Issue 1, 2019

Merging metabolomics and lipidomics into one analytical run


A novel integrated metabolomics/lipidomics workflow is introduced enabling high coverage of polar metabolites and non-polar lipids within one analytical run. Dual HILIC and RP chromatography were combined to high-resolution mass spectrometry. As a major advantage, only one data file per sample was obtained by fully automated simultaneous analysis of two extracts per sample. Hence, the unprecedented high coverage without compromise on analytical throughput was not only obtained by the orthogonality of the chromatographic separations, but also by the implementation of dedicated sample preparation procedures resulting in optimum extraction efficiency for both sub-omes. Thus, the method addressed completely hydrophilic sugars and organic acids next to water-insoluble triglycerides. As for the timing of the dual chromatography setup, HILIC and RP separation were performed consecutively. However, re-equilibration of the HILIC column during elution of RP compounds and vice versa reduced the overall analysis time by one third to 32 min. Application to the Standard Reference Material SRM 1950 – Metabolites in Frozen Human Plasma resulted in >100 metabolite and >380 lipid identifications based on accurate mass implementing fast polarity switching and acquiring data dependent MS2 spectra with the use of automated exclusion lists. Targeted quantification based on external calibrations and 13C labeled yeast internal standards was successfully accomplished for 59 metabolites. Moreover, the potential for lipid quantification was shown integrating non-endogenous lipids as internal standards. In human plasma, concentrations ranging over 4 orders of magnitude (low nM to high μM) were assessed.

Graphical abstract: Merging metabolomics and lipidomics into one analytical run

Supplementary files

Article information

Article type
03 Jul 2018
12 Oct 2018
First published
09 Nov 2018
This article is Open Access
Creative Commons BY license

Analyst, 2019,144, 220-229

Merging metabolomics and lipidomics into one analytical run

M. Schwaiger, H. Schoeny, Y. El Abiead, G. Hermann, E. Rampler and G. Koellensperger, Analyst, 2019, 144, 220 DOI: 10.1039/C8AN01219A

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