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Viral Metagenome Annotation Pipeline

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Encyclopedia of Metagenomics

Introduction

Viruses are the most abundant and diverse organisms on Earth, yet only a small fraction of the viral genome sequence space has been decoded. Based on analyses of environmental viral communities, it is estimated that only 1 % of the existent viral diversity has been explored. During more than a century, cultivation of viruses has remained the gold standard for virus discovery and characterization. One major limitation of this approach is that for most viral species, their hosts (predominantly microbes) are either unknown or cannot be grown in culture. Viral metagenomics (VM) circumvents this limitation by sequencing viral genetic material isolated directly from the environment. A typical viral metagenomics workflow is depicted in Fig. 1. Viral metagenomic methods have evolved significantly since their beginnings. Initially, they involved viral particle purification and enrichment from environmental samples, sharing of isolated nucleic acids followed by an optional cDNA...

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Authors and Affiliations

  1. Department of Informatics, The J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, 20850, USA

    Hernan Lorenzi

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  1. Hernan Lorenzi
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Correspondence to Hernan Lorenzi .

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Editors and Affiliations

  1. J. Craig Venter Institute (JCVI), Rockville, Maryland, USA

    Karen E. Nelson

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Lorenzi, H. (2013). Viral Metagenome Annotation Pipeline. In: Nelson, K. (eds) Encyclopedia of Metagenomics. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-6418-1_693-4

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  • DOI: https://doi.org/10.1007/978-1-4614-6418-1_693-4

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  • Online ISBN: 978-1-4614-6418-1

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