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The Drosophila embryo at single-cell transcriptome resolution

Item Type:Article
Title:The Drosophila embryo at single-cell transcriptome resolution
Creators Name:Karaiskos, N. and Wahle, P. and Alles, J. and Boltengagen, A. and Ayoub, S. and Kipar, C. and Kocks, C. and Rajewsky, N. and Zinzen, R.P.
Abstract:By the onset of morphogenesis, Drosophila embryos consist of about 6000 cells that express distinct gene combinations. Here, we used single-cell sequencing of precisely staged embryos and devised DistMap, a computational mapping strategy to reconstruct the embryo and to predict spatial gene expression approaching single-cell resolution. We produce a virtual embryo with about 8000 expressed genes per cell. Our interactive "Drosophila-Virtual-Expression-eXplorer" (DVEX) database generates three-dimensional virtual in situ hybridizations and computes gene expression gradients. We used DVEX to uncover patterned expression of transcription factors and long noncoding RNAs, as well as signaling pathway components. Spatial regulation of Hippo signaling during early embryogenesis suggests a mechanism for establishing asynchronous cell proliferation. Our approach is suitable to generate transcriptomic blueprints for other complex tissues.
Source:Science
ISSN:0036-8075
Publisher:American Association for the Advancement of Science (U.S.A.)
Volume:358
Number:6360
Page Range:194-199
Date:13 October 2017
Official Publication:https://doi.org/10.1126/science.aan3235
PubMed:View item in PubMed
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https://edoc.mdc-berlin.de/16510/Preprint version

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