Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression

Marlon Stoeckius, Jonas Maaskola, Teresa Colombo, Hans Peter Rahn, Marc R. Friedländer, Na Li, Wei Chen, Fabio Piano, Nikolaus Rajewsky

Research output: Contribution to journalArticlepeer-review

Abstract

Caenorhabditis elegans is one of the most prominent model systems for embryogenesis, but collecting many precisely staged embryos has been impractical. Thus, early C. elegans embryogenesis has not been amenable to most high-throughput genomics or biochemistry assays. To overcome this problem, we devised a method to collect staged C. elegans embryos by fluorescence-activated cell sorting (eFACS). In a proof-of-principle experiment, we found that a single eFACS run routinely yielded tens of thousands of almost perfectly staged 1-cell stage embryos. As the earliest embryonic events are driven by posttranscriptional regulation, we combined eFACS with second-generation sequencing to profile the embryonic expression of small, noncoding RNAs. We discovered complex and orchestrated changes in the expression between and within almost all classes of small RNAs, including microRNAs and 26G-RNAs, during embryogenesis.

Original languageEnglish (US)
Pages (from-to)745-751
Number of pages7
JournalNature methods
Volume6
Issue number10
DOIs
StatePublished - 2009

ASJC Scopus subject areas

  • Biotechnology
  • Biochemistry
  • Molecular Biology
  • Cell Biology

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