A Combinatorial Code for Pattern Formation in Drosophila Oogenesis

Nir Yakoby, Christopher A. Bristow, Danielle Gong, Xenia Schafer, Jessica Lembong, Jeremiah J. Zartman, Marc S. Halfon, Trudi Schüpbach, Stanislav Y. Shvartsman

Research output: Contribution to journalArticlepeer-review

57 Scopus citations


Two-dimensional patterning of the follicular epithelium in Drosophila oogenesis is required for the formation of three-dimensional eggshell structures. Our analysis of a large number of published gene expression patterns in the follicle cells suggests that they follow a simple combinatorial code based on six spatial building blocks and the operations of union, difference, intersection, and addition. The building blocks are related to the distribution of inductive signals, provided by the highly conserved epidermal growth factor receptor and bone morphogenetic protein signaling pathways. We demonstrate the validity of the code by testing it against a set of patterns obtained in a large-scale transcriptional profiling experiment. Using the proposed code, we distinguish 36 distinct patterns for 81 genes expressed in the follicular epithelium and characterize their joint dynamics over four stages of oogenesis. The proposed combinatorial framework allows systematic analysis of the diversity and dynamics of two-dimensional transcriptional patterns and guides future studies of gene regulation.

Original languageEnglish (US)
Pages (from-to)725-737
Number of pages13
JournalDevelopmental cell
Issue number5
StatePublished - Nov 11 2008

All Science Journal Classification (ASJC) codes

  • General Biochemistry, Genetics and Molecular Biology
  • Molecular Biology
  • Cell Biology
  • Developmental Biology




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