Metabolic profiling strategy of Caenorhabditis elegans by whole-organism nuclear magnetic resonance.
In this study, we present a methodology for metabotyping of C. elegans using 1H high resolution magic angle spinning (HRMAS) whole-organism nuclear magnetic resonance (NMR). We demonstrate and characterize the robustness of our metabolic phenotyping method, discriminating wild-type N2 from mutant sod-1(tm776) animals, with the latter being an otherwise silent mutation, and we identify and quantify several confounding effects to establish guidelines to ensure optimal quality of the raw data across time and space. We monitor the sample stability under experimental conditions and examine variations arising from effects that can potentially confuse the biological interpretation or prevent the automation of the protocol, including sample culture (breeding of the worms by two biologists), sample preparation (freezing), NMR acquisition (acquisition by different spectroscopists, acquisition in different facilities), and the effect of the age of the animals. When working with intact model organisms, some of these exogenous effects are shown to be significant and therefore require control through experimental design and sample randomization.
Blaise
Benjamin J
BJ
Université de Lyon, CNRS/ENS Lyon/UCB-Lyon1, Centre de RMN a Tres Hauts Champs, 5 rue de la Doua, 69100 Villeurbanne, France.
Giacomotto
Jean
J
Triba
Mohamed N
MN
Toulhoat
Pierre
P
Piotto
Martial
M
Emsley
Lyndon
L
Ségalat
Laurent
L
Dumas
Marc-Emmanuel
ME
Elena
Bénédicte
B
D000818:Animals; D017173:Caenorhabditis elegans / Q000235:genetics / Q000254:growth & development / Q000378:metabolism*; D009682:Magnetic Resonance Spectroscopy / Q000379:methods*; D055442:Metabolome; D055432:Metabolomics / Q000379:methods*; D008954:Models, Biological; D009154:Mutation