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Design of experiments: an efficient strategy to identify factors influencing extraction and derivatization of Arabidopsis thaliana samples in metabolomic studies with gas chromatography/mass spectrometry
Umeå University, Faculty of Science and Technology, Umeå Plant Science Centre (UPSC).
Umeå University, Faculty of Science and Technology, Department of Chemistry.
Umeå University, Faculty of Science and Technology, Umeå Plant Science Centre (UPSC).
Umeå University, Faculty of Science and Technology, Department of Chemistry.
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2004 (English)In: Analytical Biochemistry, ISSN 0003-2697, E-ISSN 1096-0309, Vol. 331, no 2, 283-295 p.Article in journal (Refereed) Published
Abstract [en]

The usual aim in metabolomic studies is to quantify the entire metabolome of each of a series of biological samples. To do this for complex biological matrices, e.g., plant tissues, efficient and reproducible extraction protocols must be developed. However, derivatization protocols must also be developed if GC/MS (one of the mostly widely used analytical methods for metabolomics) is involved. The aim of this study was to investigate how different chemical and physical factors (extraction solvent, derivatization reagents, and temperature) affect the extraction and derivatization of the metabolome from leaves of the plant Arabidopsis thaliana. Using design of experiment procedures, variation was systematically introduced, and the effects of this variation were analyzed using regression models. The results show that this approach allows a reliable protocol for metabolomic analysis of Arabidopsis to be determined with a relatively limited number of experiments. Following two different investigations an extraction and derivatization protocol was chosen. Further, the reproducibility of the analysis of 66 endogenous compounds was investigated, and it was shown that both hydrophilic and lipophilic compounds were detected with high reproducibility.

Place, publisher, year, edition, pages
2004. Vol. 331, no 2, 283-295 p.
Keyword [en]
Arabidopsis, Derivatization, Design of experiments, Extraction, Mass spectrometry, Metabolomics
National Category
Natural Sciences
Identifiers
URN: urn:nbn:se:umu:diva-14848DOI: 10.1016/j.ab.2004.04.037PubMedID: 15265734OAI: oai:DiVA.org:umu-14848DiVA: diva2:154520
Available from: 2007-06-19 Created: 2007-06-19 Last updated: 2017-12-14Bibliographically approved

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Gullberg, JonasJonsson, PärNordström, AndersSjöström, MichaelMoritz, Thomas
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