Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis

Farrell, Jeffrey A. and Wang, Yiqun and Riesenfeld, Samantha J. and Shekhar, Karthik and Regev, Aviv and Schier, Alexander F.. (2018) Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis. Science (New York, N.Y.), 360 (6392). p. 6.

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Official URL: https://edoc.unibas.ch/69128/

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During embryogenesis, cells acquire distinct fates by transitioning through transcriptional states. To uncover these transcriptional trajectories during zebrafish embryogenesis, we sequenced 38,731 cells and developed URD, a simulated diffusion-based computational reconstruction method. URD identified the trajectories of 25 cell types through early somitogenesis, gene expression along them, and their spatial origin in the blastula. Analysis of Nodal signaling mutants revealed that their transcriptomes were canalized into a subset of wild-type transcriptional trajectories. Some wild-type developmental branch points contained cells that express genes characteristic of multiple fates. These cells appeared to trans-specify from one fate to another. These findings reconstruct the transcriptional trajectories of a vertebrate embryo, highlight the concurrent canalization and plasticity of embryonic specification, and provide a framework with which to reconstruct complex developmental trees from single-cell transcriptomes.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Growth & Development > Cell and Developmental Biology (Schier)
UniBasel Contributors:Schier, Alexander and Wang, Yiqun
Item Type:Article, refereed
Article Subtype:Research Article
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:10 Apr 2020 17:06
Deposited On:10 Apr 2020 17:06

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