skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: The distribution, diversity and function of predominant Thermoproteales in high‐temperature environments of Yellowstone National Park

Journal Article · · Environmental Microbiology
 [1];  [1];  [1];  [1];  [2];  [1]
  1. Department of Land Resources and Environmental Sciences and Thermal Biology Institute Montana State University Bozeman MT 59175‐3120 USA
  2. Center for Genomics and Bioinformatics, Indiana University Bloomington IN USA

Summary High‐temperature environments (> 70°C) contain diverse and abundant members of the crenarchaeal order Thermoproteales. However, a comprehensive study of the distribution and function of diverse members of this group across different habitat types has not been conducted. Consequently, the goals of this study were to determine the distribution of different Thermoproteales genera across geochemically distinct geothermal habitats of Yellowstone National Park, and to identify key functional attributes of major genera that correlate with environmental parameters. Curated sequence assemblies belonging to five genera were characterized in replicate samples of 11 high‐temperature communities ranging in pH from 3 to 9. Thermocladium , Vulcanisaeta and Caldivirga spp. were the primary Thermoproteales populations present in low pH (pH < 5) habitats, whereas Thermoproteus populations were found in mildly‐acidic (pH 5–6) sulfur sediments, and Pyrobaculum populations were confined to higher pH (pH > 6) sulfur sediments and/or filamentous ‘streamer’ communities. Metabolic reconstruction and comparative genomics among assemblies show that these populations are primarily chemoorganotrophs that utilize different electron acceptors depending on geochemical conditions. The presence of potential CO 2 fixation pathways in some Thermoproteales populations appears to be linked with NiFe hydrogenases, which combined with high levels of H 2 in many sulfidic systems, may provide the energy required to fix inorganic C.

Sponsoring Organization:
USDOE
Grant/Contract Number:
112443; 254840; CSP 787081; CSP 701
OSTI ID:
1787073
Journal Information:
Environmental Microbiology, Journal Name: Environmental Microbiology Vol. 18 Journal Issue: 12; ISSN 1462-2912
Publisher:
Wiley-BlackwellCopyright Statement
Country of Publication:
United Kingdom
Language:
English

References (67)

