Deciphering Microbial Communication Through Metabolites
EMSL Project ID
49183
Abstract
This project will establish a Metabolomics Center at PNNL that will develop the advanced measurement
capabilities necessary to define the metabolic processes of microbiomes and determine how these processes
change due to perturbation. Importantly, the Metabolomics Center will integrate various metabolomics
capabilities and advanced technologies at PNNL under a unified scientific vision with the goal of enabling the
identification of the mechanisms by which microorganisms in complex communities communicate and interact
at the molecular level with each other, with plant and animal hosts, and with their environments. The objectives
of the Metabolomics Center are to 1) determine the relative influence of direct (e.g. via secondary metabolites)
versus indirect (e.g. via changes in microbial community metabolite pools) microbial communication and
interaction through metabolites and other small molecules, 2) increase the identification coverage of the
metabolomes of microbial communities, their hosts, and/or their environments, and 3) identify the mechanisms
by which metabolites involved in communication and interaction are generated, transported, and sequestered
within microbial communities.
We will rely on traditional (GC?MS and NMR) and advanced measurement platforms unique to PNNL (LC?IMS?MS
and LC?FTICR MS) to obtain comprehensive metabolomics data from analyses of various microbiomes (e.g. soil
and gut). Through application of these technologies, we will establish capabilities for evaluating metabolic
models of microbial communities and for identifying the mechanisms for microbial communication through
metabolite exchange. We will also establish a knowledgebase of metabolomics data and associated
experimental metadata for hypothesis testing and generation. Finally, we will identify the molecular machinery
responsible for metabolite production, transport, and metabolism within microbial communities.
Project Details
Start Date
2015-11-06
End Date
2018-09-30
Status
Closed
Released Data Link
Team
Principal Investigator
Team Members
Related Publications
Aksenov A.A., I. Laponogov, Z. Zhang, S.L. Doran, I. Belluomo, D. Veselkov, and W. Bittremieux, et al. 2020. "Algorithmic Learning for Auto-deconvolution of GC-MS Data to Enable Molecular Networking within GNPS." Nature Biotechnology. PNNL-SA-150654. doi:10.1101/2020.01.13.905091.
Bottos E.M., D.W. Kennedy, E.B. Romero, S.J. Fansler, J.M. Brown, L.M. Bramer, and R.K. Chu, et al. 2018. "Dispersal Limitation and Thermodynamic Constraints Govern Spatial Structure of Permafrost Microbial Communities." FEMS Microbiology Ecology 94, no. 8:fiy110. PNNL-SA-130968. doi:10.1093/femsec/fiy110
Bottos EM, DW Kennedy, EB Romero, SJ Fansler, JM Brown, LM Bramer, RK Chu, MM Tfaily, JK Jansson, and JC Stegen. 2018. "Dispersal Limitation and Thermodynamic Constraints Govern Spatial Structure of Permafrost Microbial Communities." Nature Ecology and Evolution. doi:10.1101/265132
Burnum-Johnson KE, EM Baker, and TO Metz. 2017. "Characterizing the Lipid and Metabolite Changes Associated with Placental Function and Pregnancy Complications Using Ion Mobility Spectrometry-Mass Spectrometry and Mass Spectrometry Imaging." Placenta 60(Supplement 1):S67-S72. doi:10.1016/j.placenta.2017.03.016
Fudyma J.D., J.E. Lyon, R. Aminitabrizi, H. Gieschen, R.K. Chu, D.W. Hoyt, and J.E. Kyle, et al. 2019. "Untargeted metabolomic profiling of Sphagnum fallax reveals novel antimicrobial metabolites." Plant Direct 3, no. 11:Article No. e00179. PNNL-SA-146621. doi:10.1002/pld3.179
Ma J, CP Casey, X Zheng, YM Ibrahim, CS Wilkins, RS Renslow, DG Thomas, SH Payne, ME Monroe, RD Smith, JG Teeguarden, EM Baker, and TO Metz. 2017. "PIXiE: An Algorithm for Automated Ion Mobility Arrival Time Extraction and Collision Cross Section Calculation using Global Data Association." Bioinformatics 33(17):2715–2722. doi:10.1093/bioinformatics/btx305
Varga T., T.C. Droubay, L. Kovarik, D. Hu, and S.A. Chambers. 2018. "Controlling the structure and ferroic properties of strained epitaxial NiTiO3 thin films on sapphire by post-deposition annealing." Thin Solid Films 662. PNNL-SA-129160. doi:10.1016/j.tsf.2018.07.030