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A Cdx4-Sall4 regulatory module controls the transition from mesoderm formation to embryonic hematopoiesis

UID: 11068

Author(s): Paik, Elizabeth J., Mahony, Shaun, White, Richard Mark*, Price, Emily N., DiBiase, Anthony, Dorjsuren, Bilguujin, Mosimann, Christian, Davidson, Alan J., Gifford, David, Zon, Leonard I. * MSK affiliated

Description
Description from Harvard Dataverse:

"Deletion of caudal/cdx genes alters hox gene expression and causes defects in posterior tissues and hematopoiesis. Yet, the defects in hox gene expression only partially explain these phenotypes. To gain deeper insight into Cdx4 function, we performed ChIP-seq combined with gene expression profiling in zebrafish, and identified the transcription factor spalt-like 4 (sall4) as a Cdx4 target. ChIP-seq revealed that Sall4 bound to its own gene locus and the cdx4 locus. Expression profiling showed that Cdx4 and Sall4 co-regulate genes such as hox, scl, and lmo2 that initiate hematopoiesis. Combined cdx4/sall4 gene knock-down impairs erythropoiesis, and overexpression of the Cdx4 and Sall4 target genes scl and lmo2 together rescued the erythroid program. These findings suggest that auto- and cross- regulation of Cdx4 and Sall4 establish a stable molecular circuit in mesoderm that facilitates the activation of the blood-specific program as development proceeds. ChIP-seq was performed against Cdx4, Sall4, H3K27ac, and H3K4me3 in bud-stage zebrafish embryos. Input material was sequenced as controls. (2013-11-19)"
Subject of Study
Danio rerio
Subject(s)
Chromatin Immunoprecipitation Sequencing
Erythropoiesis
Gene Expression Profiling
Gene Knockdown Techniques
Hematopoiesis
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Accession #: GSE48254

Access via SRA


Accession #: SRP026282

Access via BioProject


Accession #: PRJNA209381

Access Restrictions
Free to All
Access Instructions
Downloads available through Harvard Dataverse on a CC0 1.0 license, or through the NCBI Gene Expression Omnibus, BioProject, and SRA databases.
DOI
10.7910/DVN/0XYJJW
Associated Publications
Paik E, Mahony S, White R, Price E, Dibiase A, Dorjsuren B, Mosimann C, Davidson A, Gifford D, Zon L. A Cdx4-sall4 regulatory module controls the transition from mesoderm formation to embryonic hematopoiesis. Stem Cell Reports. 2013; 1(5):425-436.
Equipment Used
Applied Biosystems™ GeneChip™ Zebrafish Genome Array
Software Used
Gene Set Enrichment Analysis (GSEA)

a computational method that determines whether an a priori defined set of genes shows statistically significant, concordant differences between two biological states

Dataset Format(s)
TXT
Dataset Size
12.4 KB
Data Catalog Record Updated
2024-06-25