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

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.

journal_name

Dev Biol

journal_title

Developmental biology

authors

Guay CL,McQuade ST,Nam J

doi

10.1016/j.ydbio.2017.01.010

subject

Has Abstract

pub_date

2017-02-15 00:00:00

pages

92-104

issue

2

eissn

0012-1606

issn

1095-564X

pii

S0012-1606(16)30660-1

journal_volume

422

pub_type

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