Article (Scientific journals)
Dark Matter in host-microbiome metabolomics: Tackling the unknowns-A review
Peisl, Beatrice Yasmin Loulou; Schymanski, Emma; Wilmes, Paul
2017In Analytica Chimica Acta
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Keywords :
Known unknowns; Metabolomics; Mass Spectrometry; Microbiome; Unknowns; Dark Matter
Abstract :
[en] The “dark matter” in metabolomics (unknowns) represents an exciting frontier with significant potential for discovery in relation to biochemistry, yet it also presents one of the largest challenges to overcome. This focussed review takes a close look at the current state-of-the-art and future challenges in tackling the unknowns with specific focus on the human gut microbiome and host-microbe interactions. Metabolomics, like metabolism itself, is a very dynamic discipline, with many workflows and methods under development, both in terms of chemical analysis and post-analysis data processing. Here, we look at developments in the mutli-omic analyses and the use of mass spectrometry to investigate the exchange of metabolites between the host and the microbiome as well as the environment within the microbiome. A case study using HuMiX, a microfluidics-based human-microbial co-culture system that enables the co-culture of human and microbial cells under controlled conditions, is used to highlight opportunities and current limitations. Common definitions, approaches, databases and elucidation techniques from both the environmental and metabolomics fields are covered, with perspectives on how to merge these, as the boundaries blur between the fields. While reflecting on the number of unknowns remaining to be conquered in typical complexsamples measured with mass spectrometry (often ordersof magnitude above the “knowns”), we provide an outlook on future perspectives and challenges in elucidating the relevant “dark matter”.
Research center :
Luxembourg Centre for Systems Biomedicine (LCSB)
Disciplines :
Life sciences: Multidisciplinary, general & others
Biochemistry, biophysics & molecular biology
Author, co-author :
Peisl, Beatrice Yasmin Loulou ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
Schymanski, Emma  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
Wilmes, Paul ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
External co-authors :
Language :
Title :
Dark Matter in host-microbiome metabolomics: Tackling the unknowns-A review
Publication date :
30 December 2017
Journal title :
Analytica Chimica Acta
Publisher :
Elsevier, Amsterdam, Netherlands
Peer reviewed :
Peer Reviewed verified by ORBi
Focus Area :
Systems Biomedicine
FnR Project :
FNR11609531 - Elucidation Of Previously Uncharacterized Metabolites Involved In Human-microbial Cross-talk, 2017 (15/04/2017-14/06/2019) - Beatrice Yasmin Loulou Peisl
Funders :
FNR - Fonds National de la Recherche [LU]
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