Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Sp8 regulatory function in the limb bud ectoderm [ChIP-seq]

ABSTRACT: Sp8 and Sp6, members of the Sp family of transcription factors, are required in a dose-dependent manner to induce Fgf8 and En1 in the limb bud ectoderm, therefore controlling proximo-distal and dorso-ventral limb development. Mouse genetics revealed that Sp8 makes a much greater contribution than Sp6 but the nature of its regulatory mechanism was unknown. Here, by combining ChIP-seq and RNA-seq genome-wide analyses we show that Sp8 predominantly functions as an activator from putative distal enhancers regulating crucial limb patterning genes and underscoring its master role in limb development. We also provide compelling evidence for Sp8 cooperating with Dlx5 for the regulation of a considerable set of its target genes. Our work supports a model in which Sp8, Sp6 and Dlx5 act conjointly to regulate target genes with a final functional outcome that depends on their relative availability. This should be considered when interpreting Sp and Dlx mutant phenotypes.

ORGANISM(S): Mus musculus

PROVIDER: GSE144731 | GEO | 2021/02/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Sp8 regulatory function in the limb bud ectoderm [RNA-seq]

Project description:Sp8 and Sp6, members of the Sp family of transcription factors, are required in a dose-dependent manner to induce Fgf8 and En1 in the limb bud ectoderm, therefore controlling proximo-distal and dorso-ventral limb development. Mouse genetics revealed that Sp8 makes a much greater contribution than Sp6 but the nature of its regulatory mechanism was unknown. Here, by combining ChIP-seq and RNA-seq genome-wide analyses we show that Sp8 predominantly functions as an activator from putative distal enhancers regulating crucial limb patterning genes and underscoring its master role in limb development. We also provide compelling evidence for Sp8 cooperating with Dlx5 for the regulation of a considerable set of its target genes. Our work supports a model in which Sp8, Sp6 and Dlx5 act conjointly to regulate target genes with a final functional outcome that depends on their relative availability. This should be considered when interpreting Sp and Dlx mutant phenotypes.

2021-02-01 | GSE144732 | GEO

Sp8 and Sp9 Coordinately Promote Striatal Medium Spiny Neuron Production through Activating Six3 Expression [RNA-seq]

Project description:Purpose: To assess changes in gene expression profiles from the E16.5 no cre littermate control striatum and conditional double knockout of Dlx5/6-CIE; Sp8 Flox/Flox; Sp9 Flox/Flox mice. Methods: Total RNA was isolated and sequenced from the striatum of the E16.5 no cre littermate control or Dlx5/6-CIE; Sp8 Flox/Flox; Sp9 Flox/Flox mice in duplicate using an illumina high-seq 2500. Raw data was analyzed using TopHat. Genes were considered changed which performed fold-change>=2 and FDR<=0.05. Changed genes were then filtered to reveal the downstream targets of Sp8 and Sp9. Results: 80 genes were significantly increased and 120 genes were significantly decreased in expression level due to the loss of Sp8 and Sp9 expression.

2018-05-11 | GSE102865 | GEO

Transcription Factors Sp8 and Sp9 Coordinately Regulate Olfactory Bulb Interneuron Development [RNA-Seq]

Project description:Purpose: To asses changes in gene expression profiles from the P11 no cre littermate control olfactory bulbs and conditional double knockout olfactory bulbs of Dlx5/6-CIE; Sp8 Flox/Flox; Sp9 Flox/Flox (Sp8/Sp9-DCKO) mice. Methods: Total RNA was isolated and sequenced from the olfactory bulbs of the P11 no cre littermate controls or Sp8/Sp9-DCKO mice in duplicate using an illumina high-seq 2500. Raw data was analyzed using TopHat. Genes were considered changed which performed fold-change>=2 and FDR<=0.05. Changed genes were then filtered to reveal the downstream targets of Sp8 and Sp9. Results: 32 genes were significantly increased and 144 genes were significantly decreased in expression level due to the loss of Sp9 and Sp8 expression.

2016-09-03 | GSE86396 | GEO

Sox2-Evf2 lncRNA mechanisms of chromosome topological control in developing forebrain

Project description:Evf2 lncRNA controls Sox2, BRG1 (Smarca4) and Dlx binding in E13.5 mouse brain ganglionic eminences. Sox2 controls Dlx5/6ultraconserved enhancer (Dlx5/6UCE) interactions across chromosome 6. A subset overlap with Evf2 regulated Dlx5/6UCE interaction sites.

2021-02-23 | GSE164301 | GEO

Sp8 regulatory function in the limb bud ectoderm

Project description:Sp8 regulatory function in the limb bud ectoderm

| PRJNA604730 | ENA

Tig1 regulates proximo-distal identity during salamander limb regeneration

Project description:Salamander limb regeneration is an accurate process which gives rise exclusively to the missing structures, irrespective of the amputation level. This suggests that cells in the stump have an awareness of their spatial location, a property termed ‘positional identity’. Little is known about how positional identity is encoded, in salamanders or other biological systems. Through single-cell RNAseq analysis, we identified Tig1/RARRES1 as a potential determinant of proximal identity. Tig1 encodes a conserved cell surface molecule, is regulated by retinoic acid and exhibits a graded expression along the proximo-distal axis of the limb. Its overexpression leads to regeneration defects in the distal elements and elicits proximal displacement of blastema cells, while its neutralisation blocks proximo-distal cell surface interactions. Critically, Tig1 reprogrammes distal cells to a proximal identity, upregulating Prod1 and inhibiting HoxA13 and distal transcriptional networks. Thus, Tig1 is a central cell surface determinant of proximal identity in the salamander limb.

2022-01-30 | GSE184948 | GEO

Tig1 regulates proximo-distal identity during salamander limb regeneration

Project description:Tig1 regulates proximo-distal identity during salamander limb regeneration

| PRJNA767085 | ENA

Transcription Factors Sp8 and Sp9 Coordinately Regulate Olfactory Bulb Interneuron Development [ChIP-Seq]

Project description:We conducted RNA-Seq and in situ hybridization to identify transcriptional profile changes in the Sp8/Sp9-DCKO olfactory bulb. Simultaneously, we did ChIP-Seq with homemade Sp9 antibody to identify Sp9 binding motifs and which changed genes might be the direct targets of transcription factor Sp9. We found that Sp9 directly binded to key genes which are required for olfactory bulb development. Transcription factors Sp8 and Sp9 belong to the same transcription factor family, so we think Sp8 and Sp9 have very similar binding sites of transcriptional regulation.

2016-09-29 | GSE87416 | GEO

Sp8 regulatory function in the limb bud ectoderm [RNA-seq]

Project description:Sp8 regulatory function in the limb bud ectoderm [RNA-seq]

| PRJNA604733 | ENA

Sp8 regulatory function in the limb bud ectoderm [ChIP-seq]

Project description:Sp8 regulatory function in the limb bud ectoderm [ChIP-seq]

| PRJNA604734 | ENA