Ocean Viruses: Rigorously Evaluating the Metagenomic Sample-To-Sequence Pipeline

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

Abstract

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.

Publication types

  • Research Support, Non-U.S. Gov't
  • Review

MeSH terms

  • Biota*
  • Metagenome*
  • Metagenomics / methods*
  • Oceans and Seas*
  • Seawater / virology*
  • Viruses / classification*
  • Viruses / genetics*