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Related Experiment Videos

Genomic analysis of Xenopus organizer function.

Andrew L Hufton1, Arunachalam Vinayagam, Sándor Suhai

  • 1Department of Genetics, Stanford University, Stanford, California, USA. alhufton@stanford.edu

BMC Developmental Biology
|June 8, 2006
PubMed
Summary

This study identifies genes regulated by BMP and Wnt inhibition during Xenopus gastrulation. It reveals distinct roles for BMP inhibition in early induction and Wnt inhibition in later maintenance of organizer gene expression.

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Area of Science:

  • Developmental Biology
  • Genomics
  • Molecular Biology

Background:

  • Xenopus organizer studies inform vertebrate embryonic patterning.
  • Organizer signaling involves Bone Morphogenetic Protein (BMP) and Wnt pathway inhibition.
  • Gene-level knowledge needs integration into genome-level signaling models.

Purpose of the Study:

  • Identify complete gene lists regulated by organizer signaling.
  • Understand genomic mechanisms of gastrulation signaling.
  • Develop genome-level signaling models.

Main Methods:

  • Ectopic overexpression of Noggin (BMP inhibitor) and Dkk-1 (Wnt inhibitor) in Xenopus ventral tissues.
  • Oligonucleotide microarray analysis of transcriptional response in isolated embryonic ventral halves.

Related Experiment Videos

  • Statistical analysis and Gene Ontology annotation for gene clustering.

    • Main Results:

    • Identified new organizer-related expression patterns for 19 genes.
    • Sub-divided organizer genes into head and trunk organizing groups.
    • Observed distinct responses to Noggin and Dkk-1 in these groups.

    Conclusions:

    • Genomic view of gene cohorts responding to Noggin and Dkk-1.
    • BMP inhibition primarily induces dorsal tissue patterning genes early.
    • Wnt inhibition maintains organizer gene expression later by blocking ventral/posterior factors.