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Virology. 2012 Dec 20;434(2):181-6. doi: 10.1016/j.virol.2012.09.036. Epub 2012 Oct 16.

Ocean viruses: rigorously evaluating the metagenomic sample-to-sequence pipeline.

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Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA.


As new environments are studied, viruses consistently emerge as important and prominent players in natural and man-made ecosystems. However, much of what we know is built both upon the foundation of the culturable minority and using methods that are often insufficiently ground-truthed. Here, we review the modern culture-independent viral metagenomic sample-to-sequence pipeline and how next-generation sequencing techniques are drastically altering our ability to systematically and rigorously evaluate them. Together, a series of studies quantitatively evaluate existing and new methods that allow-even for ultra-low DNA samples-the generation of replicable, near-quantitative datasets that maximize inter-comparability and biological inference.

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