Metabolomic Analysis of Yeast and Human Cells: Latest Advances and Challenges
Liquid chromatography–mass spectrometry (LC-MS) based nontargeted metabolomics has been applied to a wide range of biological samples and can provide information on thousands of compounds. However, reliable identification of the compounds remains a challenge affecting result interpretation. In this protocol, we describe comparable yeast cell and whole blood metabolome sample preparation for extracting similar compound groups, and we present a LC-MS method using the all ion fragmentation (AIF) approach for the purposes of increasing accuracy in metabolite annotation. Our method enables database-dependent targeted as well as nontargeted metabolomics analysis from the same data acquisition, while simultaneously improving the accuracy in metabolite identification to increase the quality of the resulting biological information.
Key wordsMetabolomics Liquid chromatography–mass spectrometry (LC-MS) All ion fragmentation (AIF) Metabolite annotation
All ion fragmentation
Collision induced dissociation
Extracted ion chromatogram
Hydrophilic interaction liquid chromatography
Liquid chromatography–mass spectrometry
Tandem mass spectrometry
We acknowledge the support of the Gunma University Initiative for Advanced Research (GIAR). This work was supported in part by The Environment Research and Technology Development Fund (ERTDF) (Grant No 5-1752). CEW was supported by the Swedish Heart Lung Foundation (HLF 20150640).
- 7.Naz S, Gallart-Ayala H, Reinke SN et al (2017) Development of a liquid chromatography-high resolution mass spectrometry metabolomics method with high specificity for metabolite identification using all ion fragmentation acquisition. Anal Chem 89:7933–7942. https://doi.org/10.1021/acs.analchem.7b00925CrossRefPubMedGoogle Scholar