Dynamics of Drosophila endoderm specification

Shannon E. Keenan, Maria Avdeeva, Liu Yang, Daniel S. Alber, Eric F. Wieschaus, Stanislav Y. Shvartsman

Research output: Contribution to journalArticlepeer-review

4 Scopus citations


During early Drosophila embryogenesis, a network of gene regulatory interactions orchestrates terminal patterning, playing a critical role in the subsequent formation of the gut. We utilized CRISPR gene editing at endogenous loci to create live reporters of transcription and light-sheet microscopy to monitor the individual components of the posterior gut patterning network across 90 min prior to gastrulation. We developed a computational approach for fusing imaging datasets of the individual components into a common multivariable trajectory. Data fusion revealed low intrinsic dimensionality of posterior patterning and cell fate specification in wild-type embryos. The simple structure that we uncovered allowed us to construct a model of interactions within the posterior patterning regulatory network and make testable predictions about its dynamics at the protein level. The presented data fusion strategy is a step toward establishing a unified framework that would explore how stochastic spatiotemporal signals give rise to highly reproducible morphogenetic outcomes.

Original languageEnglish (US)
Article numbere2112892119
JournalProceedings of the National Academy of Sciences of the United States of America
Issue number15
StatePublished - Apr 12 2022

All Science Journal Classification (ASJC) codes

  • General


  • Drosophila development
  • data integration
  • gene regulatory networks
  • image registration
  • transcriptomics


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