Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs

Authors

E A. Eloe-Fadrosh, Joint Genome InstituteFollow
D Paez-Espino, Joint Genome Institute
J Jarett, Joint Genome InstituteFollow
P F. Dunfield, University of Calgary
Brian Hedlund, University of Nevada, Las VegasFollow
A E. Dekas, Lawrence Livermore National Laboratory
S E. Grasby, Geological Survey of Canada
A L. Brady, McMaster University
H Dong, Miami UniversityFollow
B R. Briggs, University of Alaska-AnchorageFollow
W J. Li, Sun Yat-Sen UniversityFollow
D Goudeau, Department of Energy Joint Genome Institute
R Malmstrom, Department of Energy Joint Genome Institute
A Pati, Department of Energy Joint Genome Institute
J Pett-Ridge, Lawrence Livermore National Laboratory
E M. Rubin, Department of Energy Joint Genome Institute
T Woyke, Department of Energy Joint Genome InstituteFollow
N C. Kyrpides, Department of Energy Joint Genome InstituteFollow
N N. Ivanova, Department of Energy Joint Genome InstituteFollow

Document Type

Book Review

Publication Date

1-1-2016

Publication Title

Nature Communications

Publisher

Nature Publishing Group

Volume

7

Abstract

Analysis of the increasing wealth of metagenomic data collected from diverse environments can lead to the discovery of novel branches on the tree of life. Here we analyse 5.2 Tb of metagenomic data collected globally to discover a novel bacterial phylum ('Candidatus Kryptonia') found exclusively in higherature pH-neutral geothermal springs. This lineage had remained hidden as a taxonomic 'blind spot' because of mismatches in the primers commonly used for ribosomal gene surveys. Genome reconstruction from metagenomic data combined with single-cell genomics results in several high-quality genomes representing four genera from the new phylum. Metabolic reconstruction indicates a heterotrophic lifestyle with conspicuous nutritional deficiencies, suggesting the need for metabolic complementarity with other microbes. Co-occurrence patterns identifies a number of putative partners, including an uncultured Armatimonadetes lineage. The discovery of Kryptonia within previously studied geothermal springs underscores the importance of globally sampled metagenomic data in detection of microbial novelty, and highlights the extraordinary diversity of microbial life still awaiting discovery.

Language

English

Repository Citation

Eloe-Fadrosh, E. A., Paez-Espino, D., Jarett, J., Dunfield, P. F., Hedlund, B., Dekas, A. E., Grasby, S. E., Brady, A. L., Dong, H., Briggs, B. R., Li, W. J., Goudeau, D., Malmstrom, R., Pati, A., Pett-Ridge, J., Rubin, E. M., Woyke, T., Kyrpides, N. C., Ivanova, N. N. (2016). Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs. Nature Communications, 7 Nature Publishing Group.
http://dx.doi.org/10.1038/ncomms10476