 Feb 24;2(20):20ra14. (PMID: 20371490) FEMS Microbiol Lett. 1991 Sep 15;67(1):11-5. (PMID: 1663885) Nat Biotechnol. 2022 Jun;40(6):855-861. (PMID: 35132263) J Clin Microbiol. 2018 Nov 27;56(12):. (PMID: 30282788) Sci Rep. 2018 Jan 12;8(1):645. (PMID: 29330384) Science. 2018 Apr 27;360(6387):444-448. (PMID: 29700266) PNAS Nexus. 2022 Apr 15;1(1):pgac021. (PMID: 35450424) Proc Natl Acad Sci U S A. 2018 Jun 26;115(26):6685-6690. (PMID: 29899149) Proc Natl Acad Sci U S A. 2019 Sep 10;116(37):18738-18744. (PMID: 31451660) |
المشرفين على المادة: | 0 (DNA, Bacterial) |
تواريخ الأحداث: | Date Created: 20230331 Date Completed: 20230404 Latest Revision: 20230419 |
رمز التحديث: | 20231215 |
مُعرف محوري في PubMed: | PMC10064635 |
DOI: | 10.1038/s41467-023-37183-8 |
PMID: | 37002219 |
قاعدة البيانات: | MEDLINE |
تدمد: | 2041-1723 |
---|---|
DOI: | 10.1038/s41467-023-37183-8 |