Gene expression analysis of a podocyte specific PTIP deletion in mouse glomerular preparations at 1 month of age
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ABSTRACT:
ORGANISM(S): Mus musculus
PROVIDER: GSE17709 | GEO | 2009/08/19
SECONDARY ACCESSION(S): PRJNA118459
REPOSITORIES: GEO
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Project description:Glomerular RNA comparison between wild-type and podocyte specific deletion of the PTIP gene in 1 month old kidneys. The PTIP gene was deleted using a floxed allele and a Podocin-Cre driver strain. These mice develop protein urea by 3 months of age. This study was designed to find gene expression differences prior to the onset of the phenotype. A ptip floxed allele was crossed into the Podocin-Cre expressing strain to generate ptip fl/fl homozygous mice or ptip fl/- transheterozygous mice with or without the Cre expressing transgene. Animals were genotyped and assigend into two groups: Mutants with PTIP deletion (PTIP-) with the genotype ptip fl/fl:Pod-Cre or ptip fl/-:Pod-Cre or control mice (PTIP+) with either ptip fl/fl or ptip fl/-. Note that the floxed allele produced normal levels of wild-type PTIP protein. Kidneys were excised at 1 month of age. Glomeruli enriched fractions were generated by sieving of the tissue homogenates. RNA was prepared from glomerular enriched fractions.
2009-08-19 | E-GEOD-17709 | biostudies-arrayexpress
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Project description:Available single-cell RNA-seq analyses have revealed that individual cells of the same type differ substantially in gene expression. We wonder whether glomerular podocytes, the cell type that is part of glomerular filtration, also exhibit big difference in gene expression among individual cells; and what biological information could be obtained from the single-podocyte RNA-seq data. Therefore, we isolated mouse glomeruli by Dynabead/magnetic concentration method, and digested them with enzymes to dissociate the cells. We loaded the single cell suspension to a Fluidigm C1 Single-Cell Auto Prep System for single cell cDNA preparation. The cDNA samples were amplified and underwent sequecing using Illumina Highseq 2000 system.
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Project description:We compared mRNA profiles of isolated glomeruli versus sorted podocytes between diabetic and control mice. IRG mice crossed with eNOS-/- mice were further bred with podocin-rTTA and TetON-Cre mice to permanently label podocytes before the diabetic injury. Diabetes was induced by injection of streptozotocin. mRNA profiles of isolated glomeruli and sorted podocytes from diabetic and control mice at 10 weeks after induction of diabetes were examined. Consistent with the previous reports, expression of podocyte-specific markers in the glomeruli were down-regulated in the diabetic mice compared to controls. However, these differences disappeared when mRNA levels were corrected for podocyte number per glomerulus. Interestingly, the expression of these markers was not altered in sorted podocytes from diabetic mice, suggesting that the reduced expression of podocyte markers in isolated glomeruli is likely a secondary effect of reduced podocyte number, rather than the loss of differentiation markers. Analysis of the differentially expressed genes in diabetic mice also revealed distinct up-regulated pathways in the glomeruli (mitochondrial function and oxidative stress) and podocytes (actin organization). In conclusion, our data suggest that podocyte-specific gene expression in transcriptome obtained from the whole glomeruli may not represent those of podocytes in the diabetic kidney. We compared mRNA profiles of isolated glomeruli versus sorted podocytes between diabetic and control mice.
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Project description:Microarray analysis of the molecular phenotype of the glomerular podocyte during temperature shift-induced differentiation Keywords = glomerular podocyte Keywords = differentiation Keywords: time-course
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