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Metagenomics

  • Jack A. GilbertEmail author
  • Bonnie Laverock
  • Ben Temperton
  • Simon Thomas
  • Martin Muhling
  • Margaret Hughes
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 733)

Abstract

Metagenomics has evolved over the last 3 decades from the analysis of single genes and their apparent diversity in an ecosystem to the provision of complex genetic information relating to whole ecosystems. Metagenomics is a vast subject area in terms of methodology, which encompasses a suite of molecular technologies employed to investigate genomic information from all members of a microbial community. However, the relatively recent developments in high-throughput sequencing platforms have meant that metagenomic can be performed simply by extracting DNA and sequencing it. Here, we outline explicit methodologies for the extraction of metagenomic DNA from marine and sediments/soil environmental samples, the subsequent production and sequencing of large-insert metagenomic libraries, and also shotgun pyrosequencing considerations. We also provide relevant advice on bioinformatic analyses of the complex metagenomic datasets. We hope that the information provided here will be useful to establish the techniques in most reasonably equipped molecular biology laboratories.

Key words

Metagenomics Pyrosequencing 

Notes

Acknowledgments

The author would like to thank Neil Hall from the NERC/University of Liverpool Advanced Genomics Facility.

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Copyright information

© Springer Science+Business Media, LLC 2011

Authors and Affiliations

  • Jack A. Gilbert
    • 1
    Email author
  • Bonnie Laverock
  • Ben Temperton
  • Simon Thomas
  • Martin Muhling
  • Margaret Hughes
  1. 1.Plymouth Marine Laboratory, The HoePlymouthUK

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