Applying graph theoretic approaches to microbial metagenomes: ecological perspectives on function

  • Authors:

  • Wolfgang Hankeln;Pier Luigi Buttigieg;Ivaylo Kostadinov;Renzo Kottmann;Pelin Yilmaz;Melissa Beth Duhaime;Frank Oliver Glöckner

  • Affiliations:

  • Max Planck Institute for Marine Microbiology, Bremen, Germany and Jacobs University Bremen gGmbH, Bremen, Germany;Max Planck Institute for Marine Microbiology, Bremen, Germany and Jacobs University Bremen gGmbH, Bremen, Germany;Max Planck Institute for Marine Microbiology, Bremen, Germany and Jacobs University Bremen gGmbH, Bremen, Germany;Max Planck Institute for Marine Microbiology, Bremen, Germany;Max Planck Institute for Marine Microbiology, Bremen, Germany and Jacobs University Bremen gGmbH, Bremen, Germany;Max Planck Institute for Marine Microbiology, Bremen, Germany and Jacobs University Bremen gGmbH, Bremen, Germany;Max Planck Institute for Marine Microbiology, Bremen, Germany and Jacobs University Bremen gGmbH, Bremen, Germany

  • Venue:
  • Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology
  • Year:
  • 2010

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Abstract

Graph theoretic approaches offer a powerful means to visualise and examine data arising from microbial environmental metagenomes. Here, inter-correlations of protein domains with no known function detected in marine microbial metagenomes were visualised as networks. The topology of these networks combined with putative functional assignments of some participant protein domains allowed the generation of hypotheses concerning the ecological functions these networks may reveal. These methods may be employed to offer an ecological perspective in future attempts to describe the function of uncharacterised protein domains.