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GEO Series: GSE119124

Title: RARγ is required for mesodermal gene expression prior to gastrulation

Summary

The developing vertebrate embryo is exquisitely sensitive to retinoic acid (RA) concentration, particularly during anteroposterior patterning. In contrast to Nodal and Wnt signaling, RA was not previously considered to be an instructive signal in mesoderm formation during gastrulation. Here we show that RARγ is indispensable for the expression of early mesoderm markers and is, therefore, an obligatory factor in mesodermal competence and/or maintenance. We identified several novel targets up-regulated by RAR signaling in the early gastrula that are expressed in the circumblastoporal ring and linked to mesodermal development. Despite overlapping expression patterns of the RA synthetic enzyme, Aldh1a2 and the RA- degrading enzyme, Cyp26a1, RARγ1 functions as a transcriptional activator in early mesoderm development, suggesting that RA ligand is available to the embryo earlier than previously appreciated. RARγ1 is required for cellular adhesion, as revealed by spontaneous dissociation and depletion of N-CAM mRNA in animal caps harvested from RARγ1 knockdown embryos. RARγ1 knockdown obliterates somite boundaries, and causes loss of MYOD protein in the presomitic mesoderm, but ectopic, persistent expression of MYOD protein in the trunk. Thus, RARγ1 is required for stabilizing the mesodermal fate, myogenic commitment, somite boundary formation, and terminal, skeletal muscle differentiation.


Contributors: Toshi Shioda, Amanda Jenesick, Weiyi Tang, Bruce Blumberg

Experiment Type: RNA-sequencing of gastrula stage embryos treated with RAR agonist TTNPB or RAR antagonist AGN193109

Experiment Reagents: AGN 193109, Ethanol, TTNPB.

Phenotypes:
WT + AGN193109 + WE NF10.5 (RNA-Seq)

Article: XB-ART-55309, PubMed

Source: NCBI GEO, Xenbase Download

Samples: (DEG = Differentially Expressed Genes; GSM = GEO Sample Number)
Sample View GSMs Assay Type
WE + EtOH - NF10.5 (Batch 1) GSM3358753  GSM3358755  GSM3358757  GSM3358759  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
chemical Ethanol NF stage 6 (32-cell) embryo
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 10.5  
   WT + AGN193109 - NF10.5 (Batch 1) DEG GSM3358737  GSM3358739  GSM3358741  GSM3358743  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
chemical AGN 193109 NF stage 6 (32-cell) embryo
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 10.5  
   WT + TTNPB - NF10.5 (Batch 1) DEG GSM3358745  GSM3358747  GSM3358749  GSM3358751  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
chemical TTNPB NF stage 6 (32-cell) embryo
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 10.5  
WT + EtOH - NF10.5 (Batch 2) GSM3358754  GSM3358756  GSM3358758  GSM3358760  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
chemical Ethanol NF stage 6 (32-cell) embryo
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 10.5  
   WT + AGN193109 - NF10.5 (Batch 2) DEG GSM3358738  GSM3358740  GSM3358742  GSM3358744  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
chemical AGN 193109 NF stage 6 (32-cell) embryo
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 10.5  
   WT + TTNPB - NF10.5 (Batch 2) DEG GSM3358746  GSM3358748  GSM3358750  GSM3358752  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
chemical TTNPB NF stage 6 (32-cell) embryo
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 10.5  
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