Journal article
Diagnosis of SARS-CoV-2 infection with LamPORE, a high-throughput platform combining loop-mediated isothermal amplification and nanopore sequencing
- Abstract:
- LamPORE is a novel diagnostic platform for the detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA combining loop-mediated isothermal amplification with nanopore sequencing, which could potentially be used to analyze thousands of samples per day on a single instrument. We evaluated the performance of LamPORE against reverse transcriptase PCR (RT-PCR) using RNA extracted from spiked respiratory samples and stored nose and throat swabs collected at two UK hospitals. The limit of detection of LamPORE was 10 genome copies/μl of extracted RNA, which is above the limit achievable by RT-PCR, but was not associated with a significant reduction of sensitivity in clinical samples. Positive clinical specimens came mostly from patients with acute symptomatic infection, and among them, LamPORE had a diagnostic sensitivity of 99.1% (226/228; 95% confidence interval [CI], 96.9% to 99.9%). Among negative clinical specimens, including 153 with other respiratory pathogens detected, LamPORE had a diagnostic specificity of 99.6% (278/279; 98.0% to 100.0%). Overall, 1.4% (7/514; 0.5% to 2.9%) of samples produced an indeterminate result on first testing, and repeat LamPORE testing on the same RNA extract had a reproducibility of 96.8% (478/494; 94.8% to 98.1%). LamPORE has a similar performance as RT-PCR for the diagnosis of SARS-CoV-2 infection in symptomatic patients and offers a promising approach to high-throughput testing.
- Publication status:
- Published
- Peer review status:
- Peer reviewed
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(Preview, Version of record, 812.6KB, Terms of use)
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- Publisher copy:
- 10.1128/jcm.03271-20
Authors
- Publisher:
- American Society for Microbiology
- Journal:
- Journal of Clinical Microbiology More from this journal
- Volume:
- 59
- Issue:
- 6
- Article number:
- e03271-20
- Publication date:
- 2021-03-29
- Acceptance date:
- 2021-03-23
- DOI:
- EISSN:
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1098-660X
- ISSN:
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0095-1137
- Pmid:
-
33782112
- Language:
-
English
- Keywords:
- Pubs id:
-
1170075
- Local pid:
-
pubs:1170075
- Deposit date:
-
2021-05-31
Terms of use
- Copyright holder:
- Peto et al.
- Copyright date:
- 2021
- Rights statement:
- © 2021 Peto et al. This is an openaccess article distributed under the terms of the Creative Commons Attribution 4.0 International license.
- Licence:
- CC Attribution (CC BY)
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