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RARγ is required for mesodermal gene expression prior to gastrulation

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

PROVIDER: PRJNA488225 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7761190.fastq.gz	Fastqsanger.gz
	SRR7761200.fastq.gz	Fastqsanger.gz
	SRR7761210.fastq.gz	Fastqsanger.gz
	SRR7761191.fastq.gz	Fastqsanger.gz
	SRR7761201.fastq.gz	Fastqsanger.gz

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RARγ is required for mesodermal gene expression prior to gastrulation

Project description: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.

2018-08-29 | GSE119124 | GEO

Axin1 and Axin2 cooperate to instruct mesodermal fates during mouse gastrulation

Project description:Axin1 and Axin2 cooperate to instruct mesodermal fates during mouse gastrulation

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Axin1 and Axin2 cooperate to instruct mesodermal fates during mouse gastrulation

Project description:How distinct mesodermal lineages - extraembryonic, lateral, intermediate, paraxial and axial – are specified from pluripotent epiblast during gastrulation is a longstanding open question. By investigating Axin, a negative regulator of the WNT/b-catenin pathway, we uncover new roles for WNT signaling in the determination and segregation of extraembryonic, posterior lateral plate, and intermediate mesoderm fates. We undertook two complementary approaches to spatially and temporally dissect the role of WNT signaling at gastrulation. We augmented detailed analysis of Axin1;Axin2 mutant mouse embryos, including single-cell and single-embryo transcriptomics, with in vitro Epiblast-Like Cell (EpiLC) differentiation assays, which allowed us to reveal how coordinated activities of the WNT/b-catenin and BMP/pSmad1/5/9 pathways activate mesoderm lineage-specific programs. Our findings lead us to propose that Axin1 and Axin2 act to prevent aberrant differentiation of epiblast cells into extraembryonic, intermediate, paraxial and axial mesoderm, by spatially and temporally regulating levels of WNT signaling.

2026-06-01 | GSE275548 | GEO

Gravin regulates mesodermal cell behavior changes required for axis elongation during zebrafish gastrulation.

Project description: Not available

| S-EPMC1891432 | biostudies-literature

CUT&RUN in SCC-25 Parental and RARG knockout cells maps RARγ binding sites and genome wide changes in H3K4 & H3K27 trimethylation

Project description:Vitamin A (retinol) metabolism and signaling through nuclear retinoic acid receptors (RARs α,β,γ) regulate embryonic development, immune functions, and cell differentiation in most cell types. RAR gamma (RARγ) is highly expressed in stratified squamous epithelial cells of the tongue, esophagus, and skin. While data indicate that RARγ agonism is anti-tumorigenic in oral cavity squamous cell carcinoma (OCSCC), the specific, primary gene targets of RARγ remain poorly characterized. Here, we define the transcriptomic consequences of RARγ activity in OCSCC. Using a CRISPR-Cas9-mediated knockout (KO) of RARγ and pharmacological treatments with RAR agonists, we identified RARγ-specific gene targets and pathways, as well as targets that overlap with other RA-responsive nuclear receptors.

2025-12-12 | GSE295226 | GEO

Transcriptomic changes in human SCC-25 Parental and RARG knockout cells in response to 6h and 48h treatments with RARγ agonists CD1530 or all-trans retinoic acid (RA).

2025-12-12 | GSE295225 | GEO

Early immune cell development precedes gastrulation in annual killifish

Project description:Native to ephemeral pools in southeastern Africa that evaporate each dry season, the annual killifish, Nothobranchius furzeri (N. furzeri), evolved under intense selective pressure, producing a highly derived mode of early development. Following cleavage, deep blastomeres disperse as individual cells across the yolk surface, remaining independent until undergoing self-organized aggregation and germ layer formation. This dispersed phase lacks the tissue-level organization characteristic of other vertebrate embryos, providing an opporunity to investigate how lineage-specifying GRNs function in an altered morphogenetic environment. To investigate this question, we performed single cell RNA-sequencing on killifish embryos using PIP-seq technology, thereby producing the first coarse-grained atlas of early killifish embryogenesis. Here we show that primitive myelopoiesis, which in most studied vertebrates invariably develops from ventral mesodermal progenitor domains, is uncoupled from this tissue source in N. furzeri. Instead, neutrophils emerge prior to gastrulation. This rearrangement equips the African killifish with functional neutrophils before organogenesis begins, making it a striking example of developmental heterochrony.

2026-06-25 | GSE333732 | GEO

Profiling the transient gastrulation inducing property of amnion-like cells.

Project description:Studies in the mouse have established that communication between the trophectoderm and the epiblast is crucial for initiating gastrulation. In the primate embryo, the amnion rather than the trophectoderm is directly juxtaposed to the epiblast and may play this role. To model the interactions between the amnion and epiblast, we differentiated human pluripotent stem cells (hPSCs) to amnion-like cells (AMLCs) and juxtaposed them in a controlled manner with undifferentiated hPSCs, which represent the epiblast. We found that juxtaposition between these cell types is sufficient to initiate a range of cell behaviors associated with gastrulation including organized differentiation to primitive streak and downstream mesendodermal cell fates and directed cell migration out of the primitive streak region. Performing knockout experiments specifically in either the epiblast or amnion compartment revealed intricate crosstalk that is required to properly initiate gastrulation. In particularly, using knockouts of NODAL we show that Nodal signaling in both the amnion and epiblast is required for gastrulation patterning. Finally, we show that inductive ability is a transient property acquired during amnion differentiation, and that cells that differentiate from this inductive state acquire an extraembryonic mesenchyme identity. This study establishes a system to study epiblast-amnion communication and shows that this communication is sufficient to initiate gastrulation in the epiblast.

2026-03-04 | GSE322969 | GEO

Isl1 identifies the extraembryonic mesodermal / allantois progenitors and required for placenta morphogenesis and vasculature formation

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Evx1 is required to regulate appropriate anterior-posterior patterning during murine gastrulation

Project description:We generated loss of function mESC clones by CRISPR-Cas9 to test the function of Evx1 during gastrulation. Evx1Δfs Clone 14 mESCs were differentiated to D4 in serum and compared to unedited mESCs

2016-05-26 | GSE75737 | GEO

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