Dataset Information

Effect of Phb2 depletion in retinal photoreceptors on gene expression in the bulk retina of C57BL/6J mice

ABSTRACT: To explore the functions for Phb2 gene in early retinal degeneration, we performed RNA-seq analysis on the bulk retinas from control and photoreceptor-specific knockout Phb2 mice at 6 weeks of age. Compared with control mice, there were 778 differentially expressed genes (log2 |fold change|> 1, log10 adjusted p-values < 0.05) identified to be associated with distinct biological processes. 585 genes were significantly upregulated and 192 genes were significantly downregulated in photoreceptor cell-specific knockout Phb2 mice. The KEGG pathways analysis of up-regulated and down-regulated genes and ranking the enrichment pathways according to the corrected p-value.To explore the critical signaling pathways that might be affected by knockout Phb2 in retinal photoreceptors, we performed RNA-seq analysis on 6-week-old C57BL/6J photoreceptor cell-specific knockout Phb2 mice and control mice. Compared with control mice, there were 778 differentially expressed genes (log2 |fold change|> 1, log10 adjusted p-values < 0.05) identified to be associated with distinct biological processes. 585 genes were significantly upregulated and 192 genes were significantly downregulated in photoreceptor cell-specific knockout Phb2 mice. The KEGG pathways analysis of up-regulated and down-regulated genes and ranking the enrichment pathways according to the corrected p-value.

ORGANISM(S): Mus musculus

PROVIDER: GSE246802 | GEO | 2024/12/31

REPOSITORIES: GEO

ACCESS DATA

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Project description:NeuroD1 encodes a basic helix-loop-helix transcription factor involved in the development of neural and endocrine structures. NeuroD1 mRNA is highly abundant in the adult mammalian pineal gland and exhibits a developmental expression pattern similar to the retina. This is consistent with the common evolutionary origin of pinealocytes and retinal photoreceptors. Pinealocytes and retinal photoreceptors express a shared set of phototransduction genes and submammalian pinealocytes are photosensitive. In contrast to the retina, the pineal gland is a relatively homogeneous structure, composed 95% of pinealocytes. This makes the pineal gland a particularly useful model for understanding photoreceptor cell biology. The loss of NeuroD1 in the retina results in progressive photoreceptor degeneration and the molecular mechanisms underlying this retinal degeneration phenotype remain unknown. Similarly, the role that NeuroD1 plays in the pineal gland is unknown. To determine the function of NeuroD1 in the pineal gland and retina, a Cre/loxP recombination strategy was used to selectively target a NeuroD1 floxed allele and generate NeuroD1 conditional knockout (cKO) mice. Tissue specificity was conferred using Cre recombinase expressed under the control of the promoter of Crx, a transcription factor selectively expressed in the pineal gland and retina. Pineal and retinal tissues from two-month-old NeuroD1 cKO and control animals were used in microarray studies to identify candidate genes responsible for the photoreceptor degeneration phenotype. The Cre/loxP recombination strategy was used to target a NeuroD1 floxed allele and generate NeuroD1 conditional knockout mice (NeuroD1floxed::Crx-Cre+/-). NeuroD1 floxed mice (NeuroD1floxed::Crx-Cre-/-) served as the controls. Pineal glands and retinas from two-month-old control and conditional knockout mice were collected at ZT6 and ZT20. 3 pools of 6 pineal glands per genotype and respective time of day were collected for each sample. Similarly, 3 pools of 6 retinas each were also collected. RNA from each pool was extracted and hybridized on the Affymetrix Mouse 430 2.0 array.

Dataset Information

Effect of Phb2 depletion in retinal photoreceptors on gene expression in the bulk retina of C57BL/6J mice

Dataset's files

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets