phylogenetic and functional analysis of metagenome sequence from high-temperature archaeal habitats demonstrate linkages between metabolic potential and geochemistry

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ID: 187753
2013
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Ranked #242 of 875 articles by views in journal of magnetic resonance (san diego, calif : 1997)

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Abstract
Geothermal habitats in Yellowstone National Park (YNP) provide an unparalled opportunity to understand the environmental factors that control the distribution of archaea in thermal habitats. Here we describe, analyze and synthesize metagenomic and geochemical data collected from seven high-temperature sites that contain microbial communities dominated by archaea relative to bacteria. The specific objectives of the study were to use metagenome sequencing to determine the structure and functional capacity of thermophilic archaeal-dominated microbial communities across a pH range from 2.5 to 6.4 and to discuss specific examples where the metabolic potential correlated with measured environmental parameters and geochemical processes occurring in situ. Random shotgun metagenome sequence (~40-45 Mbase Sanger sequencing per site) was obtained from environmental DNA extracted from high-temperature sediments and/or microbial mats and subjected to numerous phylogenetic and functional analyses. Analysis of individual sequences (e.g., MEGAN and G+C content) and assemblies from each habitat type revealed the presence of dominant archaeal populations in all environments, 10 of whose genomes were largely reconstructed from the sequence data. Analysis of protein family occurrence, particularly of those involved in energy conservation, electron transport and autotrophic metabolism, revealed significant differences in metabolic strategies across sites consistent with differences in major geochemical attributes (e.g., sulfide, oxygen, pH). These observations provide an ecological basis for understanding the distribution of indigenous archaeal lineages across high temperature systems of YNP.
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inskeep2013frontiersphylogenetic Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors ;William P. Inskeep;Zackary J Jay;Markus J Herrgard;Mark A Kozubal;Douglas B Rusch;Susannah Green Tringe;Richard E Macur;Ryan edeM. Jennings;Eric S Boyd;John R. Spear;Francisco F Roberto
Journal journal of magnetic resonance (san diego, calif : 1997)
Year 2013
DOI
10.3389/fmicb.2013.00095
URL
http://journal.frontiersin.org/Journal/10.3389/fmicb.2013.00095/full
Keywords
phylogeny geochemistry functional genomics archaea

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