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Curr Opin Microbiol. 2010 Oct;13(5):625-31. doi: 10.1016/j.mib.2010.08.003. Epub 2010 Sep 16.

High-throughput sequencing and clinical microbiology: progress, opportunities and challenges.

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  • 1School of Biosciences, University of Birmingham, Birmingham, B15 2TT, United Kingdom. m.pallen@bham.ac.uk

Abstract

High-throughput sequencing is sweeping through clinical microbiology, transforming our discipline in its wake. It is already providing an enhanced view of pathogen biology through rapid and inexpensive whole-genome sequencing and more sophisticated applications such as RNA-seq. It also promises to deliver high-resolution genomic epidemiology as the ultimate typing method for bacteria. However, the most revolutionary effect of this 'disruptive technology' is likely to be creation of a novel sequence-based, culture-independent diagnostic microbiology that incorporates microbial community profiling, metagenomics and single-cell genomics. We should prepare for the coming 'technological singularity' in sequencing, when this technology becomes so fast and so cheap that it threatens to out-compete existing diagnostic and typing methods in microbiology.

Copyright © 2010 Elsevier Ltd. All rights reserved.

PMID:
20843733
[PubMed - indexed for MEDLINE]
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