Multi-modality detection of SARS-CoV-2 in faecal donor samples for transplantation and in asymptomatic emergency surgical admissions.

Autor:	Manzoor SE; Microbiome Treatment Centre, University of Birmingham, Birmingham, B152TT, UK., Zaman S; Institute of Cancer & Genomic Science, University of Birmingham, Birmingham, B152TT, UK., Whalley C; Institute of Cancer & Genomic Science, University of Birmingham, Birmingham, B152TT, UK., Inglis D; Institute of Immunology & Immunotherapy, University of Birmingham, Birmingham, B152TT, UK., Bosworth A; Institute of Cancer & Genomic Science, University of Birmingham, Birmingham, B152TT, UK., Kidd M; Institute of Cancer & Genomic Science, University of Birmingham, Birmingham, B152TT, UK., Shabir S; Microbiome Treatment Centre, University of Birmingham, Birmingham, B152TT, UK., Quraishi N; Institute of Cancer & Genomic Science, University of Birmingham, Birmingham, B152TT, UK., Green CA; Institute of Microbiology & Infection, University of Birmingham, Birmingham, B152TT, UK., Iqbal T; Institute of Immunology & Immunotherapy, University of Birmingham, Birmingham, B152TT, UK., Beggs AD; Institute of Cancer & Genomic Science, University of Birmingham, Birmingham, B152TT, UK.
Jazyk:	angličtina
Zdroj:	F1000Research [F1000Res] 2021 May 11; Vol. 10, pp. 373. Date of Electronic Publication: 2021 May 11 (Print Publication: 2021).
DOI:	10.12688/f1000research.52178.1
Abstrakt:	Background: Faecal transplantation is an evidence-based treatment for Clostridioides difficile . Patients infected with SARS-CoV-2 have been shown to shed the virus in stool for up to 33 days, well beyond the average clearance time for upper respiratory tract shedding. We carried out an analytical and clinical validation of reverse-transcriptase quantitative (RT-qPCR) as well as LAMP, LamPORE and droplet digital PCR in the detection of SARS-CoV-2 RNA in stool from donated samples for faecal microbiota transplantation (FMT), spiked samples and asymptomatic inpatients in an acute surgical unit.  Methods: Killed SARS-CoV-2 viral lysate and extracted RNA was spiked into donor stool & FMT and a linear dilution series from 10 -1 to 10 -5 and tested via RT-qPCR, LAMP, LamPORE and ddPCR against SARS-CoV-2. Patients admitted to the critical care unit with symptomatic SARS-CoV-2 and sequential asymptomatic patients from acute presentation to an acute surgical unit were also tested. Results: In a linear dilution series, detection of the lowest dilution series was found to be 8 copies per microlitre of sample. Spiked lysate samples down to 10 -2 dilution were detected in FMT samples using RTQPCR, LamPORE and ddPCR and down to 10 -1 with LAMP. In symptomatic patients 5/12 had detectable SARS-CoV-2 in stool via RT-qPCR and 6/12 via LamPORE, and in 1/97 asymptomatic patients via RT-qPCR. Conclusion: RT-qPCR can be detected in FMT donor samples using RT-qPCR, LamPORE and ddPCR to low levels using validated pathways. As previously demonstrated, nearly half of symptomatic and less than one percent of asymptomatic patients had detectable SARS-CoV-2 in stool. Competing Interests: Competing interests: ADB – has received travel funding to the Oxford Nanopore Community Meeting 2019 from Oxford Nanopore. The rest of the authors declare no competing interests. (Copyright: © 2021 Manzoor SE et al.)
Databáze:	MEDLINE
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