Evolutionary dynamics of DNA-binding sites and direct target genes of a floral master regulatory transcription factor [RNA-Seq]

  • J.M. Muiño (Creator)
  • S.A. de Bruijn (Creator)
  • Martin Vingron (Creator)
  • Gerco Angenent (Creator)
  • Kerstin Kaufmann (Creator)

Dataset

Description

Plant development is controlled by transcription factors (TFs) which form complex gene-regulatory networks. Genome-wide TF DNA-binding studies revealed that these TFs have several thousands of binding sites in the Arabidopsis genome, and may regulate the expression of many genes directly. Given the importance of natural variation in plant developmental programs, there is a need to understand the molecular basis of this variation at the level of developmental gene regulation. However, until now, the evolutionary turnover and dynamics of TF binding sites among plant species has not yet experimentally determined. Here, we performed comparative ChIP-seq studies of the MADS-box TF SEPALLATA3 (SEP3) in inflorescences of two Arabidopsis species: A. thaliana and A. lyrata. Comparative RNA-seq analysis shows that the loss/gain of BSs is often followed by a change in gene expression.
RNA-seq libraries were generated from 3 tissues: A. lyrata leaves, A. lyrata inflorescences, and A.thaliana inflorescences. 3 biological replicates were sequenced.
Date made available11 Oct 2015
PublisherWageningen University & Research

Research Output

Evolution of DNA-Binding Sites of a Floral Master Regulatory Transcription Factor

Muiño, J. M., de Bruijn, S. A., Pajoro, A., Geuten, K., Vingron, M., Angenent, G. C. & Kaufmann, K., 2016, In : Molecular Biology and Evolution. 33, 1, p. 185-200

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
  • 18 Citations (Scopus)

    Datasets

    Evolutionary dynamics of DNA-binding sites and direct target genes of a floral master regulatory transcription factor [ChIP-Seq]

    Muiño, J. M. (Creator), de Bruijn, S. A. (Creator), Vingron, M. (Creator), Angenent, G. (Creator) & Kaufmann, K. (Creator), Wageningen University & Research, 11 Oct 2015

    Dataset

    Evolutionary dynamics of DNA-binding sites and direct target genes of a floral master regulatory transcription factor

    Muino, J. M. (Creator), de Bruijn, S. A. (Creator), Pajoro, A. (Creator) & Geuten, K. (Creator), Humboldt University, 10 Oct 2015

    Dataset

    Cite this

    Muiño, J. M. (Creator), de Bruijn, S. A. (Creator), Vingron, M. (Creator), Angenent, G. C. (Creator), Kaufmann, K. (Creator) (11 Oct 2015). Evolutionary dynamics of DNA-binding sites and direct target genes of a floral master regulatory transcription factor [RNA-Seq]. Wageningen University & Research.