Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2019 Mar 27;146(12):dev173807. doi: 10.1242/dev.173807

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© 2019. Published by The Company of Biologists Ltd

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution and reproduction in any medium provided that the original work is properly attributed.

PMC Copyright notice

Fig. 7. — Pseudotemporal ordering reveals gene expression dynamics during neurogenesis. (A) PCA projection of all neural cells, shown on a hexagonal heatmap, from a 100-dimensional space that was defined by genes expressed in all DV domains during progenitor maturation and neurogenesis. The schematic on the left depicts progenitor maturation (top to bottom), and neurogenesis (left to right). The hexagonal heatmaps indicate the number of cells from different developmental stages and the expression pattern of the pan-progenitor marker Sox2, the neuronal marker Tubb3, and the gliogenic marker Fabp7 (blue, low; yellow, high). (B) The first principal component of the cell state graph was used to independently reconstruct neurogenesis in each DV domain. Cells allocated to specific DV domains were plotted along the differentiation trajectory, and the expression profile of genes were independently reconstructed. (C) Upregulation of domain-specific TFs coincides with neurogenesis in multiple domains. Heatmap, including the normalised expression pattern (blue, low; yellow, high) of genes that are involved in neurogenesis per domain along the pseudotemporal (PT) axis (grey, early; black, late). (D) Smoothed expression profile of the neurogenic trajectory from p0 to V0 shows a transient upregulation of Dbx1 before neurogenesis that coincides with the maximal expression of Neurog1. (E,F) Upregulation of Dbx1 coincides with Neurog1 expression. Co-expression of Dbx1 and Neurog1 in cells in the differentiation zone of the ventricular layer in the p0 domain at eE10.5 (E). V0 neurons are identified by the expression of Evx1. Although Dbx1 expression is maximal in differentiating progenitors at e10.5, Pax6 expression is homogeneous in all p0 progenitors (F). Red arrowheads indicate cells expressing Neurog1 and high levels of Dbx1. (G) Domain-specific TFs are upregulated before neurogenesis. Initially, domain-specific TFs specify progenitor identity. Upon neurogenesis, domain-specific TF expression is transiently upregulated to reinforce the subtype identity of the differentiating neurons. Scale bars: 50 µm.