Pyrobaculum gen. nov., a new genus of neutrophilic, rod-shaped archaebacteria from continental solfataras growing optimally at 100�C journal December 1987
Complete Genome Sequence of Strain 1860, a Crenarchaeon of the Genus Pyrobaculum Able To Grow with Various Electron Acceptors journal January 2012
Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2 journal February 2012
The YNP metagenome project: environmental parameters responsible for microbial distribution in the Yellowstone geothermal ecosystem journal January 2013
The microbial pan-genome journal December 2005
Comprehensive Analysis of Archaeal tRNA Genes Reveals Rapid Increase of tRNA Introns in the Order Thermoproteales journal October 2008
TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes journal January 2007
Geoarchaeota: a new candidate phylum in the Archaea from high-temperature acidic iron mats in Yellowstone National Park journal November 2012
Pyrobaculum calidifontis sp. nov., a novel hyperthermophilic archaeon that grows in atmospheric air journal January 2002
Complete Genome Sequence of "Vulcanisaeta moutnovskia" Strain 768-28, a Novel Member of the Hyperthermophilic Crenarchaeal Genus Vulcanisaeta journal March 2011
Sulfur geochemistry of hydrothermal waters in Yellowstone National Park: IV Acid–sulfate waters journal February 2009
Sulfur geochemistry of hydrothermal waters in Yellowstone National Park: I. the origin of thiosulfate in hot spring waters journal December 1998
Pyrobaculum yellowstonensis Strain WP30 Respires on Elemental Sulfur and/or Arsenate in Circumneutral Sulfidic Geothermal Sediments of Yellowstone National Park journal June 2015
Membrane-bound hydrogenase and sulfur reductase of the hyperthermophilic and acidophilic archaeon Acidianus ambivalens journal September 2003
Identification of Missing Genes and Enzymes for Autotrophic Carbon Fixation in Crenarchaeota journal December 2010
The DMSO Reductase Family of Microbial Molybdenum Enzymes; Molecular Properties and Role in the Dissimilatory Reduction of Toxic Elements journal January 2002
Characterization of the Type III sulfide:quinone oxidoreductase from Caldivirga maquilingensis and its membrane binding journal March 2013
Vulcanisaeta distributa gen. nov., sp. nov., and Vulcanisaeta souniana sp. nov., novel hyperthermophilic, rod-shaped crenarchaeotes isolated from hot springs in Japan journal July 2002
Predominant Acidilobus-Like Populations from Geothermal Environments in Yellowstone National Park Exhibit Similar Metabolic Potential in Different Hypoxic Microbial Communities journal October 2013
Solexa Ltd journal June 2004
Transcriptional Map of Respiratory Versatility in the Hyperthermophilic Crenarchaeon Pyrobaculum aerophilum journal December 2008
On the energetics of chemolithotrophy in nonequilibrium systems: case studies of geothermal springs in Yellowstone National Park journal October 2005
Autotrophic carbon fixation in archaea journal May 2010
GtRNAdb: a database of transfer RNA genes detected in genomic sequence journal January 2009
A 3-Hydroxypropionate/4-Hydroxybutyrate Autotrophic Carbon Dioxide Assimilation Pathway in Archaea journal December 2007
The archaebacterial origin of eukaryotes journal December 2008
Niche specialization of novel Thaumarchaeota to oxic and hypoxic acidic geothermal springs of Yellowstone National Park journal November 2013
Comparison of prokaryotic diversity at offshore oceanic locations reveals a different microbiota in the Mediterranean Sea: Offshore prokaryotic diversity journal June 2006
Metagenome Sequence Analysis of Filamentous Microbial Communities Obtained from Geochemically Distinct Geothermal Channels Reveals Specialization of Three Aquificales Lineages journal January 2013
TM4: A Free, Open-Source System for Microarray Data Management and Analysis journal February 2003
The RAST Server: Rapid Annotations using Subsystems Technology journal January 2008
Hydrothermal ecotones and streamer biofilm communities in the Lower Geyser Basin, Yellowstone National Park: Hydrothermal ecotones and biofilms in Yellowstone journal March 2011
The Complete Genome Sequence of Thermoproteus tenax: A Physiologically Versatile Member of the Crenarchaeota journal October 2011
progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement journal June 2010
Coordinating Environmental Genomics and Geochemistry Reveals Metabolic Transitions in a Hot Spring Ecosystem journal June 2012
Functional metagenomic profiling of nine biomes journal March 2008
Occurrence, Classification, and Biological Function of Hydrogenases:  An Overview journal October 2007
Pyrobaculum oguniense sp. nov., a novel facultatively aerobic and hyperthermophilic archaeon growing at up to 97 degrees C. journal March 2001
Fine-Scale Distribution Patterns of Synechococcus Ecological Diversity in Microbial Mats of Mushroom Spring, Yellowstone National Park journal September 2011
Respiration of Arsenate and Selenate by Hyperthermophilic Archaea journal October 2000
Accelerated Profile HMM Searches journal October 2011
Energetics of overall metabolic reactions of thermophilic and hyperthermophilic Archaea and Bacteria journal April 2001
Thermocladium modestius gen. nov., sp. nov., a new genus of rod-shaped, extremely thermophilic crenarchaeote journal July 1998
The distribution, diversity, and importance of 16S rRNA gene introns in the order Thermoproteales journal July 2015
Phylogenetic and Functional Analysis of Metagenome Sequence from High-Temperature Archaeal Habitats Demonstrate Linkages between Metabolic Potential and Geochemistry journal January 2013
Carbon Dioxide Fixation by Metallosphaera yellowstonensis and Acidothermophilic Iron-Oxidizing Microbial Communities from Yellowstone National Park journal February 2014
Pyrobaculum aerophilum sp. nov., a novel nitrate-reducing hyperthermophilic archaeum. journal January 1993
Fast gapped-read alignment with Bowtie 2 journal March 2012
Caldivirga maquilingensis gen. nov., sp. nov., a new genus of rod-shaped crenarchaeote isolated from a hot spring in the Philippines journal July 1999
BLAST+: architecture and applications journal January 2009
Basic local alignment search tool journal October 1990
Metagenomes from High-Temperature Chemotrophic Systems Reveal Geochemical Controls on Microbial Community Structure and Function journal March 2010
Genetic identification of a respiratory arsenate reductase journal August 2003
In situ analysis of oxygen consumption and diffusive transport in high-temperature acidic iron-oxide microbial mats : Oxygen consumption in geothermal iron-oxide microbial mats journal March 2013
Microbial community structure and sulfur biogeochemistry in mildly-acidic sulfidic geothermal springs in Yellowstone National Park journal November 2012
Mauve Assembly Metrics journal August 2011
Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment. journal March 1994
Archaeal and bacterial communities in three alkaline hot springs in Heart Lake Geyser Basin, Yellowstone National Park journal January 2013
ACT: the Artemis comparison tool journal June 2005
Geomicrobiology of sublacustrine thermal vents in Yellowstone Lake: geochemical controls on microbial community structure and function journal October 2015
Reversible interconversion of carbon dioxide and formate by an electroactive enzyme journal July 2008
Phylogenetic and environmental diversity of DsrAB-type dissimilatory (bi)sulfite reductases journal October 2014
MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0 journal October 2013
Autotrophic Carbon Dioxide Assimilation in Thermoproteales Revisited journal May 2009
Assembly and Succession of Iron Oxide Microbial Mat Communities in Acidic Geothermal Springs journal February 2016
IMG ER: a system for microbial genome annotation expert review and curation journal June 2009
Chemolithoautotrophic metabolism of anaerobic extremely thermophilic archaebacteria journal February 1983