Micro-proteomics with iterative data analysis: proteome analysis in C.elegans at the single worm level

Dalila Bensaddek, Vikram Narayan, Armel Nicolas, Alejandro Brenes Murillo, Anton Gartner, Cynthia Kenyon, Angus Lamond (Lead / Corresponding author)

Research output: Contribution to journalArticlepeer-review

14 Citations (Scopus)
144 Downloads (Pure)

Abstract

Proteomics studies typically analyze proteins at a population level, using extracts prepared from tens of thousands to millions of cells. The resulting measurements correspond to average values across the cell population and can mask considerable variation in protein expression and function between individual cells or organisms. Here, we report the development of micro-proteomics for the analysis of C. elegans, a eukaryote composed of 959 somatic cells and ~1,500 germ cells, measuring the worm proteome at a single organism level to a depth of ~ 3,000 proteins. This includes detection of proteins across a wide dynamic range of expression levels (> 6 orders of magnitude), including many chromatin-associated factors involved in chromosome structure and gene regulation. We apply the micro-proteomics workflow to measure the global proteome response to heat-shock in individual nematodes. This shows variation between individual animals in the magnitude of proteome response following heat-shock, including variable induction of heat-shock proteins. The micro-proteomics pipeline thus facilitates the investigation of stochastic variation in protein expression between individuals within an isogenic population of C. elegans. All data described in this study are available online via the Encyclopedia of Proteome Dynamics (http://www.peptracker.com/epd), an open access, searchable database resource.
Original languageEnglish
Pages (from-to)381-392
JournalProteomics
Volume16
Issue number3
Early online date7 Jan 2016
DOIs
Publication statusPublished - 10 Feb 2016

Keywords

  • Single worm proteomics
  • Microproteomics
  • Heat-shock
  • Nematode

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