2019
DOI: 10.1002/2211-5463.12590
|View full text |Cite
|
Sign up to set email alerts
|

Rapid bacterial identification by direct PCR amplification of 16S rRNA genes using the MinION™ nanopore sequencer

Abstract: Rapid identification of bacterial pathogens is crucial for appropriate and adequate antibiotic treatment, which significantly improves patient outcomes. 16S ribosomal RNA (rRNA) gene amplicon sequencing has proven to be a powerful strategy for diagnosing bacterial infections. We have recently established a sequencing method and bioinformatics pipeline for 16S rRNA gene analysis utilizing the Oxford Nanopore Technologies MinION™ sequencer. In combination with our taxonomy annotation analysis pipeline, the syste… Show more

Help me understand this report
View preprint versions

Search citation statements

Order By: Relevance

Paper Sections

Select...
5

Citation Types

1
69
0

Year Published

2019
2019
2023
2023

Publication Types

Select...
5

Relationship

1
4

Authors

Journals

citations
Cited by 96 publications
(70 citation statements)
references
References 40 publications
1
69
0
Order By: Relevance
“…Advances in DNA sequencing technology have now enabled obtaining real‐time DNA sequencing data using the nanopore‐based sequencer MinION (Oxford Nanopore Technologies, Oxford, UK) . Recently, remarkable performances of the MinION system have been reported for rapid bacterial identification based on sequencing of full‐length 16S rRNA gene amplicons . Using this sequencer in tandem with two laptop computers, we have developed a portable and rapid bacterial composition analysis system for the on‐site diagnosis of infectious diseases .…”
Section: Introductionmentioning
confidence: 99%
See 4 more Smart Citations
“…Advances in DNA sequencing technology have now enabled obtaining real‐time DNA sequencing data using the nanopore‐based sequencer MinION (Oxford Nanopore Technologies, Oxford, UK) . Recently, remarkable performances of the MinION system have been reported for rapid bacterial identification based on sequencing of full‐length 16S rRNA gene amplicons . Using this sequencer in tandem with two laptop computers, we have developed a portable and rapid bacterial composition analysis system for the on‐site diagnosis of infectious diseases .…”
Section: Introductionmentioning
confidence: 99%
“…The first challenge is that the quality of nanopore sequencing was found to be considerably lower, by about 85% for 1D sequencing than that obtained using more common next‐generation sequencers such as Ion PGM (Thermo Fisher Scientific, MA, USA). However, with the advantage of long‐read sequencing, MinION can detect bacterial species based on the full‐length 16S rRNA gene, which improves the accuracy of species detection . Moreover, nanopore sequencing technology is continuously being updated, resulting in improvements in both the quality and quantity of the output sequencing data.…”
Section: Introductionmentioning
confidence: 99%
See 3 more Smart Citations