The DOI matches its Crossref record; 37 of the 37 references it cites were found in a registry or an index.
Microbial metabolomics: Toward a platform with full metabolome coverage
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.
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“The importance of the gut microbiota in contributing metabolites to the human metabolome has also recently emerged (50,66).”
From The food metabolome: a window over dietary exposure (2014) · cites this paper as [50]
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Effect of essential oils on pathogenic bacteria
Nazzaro, F., Fratianni, F., De Martino, L., Coppola, R., & De Feo, V. (2013) · Pharmaceuticals · doi:10.3390/ph6121451 · Cited by 2,186
Evans, A. M., DeHaven, C. D., Barrett, T., Mitchell, M. W., & Milgram, K. E. (2009) · Analytical Chemistry · doi:10.1021/ac901536h · Cited by 1,317
Hydrophilic interaction liquid chromatography (HILIC)—a powerful separation technique
Buszewski, B., & Noga, S. (2011) · Analytical and Bioanalytical Chemistry · doi:10.1007/s00216-011-5308-5 · Cited by 1,241
Advances in Chemical and Biological Methods to Identify Microorganisms—From Past to Present
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Mass appeal: metabolite identification in mass spectrometry-focused untargeted metabolomics
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Self-citation
Metadata
- Authors
- Werf, M. J. V. D., Overkamp, K. M., Muilwijk, B., Coulier, L., & Hankemeier, T.
- Corresponding author
- Werf, Mariët J. van der
- Venue
- Analytical Biochemistry
- Publisher
- Elsevier BV
- Published
- 2007-11
- Volume
- 370
- Issue
- 1
- Pages
- 17-25
- ISSN
- 0003-2697 (ISSN-L)
- OpenAlex
- W1965468642
- Cited by
- 207
- References
- 37
- Citations by year
- 2025: 3 · 2024: 4 · 2023: 3 · 2022: 4 · 2021: 5 · 2020: 3 · 2019: 9 · 2018: 4 · 2017: 4 · 2016: 11 · 2015: 20 · 2014: 16 · 2013: 18 · 2012: 20
- FWCI
- 8.73
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Analytical Biochemistry (publishedVersion)
- PubMed (publishedVersion)
- TNO Repository (submittedVersion)
- Repository hosted by TU Delft Library (TU Delft) (submittedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Metabolomics and Mass Spectrometry Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial Metabolic Engineering and Bioproduction
- Health Sciences › Medicine › Microbiology (medical) › Bacterial Identification and Susceptibility Testing
- Keywords
- microbial metabolomics, Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, metabolite classification, gas chromatography-mass spectrometry, liquid chromatography-mass spectrometry, metabolite identification
- MeSH terms
- Bacillus subtilis, Chromatography, Liquid, Escherichia coli, Gas Chromatography-Mass Spectrometry, Saccharomyces cerevisiae, Databases, Factual
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