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Functional metagenomic profiling of nine biomes

Author

Listed:
  • Elizabeth A. Dinsdale

    (Department of Biology,
    School of Biological Sciences, Flinders University, Adelaide, South Australia 5042, Australia)

  • Robert A. Edwards

    (Department of Biology,
    Center for Microbial Sciences,
    and
    Argonne National Laboratory, Argonne, Illinois 60439, USA)

  • Dana Hall

    (Department of Biology,)

  • Florent Angly

    (Department of Biology,
    Computational Science Research Centre, San Diego State University, San Diego, California 92182, USA)

  • Mya Breitbart

    (University of South Florida, College of Marine Science, 140 7th Avenue South, St Petersburg, Florida 33701, USA)

  • Jennifer M. Brulc

    (and)

  • Mike Furlan

    (Department of Biology,)

  • Christelle Desnues

    (Department of Biology,
    Present address: Unité des Rickettsies, CNRS-UMR 6020, Faculté de médecine, 13385 Marseille, France.)

  • Matthew Haynes

    (Department of Biology,)

  • Linlin Li

    (Department of Biology,)

  • Lauren McDaniel

    (University of South Florida, College of Marine Science, 140 7th Avenue South, St Petersburg, Florida 33701, USA)

  • Mary Ann Moran

    (University of Georgia, Athens, 30602 Georgia, USA)

  • Karen E. Nelson

    (The J. Craig Venter Institute, 9712 Medical Center Drive, Rockville, Maryland 20850, USA)

  • Christina Nilsson

    (Genome Institute of Singapore, 60 Biopolis Street, 02-01, Genome, Singapore 138672, Singapore)

  • Robert Olson

    (Argonne National Laboratory, Argonne, Illinois 60439, USA)

  • John Paul

    (University of South Florida, College of Marine Science, 140 7th Avenue South, St Petersburg, Florida 33701, USA)

  • Beltran Rodriguez Brito

    (Department of Biology,
    Computational Science Research Centre, San Diego State University, San Diego, California 92182, USA)

  • Yijun Ruan

    (Genome Institute of Singapore, 60 Biopolis Street, 02-01, Genome, Singapore 138672, Singapore)

  • Brandon K. Swan

    (University of California Santa Barbara, Santa Barbara, California 93106, USA)

  • Rick Stevens

    (Argonne National Laboratory, Argonne, Illinois 60439, USA)

  • David L. Valentine

    (University of California Santa Barbara, Santa Barbara, California 93106, USA)

  • Rebecca Vega Thurber

    (Department of Biology,)

  • Linda Wegley

    (Department of Biology,)

  • Bryan A. White

    (and
    The Institute for Genomic Biology, University of Illinois, Urbana, Illinois 61801, USA)

  • Forest Rohwer

    (Department of Biology,
    Center for Microbial Sciences,)

Abstract

Microbial profiles Nearly 15 million sequences were used in a comparative metagenomic study of 45 microbiomes and 42 viriomes (the latter dominated by bacteriophage) from nine distinct types of ecosystem, varying from coral reefs and rivers to deep mines. While the core metabolic traits were represented in microbial genomes from all environments, a characteristic microbial fingerprint was found for each of the nine different ecosystem types based on a roster of metabolic capabilities. The analysis also reveals a surprising array of viral metabolic capabilities, suggesting that viruses may serve as a gene pool for sharing genes among their microbial hosts.

Suggested Citation

  • Elizabeth A. Dinsdale & Robert A. Edwards & Dana Hall & Florent Angly & Mya Breitbart & Jennifer M. Brulc & Mike Furlan & Christelle Desnues & Matthew Haynes & Linlin Li & Lauren McDaniel & Mary Ann M, 2008. "Functional metagenomic profiling of nine biomes," Nature, Nature, vol. 452(7187), pages 629-632, April.
    • Handle: RePEc:nat:nature:v:452:y:2008:i:7187:d:10.1038_nature06810
    DOI: 10.1038/nature06810
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    Cited by:

    1. Zamora, Maria A. & Pinzón, Andres & Zambrano, Maria M. & Restrepo, Silvia & Broadbelt, Linda J. & Moura, Matthew & Husserl Orjuela, Johana & González Barrios, Andrés F., 2015. "A comparison between functional frequency and metabolic flows framed by biogeochemical cycles in metagenomes: The case of “El Coquito” hot spring located at Colombia's national Nevados park," Ecological Modelling, Elsevier, vol. 313(C), pages 259-265.
    2. Oluwadara Pelumi Omotayo & Ozede Nicholas Igiehon & Olubukola Oluranti Babalola, 2021. "Metagenomic Study of the Community Structure and Functional Potentials in Maize Rhizosphere Microbiome: Elucidation of Mechanisms behind the Improvement in Plants under Normal and Stress Conditions," Sustainability, MDPI, vol. 13(14), pages 1-28, July.

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