|
| Status |
Public on Jun 06, 2023 |
| Title |
Activation of lineage competence in hemogenic endothelium precedes the formation of hematopoietic stem cell heterogeneity [Zebrafish.STRT-seq] |
| Organism |
Danio rerio |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Using a combination of single-cell multi-omics, lineage tracing and functional assays, we show that embryonic HSPCs are originated from heterogeneous hemogenic endothelial cells (HECs) during zebrafish embryogenesis.
|
| |
|
| Overall design |
Hematopoietic stem and progenitor cells (HSPCs) are considered as a heterogeneous population, but where and how HSPC heterogeneity occurs remain unclear. Here, we performed scRNA-seq and scATAC-seq with zebrafish 36 hpf VDA-derived kdrl+runx1-, kdrl+runx1+, and kdrl-runx1+ cells. To determine the transcriptional signatures of spi2+ lineages in zebrafish, we performed STRT-seq with spi2: Gal4;UAS:GFP+ kdrl:mCherry+ HECs and spi2: Gal4;UAS:GFP+ kdrl:mCherry- hematopoietic cells at 36 hpf. To investigate the underlying molecular mechanism upon spi2 deficiency, we performed scRNA-seq with the sorted ECs (kdrl+runx1-), HECs (kdrl+runx1+) and hematopoietic cells (kdrl-runx1+) from spi2 morphants at 36 hpf. To determine whether spi2 can directly modulate transcriptional programs in EC/HEC, we examined genome-wide spi2 binding by cut-tag assay in fli1a-flag-spi2-EGFP+ cells sorted from trunk region of Tg (fli1a-flag-spi2-GFP) embryos at 36 hpf.
|
| |
|
| Contributor(s) |
Xia J |
| Citation(s) |
37016019 |
| |
| Submission date |
Oct 22, 2021 |
| Last update date |
Jun 20, 2023 |
| Contact name |
Zhixin Kang |
| E-mail(s) |
kzhixcas@gmail.com
|
| Phone |
+86-01064807562
|
| Organization name |
INSTITUTE OF ZOOLOGY, CHINESE ACADEMY OF SCIENCES
|
| Lab |
Feng Liu
|
| Street address |
1 Beichen West Road, Chaoyang District
|
| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL24995 |
Illumina NovaSeq 6000 (Danio rerio) |
|
| Samples (3) |
|
| This SubSeries is part of SuperSeries: |
| GSE186427 |
Activation of lineage competence in hemogenic endothelium precedes the formation of hematopoietic stem cell heterogeneity |
|
| Relations |
| BioProject |
PRJNA773778 |
| SRA |
SRP342737 |
