Journal
PARASITOLOGY
Volume 141, Issue 14, Pages 1856-1862Publisher
CAMBRIDGE UNIV PRESS
DOI: 10.1017/S0031182014000134
Keywords
metagenomics; high-throughput sequencing; diagnosis
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Funding
- Biotechnology and Biological Sciences Research Council [BB/E011179/1] Funding Source: researchfish
- Biotechnology and Biological Sciences Research Council [BB/E011179/1] Funding Source: Medline
- BBSRC [BB/E011179/1] Funding Source: UKRI
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The term 'shotgun metagenomics' is applied to the direct sequencing of DNA extracted from a sample without culture or target-specific amplification or capture. In diagnostic metagenomics,this approach is applied to clinical samples in the hope of detecting and characterizing pathogens. Here, I provide a conceptual overview, before reviewing several recent promising proof-of-principle applications of metagenomics in virus discovery, analysis of outbreaks and detection of pathogens in contemporary and historical samples. I also evaluate future prospects for diagnostic metagenomics in the light of relentless improvements in sequencing technologies.
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