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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of mouse long-lived S6K1 -/- strain females compared to wild types

ABSTRACT: We examined the transcript changes in long-lived S6K1-/- female mice compared to wild type controls.

ORGANISM(S): Mus musculus

SUBMITTER: Daniela Wieser

PROVIDER: E-MEXP-2320 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Ribosomal protein S6 kinase 1 signaling regulates mammalian life span.

Selman Colin C Tullet Jennifer M A JM Wieser Daniela D Irvine Elaine E Lingard Steven J SJ Choudhury Agharul I AI Claret Marc M Al-Qassab Hind H Carmignac Danielle D Ramadani Faruk F Woods Angela A Robinson Iain C A IC Schuster Eugene E Batterham Rachel L RL Kozma Sara C SC Thomas George G Carling David D Okkenhaug Klaus K Thornton Janet M JM Partridge Linda L Gems David D Withers Dominic J DJ

Science (New York, N.Y.) 20091001 5949

Caloric restriction (CR) protects against aging and disease, but the mechanisms by which this affects mammalian life span are unclear. We show in mice that deletion of ribosomal S6 protein kinase 1 (S6K1), a component of the nutrient-responsive mTOR (mammalian target of rapamycin) signaling pathway, led to increased life span and resistance to age-related pathologies, such as bone, immune, and motor dysfunction and loss of insulin sensitivity. Deletion of S6K1 induced gene expression patterns si ...[more]

PMID: 19797661

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Transcription profiling of four mouse tissues following acute caloric restriction

Project description:Multi-tissue transcriptional response following acute caloric restriction in mice.

2007-05-17 | E-MEXP-748 | biostudies-arrayexpress

Transcription profiling of wounds from ovariectomized MIF null mice and controls to investigate the role of MIF during wound healing using BALB/C MIF null mice

Project description:The aim of this experiment was to investigate the role of MIF during wound healing using BALB/C MIF null mice and in the context of reduced estrogen-associated impaired healing using ovariectomized mice (a mouse model of age-associated delayed healing). Ageing is associated with delayed cutaneous wound healing resulting from reduced estrogen levels. Macrophage migration inhibitory factor (MIF - NCBI RefSeq: NM_010798) is thought to mediate the effects of estrogen on wound healing. Gene expression was compared between wounds from ovariectomized MIF null mice and controls.

2005-11-05 | E-MEXP-209 | biostudies-arrayexpress

Experimental overactivity or blockade of transforming growth factor-B each generate a specific ureter malformation

Project description:The mammalian ureter is a tube connecting the kidney with the urinary bladder. The differentiated urothelial tube is surrounded by smooth muscle cells (SMCs). In mice embryos by E15, the first SM cells have formed and, over the next few prenatal days, the ureter becomes a functional unit, transmitting urine generated by the metanephros. Molecules in the transforming growth factor-beta (TGFB) axis have been reported to be upregulated in both kidney and ureter malformations. This study reports the effects of TGFB1 treatment on E15 mouse ureters in vitro.

2019-08-07 | E-MTAB-7395 | biostudies-arrayexpress

The ubiquitin-conjugating enzyme HR6B is required for maintenance of X chromosome silencing in mouse spermatocytes and spermatids

Project description:Background: The ubiquitin-conjugating enzyme HR6B is required for spermatogenesis in mouse. Loss of HR6B results in aberrant histone modification patterns on the trancriptionally silenced X and Y chromosomes (XY body) and on centromeric chromatin in meiotic prophase. We studied the relationship between these chromatin modifications and their effects on global gene expression patterns, in spermatocytes and spermatids. Results: HR6B is enriched on the XY body and on centromeric regions in pachytene spermatocytes. Global gene expression analyses revealed that spermatid-specific single- and multicopy X-linked genes are prematurely expressed in Hr6b knockout spermatocytes. Very few other differences in gene expression were observed in these cells, except for upregulation of major satellite repeat transcription. In contrast, in Hr6b knockout spermatids, 7298 genes were differentially expressed; 65% of these genes was downregulated, but we observed a global upregulation of gene transcription from the X chromosome. In wildtype spermatids, approximately 20% of the single-copy X-linked genes reach an average expression level that is similar to the average expression from autosomes. Conclusions: Spermatids maintain an enrichment of repressive chromatin marks on the X chromosome, originating from meiotic prophase, but this does not interfere with transcription of the single-copy X-linked genes that are reactivated or specifically activated in spermatids. HR6B represses major satellite repeat transcription in spermatocytes, and functions in the maintenance of X chromosome silencing in spermatocytes and spermatids. It is discussed that these functions involve modification of chromatin structure, possibly including H2B ubiquitylation. 8 Affymetrix microarrays were generated: 4 from wildtype and HR6B knockout spermatocytes (2 replicates each), and 4 from wildtype and HR6B knockout spermatids (2 replicates each).

2010-05-27 | E-GEOD-21749 | biostudies-arrayexpress

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Revealing different roles of the mTOR-targets S6K1 and S6K2 in breast cancer by expression profiling and structural analysis

Project description:Expression profiles of ZR751 breast cancer cells after downregulation of S6K1, S6K2 and S6K1+S6K2. Triplicates of control, S6K1siRNA, S6K2siRNA and S6K1+S6K2siRNA, in total twelve samples.

2015-12-09 | E-GEOD-75813 | biostudies-arrayexpress

Targeting S6K1 and S6K2 by siRNA and sgRNA in LN229 GBM cells

Project description:To systematically identify the function of S6K1 and S6K2 in glioblastoma cells, LN229 cells were stably transduced with Cas9, control non-targeting sgRNA (sgNT), or sgRNAs targeting S6K1 or S6K2. The cells were then transiently transfected with non-targeting siRNAs (siNT), or siRNA pools targeting S6K1 or S6K2. RNA sequencing was performed to compare cellular responses to inactivation of single or combination S6 kinases.

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Transcription profiling of mouse kidney - effect of Hyp, low phosphate diet and sex

Project description:The renal adaptation to changing dietary phosphate levels is not well understood. The dominant Hyp mutation of the Phex gene in mice causes X-linked hypophosphatemia with low renal retention of phosphate and blocks physiologic adaptation to low phosphate diets. At P < 0.01, there were 1,711 transcripts significantly affected by genotype, 1,428 by diet and 5,601 by sex. Many renal transporters other than phosphate, as well as many novel transcripts of unknown function, were affected by the Hyp mutation. Some genes for fat metabolism and inflammation were up-regulated in Hyp kidneys. Of the genes affected by genotype and diet, only 378 were affected by both. In summary, the Hyp mutation induced changes in mRNA levels for numerous transcripts exceeding that required to alter phosphate retention. The data suggest broader physiological roles for the Phex gene unrelated to phosphate conservation. Keyword = Phex; Keyword = Hyp; Keyword = mouse; Keyword = kidney; Keyword = sex; Keyword = mRNA; Keyword = microarray; Keyword = low phosphorus diet Experiment Overall Design: A 2x2x2 factorial design, balanced for genotype (normal vs. Hyp), diet (control vs. low phosphate), and sex (male vs. female) was employed. Control or low phosphate diets were fed for three days to 10-week-old mice. A total of 24 samples of renal RNA were collected from 72 mice (3/array), processed to biotin-labeled cRNA, and hybridized to Affymetrix mouse MOE 430A and 430B for measurement of expression of over 45,000 transcripts.

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Project description:Fibrosis is a common pathway in the progression of chronic kidney disease. Extracellular matrix deposition from myofibroblasts causes scarring, tissue stiffness and organ failure. This submission studies the role of Sex determining region Y-box 9 (SOX9) in kidney fibrosis.

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