Title
Microbial metabolomics: Toward a platform with full metabolome coverage
Author
Werf, M.J.v.d.
Overkamp, K.M.
Muilwijk, B.
Coulier, L.
Hankemeier, T.
TNO Kwaliteit van Leven
Publication year
2007
Abstract
Achieving metabolome data with satisfactory coverage is a formidable challenge in metabolomics because metabolites are a chemically highly diverse group of compounds. Here we present a strategy for the development of an advanced analytical platform that allows the comprehensive analysis of microbial metabolomes. Our approach started with in silico metabolome information from three microorganisms-Escherichia coli, Bacillus subtilis, and Saccharomyces cerevisiae-and resulted in a list of 905 different metabolites. Subsequently, these metabolites were classified based on their physicochemical properties, followed by the development of complementary gas chromatography-mass spectrometry and liquid chromatography-mass spectrometry methods, each of which analyzes different metabolite classes. This metabolomics platform, consisting of six different analytical methods, was applied for the analysis of the metabolites for which commercial standards could be purchased (399 compounds). Of these 399 metabolites, 380 could be analyzed with the platform. To demonstrate the potential of this metabolomics platform, we report on its application to the analysis of the metabolome composition of mid-logarithmic E. coli cells grown on a mineral salts medium using glucose as the carbon source. Of the 431 peaks detected, 235 (=176 unique metabolites) could be identified. These include 61 metabolites that were not previously identified or annotated in existing E. coli databases. © 2007 Elsevier Inc. All rights reserved.
Subject
Biology
Biotechnology
Coverage
Metabolome analysis
Metabolomics
Microbial systems biology
glucose
mineral
analytic method
article
Bacillus subtilis
bacterial growth
bacterium culture
computer model
culture medium
Escherichia coli
gas chromatography
liquid chromatography
mass spectrometry
metabolite
metabolomics
microbial metabolism
nonhuman
physical chemistry
priority journal
Saccharomyces cerevisiae
standard
systems biology
Bacillus subtilis
Chromatography, Liquid
Databases, Factual
Escherichia coli
Gas Chromatography-Mass Spectrometry
Saccharomyces cerevisiae
Bacillus subtilis
Escherichia coli
Saccharomyces cerevisiae
To reference this document use:
http://resolver.tudelft.nl/uuid:428528d3-6d3e-4fd2-b985-0baed6e08f37
DOI
https://doi.org/10.1016/j.ab.2007.07.022
TNO identifier
240258
Publisher
Elsevier
ISSN
0003-2697
Source
Analytical Biochemistry, 370 (1), 17-25
Document type
article