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A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [ChIP-Seq]

ABSTRACT: A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [ChIP-Seq]

PROVIDER: PRJNA1322504 | ENA |

REPOSITORIES: ENA

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A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence

Project description:A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence

| PRJNA1181861 | ENA

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [ATAC-seq]

Project description:Retinal neurogenesis is mediated by the coordinated activities of a complex gene regulatory network (GRN) of transcription factors (TFs) in multipotent retinal progenitor cells (RPCs). How this GRN mechanistically guides neural competence remains poorly understood. Here, we describe integrated transcriptional, genetic, and genomic analyses to identify the regulatory mechanisms of SOX2, a critical factor for RPC neural competency. We show that SOX2 is preferentially enriched in the RPC-specific enhancer landscape associated with essential regulators of retinogenesis. Perturbation of SOX2 expression leads to a failure in retinogenesis initiation as a result of selective loss of enhancer activity near key genes underlying proliferation and lineage specification. We identified the RPC transcription factor VSX2 as a binding partner for SOX2, and together they target a core retina-specific chromatin repertoire characterized by enhanced TF binding and robust chromatin accessibility. We delineate a SOX2-VSX2 common transcriptional code that promotes the expression of critical regulators of neurogenesis and suppresses the acquisition of alternative lineage cell fate. Our data illuminate fundamental biological insights on how transcription factors act in concert to drive chromatin-based genetic programs underlying retinal neural competence.

2025-06-23 | GSE281030 | GEO

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [CUT&RUN]

2025-06-23 | GSE281031 | GEO

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [RNA-seq]

2025-06-23 | GSE281032 | GEO

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [ChIP-Seq]

2025-09-11 | GSE307676 | GEO

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [RNA-seq]

Project description:A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [RNA-seq]

| PRJNA1181863 | ENA

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [ATAC-seq]

Project description:A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [ATAC-seq]

| PRJNA1181862 | ENA

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [CUT&RUN]

Project description:A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence [CUT&RUN]

| PRJNA1181864 | ENA

A SOX2-VSX2 axis modulates a core cis-regulatory circuitry to safeguard retinal neural competence

Project description:This SuperSeries is composed of the SubSeries listed below.

2025-06-23 | GSE281033 | GEO

Circuitry rewiring directly couples competence to predation in the gut-dweller Streptococcus salivarius

Project description:Small distortions in transcriptional networks might lead to drastic phenotypical changes, especially in cellular developmental programs such as competence for natural transformation. Here, we report a pervasive circuitry rewiring for competence and predation interplay in commensal streptococci. Canonically, in model species of streptococci such as Streptococcus pneumoniae and Streptococcus mutans, the pheromone-based two-component system BlpRH is a central node that orchestrates the production of antimicrobial compounds (bacteriocins) and incorporates signal from the competence activation cascade. However, the human commensal Streptococcus salivarius does not contain a functional BlpRH pair and in this species, the competence signaling system ComRS directly couples bacteriocin production and competence commitment. This network shortcut might account for an optimal reaction against microbial competitors and could explain the high prevalence of S. salivarius in the human digestive tract. Moreover, the broad spectrum of bacteriocin activity against pathogenic bacteria showcases the commensal and genetically tractable S. salivarius species as a user-friendly model for natural transformation and bacterial predation.

2018-01-10 | GSE100416 | GEO

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