Transcriptomics

Dataset Information

0

Developmental single-cell transcriptomics in the Lytechinus variegatus sea urchin embryo


ABSTRACT: Using scRNA-seq coupled with computational approaches, we studied transcriptional changes in cell states of sea urchin embryos during development to the larval stage. Eighteen closely spaced time points were taken during the first 24 hours of development of Lytechinus variegatus (Lv). Developmental trajectories were constructed using Waddington-OT, a computational approach to "stitch" together developmental timepoints. Skeletogenic and primordial germ cell trajectories diverged early in cleavage. Ectodermal progenitors were distinct from other lineages by sixth cleavage, though a small percentage of ectoderm cells briefly co-expressed endoderm markers indicating an early ecto-endoderm cell state, likely in cells originating from the equatorial region of the egg. Endomesoderm cells originated at 6th cleavage also and this state persisted for more than two cleavages, then diverged into distinct endoderm and mesoderm fates asynchronously, with some cells retaining an intermediate specification status until gastrulation. 79 of 80 genes (99%) examined, and included in published developmental gene regulatory networks (dGRNs), are present in the Lv-scRNA-seq dataset, and expressed in the correct lineages in which the dGRN circuits operate.

ORGANISM(S): Lytechinus variegatus

PROVIDER: GSE184538 | GEO | 2021/09/24

REPOSITORIES: GEO

Similar Datasets

2019-04-10 | GSE123046 | GEO
2019-04-10 | GSE123124 | GEO
2008-12-27 | E-GEOD-11523 | biostudies-arrayexpress
2022-03-17 | GSE164464 | GEO
2021-07-01 | MODEL2105030001 | BioModels
2013-11-22 | E-GEOD-52657 | biostudies-arrayexpress
2008-12-28 | GSE11523 | GEO
2013-11-22 | GSE52657 | GEO
2016-12-14 | PXD002187 | Pride
2017-05-02 | GSE98411 | GEO