Optimizing DNA Extraction Methods for Nanopore Sequencing of Neisseria gonorrhoeae Directly from Urine Samples-Reference-Cited by-同舟云学术

Optimizing DNA Extraction Methods for Nanopore Sequencing of Neisseria gonorrhoeae Directly from Urine Samples

Published:2020-02-24 Issue:3 Volume:58 Page:
ISSN:0095-1137
Container-title:Journal of Clinical Microbiology
language:en
Short-container-title:J Clin Microbiol

Author:

Street Teresa L.¹,Barker Leanne¹,Sanderson Nicholas D.¹,Kavanagh James¹,Hoosdally Sarah¹,Cole Kevin²,Newnham Robert³,Selvaratnam Mathyruban³,Andersson Monique³,Llewelyn Martin J.²,O’Grady Justin⁴,Crook Derrick W.¹⁵,Eyre David W.¹⁵⁶

Affiliation:

1. Nuffield Department of Clinical Medicine, University of Oxford, John Radcliffe Hospital, Oxford, United Kingdom

2. Department of Microbiology and Infection, Royal Sussex County Hospital, Brighton, United Kingdom

3. Microbiology Laboratory, John Radcliffe Hospital, Oxford University Hospitals NHS Foundation Trust, Oxford, United Kingdom

4. Quadram Institute Bioscience, Norwich, United Kingdom

5. National Institute for Health Research Oxford Biomedical Research Centre, John Radcliffe Hospital, Oxford, United Kingdom

6. Big Data Institute, University of Oxford, Oxford, United Kingdom

Abstract

Empirical gonorrhea treatment at initial diagnosis reduces onward transmission. However, increasing resistance to multiple antibiotics may necessitate waiting for culture-based diagnostics to select an effective treatment. There is a need for same-day culture-free diagnostics that identify infection and detect antimicrobial resistance. We investigated if Nanopore sequencing can detect sufficient Neisseria gonorrhoeae DNA to reconstruct whole genomes directly from urine samples.

Funder

HHS | Centers for Disease Control and Prevention

Publisher

American Society for Microbiology

Subject

Microbiology (medical)

Link

https://journals.asm.org/doi/pdf/10.1128/JCM.01822-19

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