Optimization of a Method for Chromatin Immunoprecipitation Assays in the Marine Invertebrate Chordate Ciona

Hitoshi Aihara, Lavanya Katikala, Robert W. Zeller, Anna Di Gregorio, Yutaka Nibu

Research output: Contribution to journalArticle

Abstract

Chromatin immunoprecipitation (ChIP) assays allow the efficient characterization of the in vivo occupancy of genomic regions by DNA-binding proteins and thus facilitate the prediction of cis-regulatory sequences in silico and guide their validation in vivo. For these reasons, these assays and their permutations (e.g., ChIP-on-chip and ChIP-sequencing) are currently being extended to several non-mainstream model organisms, as the availability of specific antibodies increases. Here, we describe the development of a polyclonal antibody against the Brachyury protein of the marine invertebrate chordate Ciona intestinalis and provide a detailed ChIP protocol that should be easily adaptable to other marine organisms.

Original languageEnglish (US)
Pages (from-to)520-525
Number of pages6
JournalMarine Biotechnology
Volume15
Issue number5
DOIs
StatePublished - Oct 2013

Keywords

  • Ascidian
  • Brachyury
  • Chromatin immunoprecipitation
  • Ciona
  • Enhancer
  • Transcription factor
  • cis-regulatory module

ASJC Scopus subject areas

  • Biotechnology
  • Aquatic Science

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