Journal article
NeuCode Labeling in Nematodes: Proteomic and Phosphoproteomic Impact of Ascaroside Treatment in Caenorhabditis elegans
Molecular & cellular proteomics, Vol.14(11), pp.2922-2935
11/2015
DOI: 10.1074/mcp.M115.049684
PMCID: PMC4638036
PMID: 26392051
Abstract
The nematode Caenorhabditis elegans is an important model organism for biomedical research. We previously described NeuCode stable isotope labeling by amino acids in cell culture (SILAC), a method for accurate proteome quantification with potential for multiplexing beyond the limits of traditional stable isotope labeling by amino acids in cell culture. Here we apply NeuCode SILAC to profile the proteomic and phosphoproteomic response of C. elegans to two potent members of the ascaroside family of nematode pheromones. By consuming labeled E. coli as part of their diet, C. elegans nematodes quickly and easily incorporate the NeuCode heavy lysine isotopologues by the young adult stage. Using this approach, we report, at high confidence, one of the largest proteomic and phosphoproteomic data sets to date in C. elegans: 6596 proteins at a false discovery rate ≤ 1% and 6620 phosphorylation isoforms with localization probability ≥75%. Our data reveal a post-translational signature of pheromone sensing that includes many conserved proteins implicated in longevity and response to stress.
Details
- Title: Subtitle
- NeuCode Labeling in Nematodes: Proteomic and Phosphoproteomic Impact of Ascaroside Treatment in Caenorhabditis elegans
- Creators
- Timothy W Rhoads - ¶Genome CenterAman Prasad - ‖Biochemistry, and Howard Hughes Medical Institute, University of Wisconsin-Madison, Madison, Wisconsin, 53706Nicholas W Kwiecien - From the Departments of ‡Chemistry, ¶Genome CenterAnna E Merrill - ¶Genome CenterKelson Zawack - ‡‡Boyce Thompson Institute and Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York, 14853Michael S Westphall - ¶Genome CenterFrank C Schroeder - ‡‡Boyce Thompson Institute and Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York, 14853Judith Kimble - ‖Biochemistry, and Howard Hughes Medical Institute, University of Wisconsin-Madison, Madison, Wisconsin, 53706Joshua J Coon - From the Departments of ‡Chemistry, §Biomolecular Chemistry, ¶Genome Center, jcoon@chem.wisc.edu
- Resource Type
- Journal article
- Publication Details
- Molecular & cellular proteomics, Vol.14(11), pp.2922-2935
- DOI
- 10.1074/mcp.M115.049684
- PMID
- 26392051
- PMCID
- PMC4638036
- NLM abbreviation
- Mol Cell Proteomics
- ISSN
- 1535-9476
- eISSN
- 1535-9484
- Publisher
- United States
- Grant note
- R01 GM080148 / NIGMS NIH HHS R01 GM088290 / NIGMS NIH HHS T32 GM008692 / NIGMS NIH HHS Howard Hughes Medical Institute 5T32GM00869217 / NIGMS NIH HHS T15 LM007359 / NLM NIH HHS
- Language
- English
- Date published
- 11/2015
- Academic Unit
- Pathology; Injury Prevention Research Center
- Record Identifier
- 9984047639202771
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