Summary of Study ST000999

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000676. The data can be accessed directly via it's Project DOI: 10.21228/M8968S This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

Study ID	ST000999
Study Title	Natural genetic variation in C. elegans identified genomic loci controlling metabolite levels
Study Type	Metabolomics in C. elegans
Study Summary	Metabolic homeostasis is sustained by complex biological networks that respond to nutrient availability. Genetic and environmental factors may disrupt this equilibrium leading to metabolic disorders, including obesity and type 2 diabetes. To identify the genetic factors controlling metabolism, we performed quantitative genetic analysis using a population of 199 recombinant inbred lines (RILs) in the nematode Caenorhabditis elegans. We focused on the genomic regions that control metabolite levels by measuring fatty acid (FA) and amino acid (AA) composition in the RILs using targeted metabolomics. The genetically diverse RILs showed a large variation in their FA and AA levels with a heritability ranging from 32-82%. We detected strongly co-correlated metabolite clusters and 36 significant metabolite QTL (mQTL). We focused on mQTL displaying highly significant linkage and heritability, including an mQTL for the FA C14:1 on Chromosome I, and another mQTL for the FA C18:2 on Chromosome IV. Using introgression lines (ILs) we were able to narrow down both mQTL to a 1.4 Mbp and a 3.6 Mbp region, respectively. RNAi-based screening focusing on the Chromosome I mQTL identified several candidate genes for the C14:1 mQTL, including lagr-1, Y87G2A.2, nhr-265, nhr-276, and nhr-81. Overall, this systems approach provides us with a powerful platform to study the genetic basis of C. elegans metabolism. Furthermore, it allows us to investigate interventions, such as nutrients and stresses that maintain or disturb the regulatory network controlling metabolic homeostasis, and identify gene-by-environment interactions.
Institute	Academic Medical Center of Amsterdam
Last Name	Gao
First Name	Arwen
Address	Meibergdreef 9, Amsterdam, North-Holland, 1105 AZ, Netherlands
Email	w.gao@amc.nl
Phone	0031205663827
Submit Date	2018-07-05
Analysis Type Detail	LC-MS
Release Date	2018-07-13
Release Version	1

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Sample Preparation:

Sampleprep ID:	SP001045
Sampleprep Summary:	A synchronous population of young adult worms was washed off the plates in M9 buffer and the worm pellet was washed with dH2O for three times and then collected in a 2 mL Eppendorf tube and freeze-dried overnight. Dried worm pellets were stored at room temperature until use. A dry worm pellet was re-suspended in ice-cold 0.9% NaCl solution (250 µL). Worms were homogenized with a 5 mm steel bead using a TissueLyser II (Qiagen) for 2x2.5 min at frequency of 30 times/sec, followed by a tip sonication (energy level: 40 joule; output: 8 watts) for two times on ice water. Protein quantification was performed with BCA assay.

Sampleprep ID:

SP001045

Sampleprep Summary:

A synchronous population of young adult worms was washed off the plates in M9 buffer and the worm pellet was washed with dH2O for three times and then collected in a 2 mL Eppendorf tube and freeze-dried overnight. Dried worm pellets were stored at room temperature until use. A dry worm pellet was re-suspended in ice-cold 0.9% NaCl solution (250 µL). Worms were homogenized with a 5 mm steel bead using a TissueLyser II (Qiagen) for 2x2.5 min at frequency of 30 times/sec, followed by a tip sonication (energy level: 40 joule; output: 8 watts) for two times on ice water. Protein quantification was performed with BCA assay.