Single embryo-resolution quantitative analysis of reporters permits multiplex spatial cis-regulatory analysis

Catherine L. Guay, Sean T. McQuade, Jongmin Nam

Research output: Contribution to journalArticlepeer-review

3 Scopus citations

Abstract

Cis-regulatory modules (CRMs) control spatiotemporal gene expression patterns in embryos. While measurement of quantitative CRM activities has become efficient, measurement of spatial CRM activities still relies on slow, one-by-one methods. To overcome this bottleneck, we have developed a high-throughput method that can simultaneously measure quantitative and spatial CRM activities. The new method builds profiles of quantitative CRM activities measured at single-embryo resolution in many mosaic embryos and uses these profiles as a ‘fingerprint’ of spatial patterns. We show in sea urchin embryos that the new method, Multiplex and Mosaic Observation of Spatial Information encoded in Cis-regulatory modules (MMOSAIC), can efficiently predict spatial activities of new CRMs and can detect spatial responses of CRMs to gene perturbations. We anticipate that MMOSAIC will facilitate systems-wide functional analyses of CRMs in embryos.

Original languageEnglish (US)
Pages (from-to)92-104
Number of pages13
JournalDevelopmental Biology
Volume422
Issue number2
DOIs
StatePublished - Feb 15 2017

All Science Journal Classification (ASJC) codes

  • Molecular Biology
  • Developmental Biology
  • Cell Biology

Keywords

  • Cis-regulatory
  • Embryo
  • Gene regulatory network
  • High-throughput
  • Mosaic
  • Reporter assay
  • Sea urchin
  • Spatial

Fingerprint

Dive into the research topics of 'Single embryo-resolution quantitative analysis of reporters permits multiplex spatial cis-regulatory analysis'. Together they form a unique fingerprint.

Cite this