Abstract
Metabolomics and chemical genomics studies can each provide unique insights into plant biology. Although a variety of analytical techniques can be used for the interrogation of plant systems, nuclear magnetic resonance (NMR) provides unbiased characterization of abundant metabolites. An example methodology is provided for probing the metabolism of Arabidopsis thaliana in a chemical genomics experiment including methods for tissue treatment, tissue collection, metabolite extraction, and methods to minimize variance in biological and technical sample replicates. Additionally, considerations and methods for data analysis, including multivariate statistics, univariate statistics, and data interpretation are included. The process is illustrated by examining the metabolic effects of chemical treatment of Arabidopsis with Sortin 1, also known as vacuolar protein sorting inhibitor 1. Sortin 1 was applied to Arabidopsis seedlings to examine metabolic effects in a chemical genomics experiment and to demonstrate the utility of metabolomics in conjunction with other "omics" techniques.
[NMR paper] NMR methods for metabolomics of Mammalian cell culture bioreactors.
NMR methods for metabolomics of Mammalian cell culture bioreactors.
Related Articles NMR methods for metabolomics of Mammalian cell culture bioreactors.
Methods Mol Biol. 2014;1104:223-36
Authors: Aranibar N, Reily MD
Abstract
Metabolomics has become an important tool for measuring pools of small molecules in mammalian cell cultures expressing therapeutic proteins. NMR spectroscopy has played an important role, largely because it requires minimal sample preparation, does not require chromatographic separation, and is quantitative. The...
Nuclear Magnetic Resonance (NMR)-Based Metabolomics.
Nuclear Magnetic Resonance (NMR)-Based Metabolomics.
Nuclear Magnetic Resonance (NMR)-Based Metabolomics.
Methods Mol Biol. 2011;708:321-34
Authors: Keun HC, Athersuch TJ
Biofluids are by far the most commonly studied sample type in metabolic profiling studies, encompassing blood, urine, cerebrospinal fluid, cell culture media and many others. A number of these fluids can be obtained at a high sampling frequency with minimal invasion, permitting detailed characterisation of dynamic metabolic events. One of the attractive properties of...
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[NMR paper] Structural genomics and the metabolome: combining computational and NMR methods to id
Structural genomics and the metabolome: combining computational and NMR methods to identify target ligands.
Related Articles Structural genomics and the metabolome: combining computational and NMR methods to identify target ligands.
Curr Opin Drug Discov Devel. 2004 Jan;7(1):62-8
Authors: Parsons L, Orban J
One of the goals of structural genomics is to use three-dimensional structures to gain insights into the function of poorly understood or hypothetical proteins. Approximate functions are often apparent from the protein fold, but more...
(1)H NMR-Based Metabolomics Methods for Chemical Genomics Experiments.
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