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GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD [GDNF RNAseq]

ABSTRACT: GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD [GDNF RNAseq]

PROVIDER: PRJNA637873 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11943476_1.fastq.gz	Fastqsanger.gz
	SRR11943476_2.fastq.gz	Fastqsanger.gz
	SRR11943477_1.fastq.gz	Fastqsanger.gz
	SRR11943477_2.fastq.gz	Fastqsanger.gz
	SRR11943478_1.fastq.gz	Fastqsanger.gz

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GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD

Project description:GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD

| PRJNA637871 | ENA

GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD [Pkd2- RNAseq]

Project description:GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD [Pkd2- RNAseq]

| PRJNA637874 | ENA

GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD [GDNF RNAseq]

Project description:We report a significant change in epithelial differentiation pathways and principal cell specific transcription factors in tubuloids with a GDNF pulse, when compared to control tubuloid cultures.

2020-06-08 | GSE151949 | GEO

GDNF drives rapid tubule morphogenesis in a novel 3D <i>in vitro</i> model for ADPKD.

Project description:Cystogenesis is a morphological consequence of numerous genetic diseases of the epithelium. In the kidney, the pathogenic mechanisms underlying the program of altered cell and tubule morphology are obscured by secondary effects of cyst expansion. Here, we developed a new 3D tubuloid system to isolate the rapid changes in protein localization and gene expression that correlate with altered cell and tubule morphology during cyst initiation. Mouse renal tubule fragments were pulsed with a cell differentiation cocktail including glial-derived neurotrophic factor (GDNF) to yield collecting duct-like tubuloid structures with appropriate polarity, primary cilia, and gene expression. Using the 3D tubuloid model with an inducible Pkd2 knockout system allowed the tracking of morphological, protein, and genetic changes during cyst formation. Within hours of inactivation of Pkd2 and loss of polycystin-2, we observed significant progression in tubuloid to cyst morphology that correlated with 35 differentially expressed genes, many related to cell junctions, matrix interactions, and cell morphology previously implicated in cystogenesis.This article has an associated First Person interview with the first author of the paper.

| S-EPMC7375472 | biostudies-literature

GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD

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

2020-06-08 | GSE151951 | GEO

GDNF drives rapid tubule morphogenesis in novel 3D in vitro model for ADPKD [Pkd2- RNAseq]

Project description:We report a profile of 35 genes that are differentially expressed in Pkd2- tubuloids compared to controls.

2020-06-08 | GSE151950 | GEO

Matrix Metalloproteinase-7 in Urinary Extracellular Vesicles Identifies Rapid Disease Progression in Autosomal Dominant Polycystic Kidney Disease

Project description:Background: In autosomal dominant polycystic kidney disease (ADPKD) there is an unmet need for early markers of rapid disease progression to facilitate counseling and selection for kidney-protective therapy. Our aim was to identify markers for rapid disease progression in urinary extracellular vesicles (uEVs). Methods: uEVs were isolated at baseline in two independent cohorts including patients with rapid disease progression and stable disease; patients were matched by age, sex, total kidney volume and mutation. uEV biomarker candidates were identified by mass spectrometry and further analyzed in a third and fourth cohort using immunoblotting and an enzyme-linked immunosorbent assay (ELISA). Single-nucleotide RNA sequencing of healthy and ADPKD tissue was used to confirm findings and identify the cellular origin of the uEV biomarker. Results: In the first two cohorts matrix metalloproteinase-7 (MMP-7) was significantly higher in uEVs of patients with rapid disease progression compared to stable disease. In the third cohort, immunoblotting confirmed a >2-fold increase in uEV-MMP-7 in patients with rapid disease progression compared to stable disease. In the fourth cohort, whole urine rather than uEVs were analyzed with MMP-7 ELISA demonstrating a significant but weak correlation with kidney function decline. Single-nucleotide RNA sequencing showed higher MMP-7 expression in ADPKD kidney tissue than in healthy kidney tissue and localized MMP-7 to the proximal tubule and thick ascending limb. Conclusion: uEV-associated MMP-7 is elevated in ADPKD patients with rapid disease progression and should be further investigated as predictive biomarker. Our findings also suggests that MMP-7 performs better when analyzed in uEVs than in whole urine.

2023-12-18 | PXD042533 | Pride

Porcine IVM GDNF

Project description:Treatment of oocytes derived from large (4-6 mm; LG) or small (>3 mm; SM) follicles with glial cell line-derived neurotrophic factor (GDNF) during in vitro maturation. Four-condition experiment, SM and LG oocytes, each with and without GDNF. Biological replicates: 9 per condition, independently collected. Pools of three replicates per array.

2012-11-09 | E-GEOD-42198 | biostudies-arrayexpress

Proteomic analysis of kidneys samples from mice with ADPKD and 3az-treated mice with ADPKD

Project description:We performed a proteomic analysis of kidneys samples from mice with ADPKD and 3az- treated mice with ADPKD to explore the mechanisms of 3az treatment in ADPKD. Over 5000 proteins were obtained in kidney tissues from ADPKD group and drug administration group. Among them, 112 and 135 proteins were found up- and down-regulation between two groups, respectively. Gene Ontology (GO) analysis of these dysregulated proteins preliminarily revealed that the proteins regulated by 3az were mainly enriched in many biological processes. In particular, microtubule-based processes, microtubule cytoskeleton formation and mitotic cell cycle changed most significantly and were enriched in a great many of dysregulated proteins following 3az treatment in ADPKD mice. GSEA enrichment analysis demonstrated that compound 3az can down-regulate the proliferation ability of kidney in ADPKD mice. Microtubule-based processes and microtubule cytoskeleton formation have been reported to be associated with retard of cell proliferation and renal cyst expansion.

2024-02-20 | PXD049792 | Pride

Expression patterns of key miRNAs in end-stage ADPKD kidneys

Project description:To investigate altered expression patterns of key miRNAs in end-stage ADPKD kidneys, a miRNA microarray analysis was performed using non-ADPKD and ADPKD kidney tissue samples. As a result, total 19 miRNAs were significantly changed in the ADPKD samples compared with non-ADPKD samples. Among these miRNAs, the expression level of the miR-192 family including miR-192 and miR-194 were significantly downregulated in ADPKD.

2019-07-30 | GSE100812 | GEO

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