Skip to main content
OSTI.GOVU.S. Department of Energy Office of Scientific and Technical Information
U.S. Department of Energy
Office of Scientific and Technical Information
 

Untargeted metabolomics studies employing NMR and LC–MS reveal metabolic coupling between Nanoarcheum equitans and its archaeal host Ignicoccus hospitalis

Journal Article · · Metabolomics
 [1];  [1];  [1];  [2];  [3];  [2];  [3];  [4];  [4]
  1. Montana State Univ., Bozeman, MT (United States). Dept. of Chemistry and Biochemistry
  2. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  3. Univ. of Tennessee, Knoxville, TN (United States). Dept. of Microbiology
  4. Montana State Univ., Bozeman, MT (United States). Dept. of Chemistry and Biochemistry; Montana State Univ., Bozeman, MT (United States). Thermal Biology Inst.
+ Show Author Affiliations
Interactions between species are the basis of microbial community formation and infectious diseases. Systems biology enables the construction of complex models describing such interactions, leading to a better understanding of disease states and communities. However, before interactions between complex organisms can be understood, metabolic and energetic implications of simpler real-world host-microbe systems must be worked out. To this effect, untargeted metabolomics experiments were conducted and integrated with proteomics data to characterize key molecular-level interactions between two hyperthermophilic microbial species, both of which have reduced genomes. Metabolic changes and transfer of metabolites between the archaea Ignicoccus hospitalis and Nanoarcheum equitans were investigated using integrated LC–MS and NMR metabolomics. The study of such a system is challenging, as no genetic tools are available, growth in the laboratory is challenging, and mechanisms by which they interact are unknown. Together with information about relative enzyme levels obtained from shotgun proteomics, the metabolomics data provided useful insights into metabolic pathways and cellular networks of I. hospitalis that are impacted by the presence of N. equitans, including arginine, isoleucine, and CTP biosynthesis. On the organismal level, the data indicate that N. equitans exploits metabolites generated by I. hospitalis to satisfy its own metabolic needs. Lastly, this finding is based on N. equitans’s consumption of a significant fraction of the metabolite pool in I. hospitalis that cannot solely be attributed to increased biomass production for N. equitans. Combining LC–MS and NMR metabolomics datasets improved coverage of the metabolome and enhanced the identification and quantitation of cellular metabolites.
Research Organization:
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
Grant/Contract Number:
AC05-00OR22725; SC0006654
OSTI ID:
1286759
Journal Information:
Metabolomics, Journal Name: Metabolomics Journal Issue: 4 Vol. 11; ISSN 1573-3882
Publisher:
SpringerCopyright Statement
Country of Publication:
United States
Language:
English

References (31)

Sampling methods for NMR-based metabolomics of Staphylococcus aureus journal January 2010
Composition of the lipids of Nanoarchaeum equitans and their origin from its host Ignicoccus sp. strain KIN4/I journal September 2004
Ignicoccus hospitalis and Nanoarchaeum equitans: ultrastructure, cell–cell interaction, and 3D reconstruction from serial sections of freeze-substituted cells and by electron cryotomography journal July 2008
The unusual cell biology of the hyperthermophilic Crenarchaeon Ignicoccus hospitalis journal June 2012
The phylum Nanoarchaeota: Present knowledge and future perspectives of a unique form of life journal April 2003
Expanding the paradigm of thiol redox in the thermophilic root of life journal January 2014
SnapShot: Key Numbers in Biology journal June 2010
Quantitative metabolomics using NMR journal March 2008
Targeted Profiling:  Quantitative Analysis of 1 H NMR Metabolomics Data journal July 2006
A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont journal May 2002
Life on the edge: functional genomic response of Ignicoccus hospitalis to the presence of Nanoarchaeum equitans journal July 2014
The interaction of Nanoarchaeum equitans with Ignicoccus hospitalis: proteins in the contact site between two cells journal January 2009
A dicarboxylate/4-hydroxybutyrate autotrophic carbon assimilation cycle in the hyperthermophilic Archaeum Ignicoccus hospitalis journal May 2008
Energized outer membrane and spatial separation of metabolic processes in the hyperthermophilic Archaeon Ignicoccus hospitalis journal February 2010
The genome of Nanoarchaeum equitans: Insights into early archaeal evolution and derived parasitism journal October 2003
Integrated Access to Metabolic and Genomic Data journal January 1996
Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology journal December 2009
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes journal October 2005
Ignicoccus gen. nov., a novel genus of hyperthermophilic, chemolithoautotrophic Archaea, represented by two new species, Ignicoccus islandicus sp. nov. and Ignicoccus pacificus sp. nov journal November 2000
Ignicoccus hospitalis sp. nov., the host of 'Nanoarchaeum equitans' journal April 2007
Origins and evolution of isoprenoid lipid biosynthesis in archaea journal March 2004
Insights into the Autotrophic CO2 Fixation Pathway of the Archaeon Ignicoccus hospitalis: Comprehensive Analysis of the Central Carbon Metabolism journal March 2007
Nanoarchaeum equitans and Ignicoccus hospitalis: New Insights into a Unique, Intimate Association of Two Archaea journal December 2007
Energy conservation in chemotrophic anaerobic bacteria. journal January 1977
Metabolic profiling of Staphylococcus aureus cultivated under aerobic and anaerobic conditions with 1 H NMR-based nontargeted analysis journal June 2012
Regulatory network operations in the Pathway Tools software journal January 2012
A genomic analysis of the archaeal system Ignicoccus hospitalis-Nanoarchaeum equitans journal January 2008
The Development of Metabolomic Sampling Procedures for Pichia pastoris, and Baseline Metabolome Data journal January 2011
Proteomic Characterization of Cellular and Molecular Processes that Enable the Nanoarchaeum equitans-Ignicoccus hospitalis Relationship journal August 2011
Energized outer membrane and spatial separation of metabolic processes in the hyperthermophilic Archaeon "Ignicoccus hospitalis" text January 2010
Proteomic Characterization of Cellular and Molecular Processes that Enable the Nanoarchaeum equitans-Ignicoccus hospitalis Relationship text January 2011

Cited By (8)

1H NMR metabolomic study of auxotrophic starvation in yeast using Multivariate Curve Resolution-Alternating Least Squares for Pathway Analysis journal August 2016
Genomic diversity, lifestyles and evolutionary origins of DPANN archaea journal January 2019
Characterization of Fatty Acids in Crenarchaeota by GC-MS and NMR journal January 2015
A Complex Endomembrane System in the Archaeon Ignicoccus hospitalis Tapped by Nanoarchaeum equitans journal June 2017
Metabolic Implications of Using BioOrthogonal Non-Canonical Amino Acid Tagging (BONCAT) for Tracking Protein Synthesis journal February 2020
Evaluation of extraction solvents for untargeted metabolomics analysis of enrichment reactor cultures performing enhanced biological phosphorus removal (EBPR) posted_content March 2019
Conceptual Model of Biofilm Antibiotic Tolerance That Integrates Phenomena of Diffusion, Metabolism, Gene Expression, and Physiology journal September 2019
Single-cell genomics of co-sorted Nanoarchaeota suggests novel putative host associations and diversification of proteins involved in symbiosis journal September 2018

Similar Records

Multi-omics analysis provides insight to the Ignicoccus hospitalis - Nanoarchaeum equitans association
Journal Article · Sat Jun 03 20:00:00 EDT 2017 · Biochimica et Biophysica Acta - General Subjects · OSTI ID:1400161
Proteomic characterization of cellular and molecular processes that enable the Nanoarchaeum equitans-Ignicoccus hospitalis relationship
Journal Article · Fri Dec 31 23:00:00 EST 2010 · PLoS Genetics · OSTI ID:1024273
A genomic analysis of the archael system Ignicoccus hospitalis-Nanoarchaeum equitans
Journal Article · Mon Sep 01 00:00:00 EDT 2008 · Genome Biology · OSTI ID:970571

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Hyperthermophilic archea
Ignicoccus hospitalis-Nanoarcheum equitans
Interspecies interactions
LC–MS and NMR
Metabolomics
Systems biology