Similar Datasets
Project description:Effect of Ankrd31 deficiency in mouse testicular transcriptome
| PRJNA489193 | ENA
Project description:To study the effect of SARM1 deficiency on brain transcriptome, we performed RNAsequencing of the brain of SARM1-/- mice and their wild type (C57BL/6J) littermates with or without prion infection. We analyzed differential gene expression.
2019-03-01 | GSE124932 | GEO
Project description:The objective of this study was to understand the genetic mechanisms of Vitamin-A-Deficiency (VAD)-induced arrest of spermatogonial stem-cell differentiation. Vitamin A and its derivatives (the retinoids) participate in many physiological processes including vision, cellular differentiation and reproduction. VAD affects spermatogenesis, the subject of our present study. Spermatogenesis is a highly regulated process of differentiation and complex morphologic alterations that, in the postnatal testis, leads to the formation of sperm in the seminiferous epithelium. VAD causes early cessation of spermatogenesis, characterized by degeneration of meiotic germ cells, leading to seminiferous tubules containing mostly type A spermatogonia and Sertoli cells. In this study, we investigated the molecular basis of VAD on spermatogenesis in mice. We used adult Balb/C mice fed with a Control or VAD diet for an extended period of time (8-28 weeks) and selected two time points (18 and 25 weeks) for microarray analysis. To understand the effect of VAD on the spermatogonial stem cell transcriptome, we studied isolated pure populations of spermatogonia from control and vitamin-A-deficient mice from two representative time points (18 and 25 weeks) using Affymetrix GeneChip microarrays. We identified target genes involved in the arrest of spermatogonial differentiation and spermatogenesis. Our results establish a better understanding of the chronology and magnitude of the consequences of VAD on mouse testes and add to the current knowledge of the molecular regulatory mechanisms of germ cell development.
2010-08-03 | GSE23119 | GEO
Project description:The objective of this study was to understand the genetic mechanisms of Vitamin-A-Deficiency (VAD)-induced arrest of spermatogonial stem-cell differentiation. Vitamin A and its derivatives (the retinoids) participate in many physiological processes including vision, cellular differentiation and reproduction. VAD affects spermatogenesis, the subject of our present study. Spermatogenesis is a highly regulated process of differentiation and complex morphologic alterations that, in the postnatal testis, leads to the formation of sperm in the seminiferous epithelium. VAD causes early cessation of spermatogenesis, characterized by degeneration of meiotic germ cells, leading to seminiferous tubules containing mostly type A spermatogonia and Sertoli cells. In this study, we investigated the molecular basis of VAD on spermatogenesis in mice. We used adult Balb/C mice fed with a Control or VAD diet for an extended period of time (8-28 weeks) and selected two time points (18 and 25 weeks) for microarray analysis. To understand the effect of VAD on the spermatogonial stem cell transcriptome, we studied isolated pure populations of spermatogonia from control and vitamin-A-deficient mice from two representative time points (18 and 25 weeks) using Affymetrix GeneChip microarrays. We identified target genes involved in the arrest of spermatogonial differentiation and spermatogenesis. Our results establish a better understanding of the chronology and magnitude of the consequences of VAD on mouse testes and add to the current knowledge of the molecular regulatory mechanisms of germ cell development. Spermatogonia were isolated by the STATPUT procedure with minor modifications. VAD mice were sacrificed at 18 and 25 weeks of VAD treatment for spermatogonia isolation. Decapsulated testes from 2 mice were suspended in RPMI medium containing collagenase (0.6 mg/ml), Hyaluronidase (0.12 mg/ml) and DNAse I (1.25 mg/ml) and incubated at 37ºC for 30 minutes in a shaking water bath. The tissues were then allowed to come down the tube and the supernatant (containing interstitial cells) was removed. The pellet was incubated with 3 ml of 0.25% Trypsin /EDTA (GIBCO, Invitrogen, USA), in the presence of DNAse I (0.2 mg/ml) at 37ºC for 15 minutes in a shaking water bath. The dispersed cells were washed twice with RPMI medium containing 10% heat inactivated FBS to neutralize the protease activity, and filtered through a sterile 0.22 nylon to remove any undigested fragments. Cells of the dissociated seminiferous epithelium were then plated overnight in a 34ºC 3% CO2 incubator. The following day, germ cells, in suspension, were separated by sedimentation with use of a 2-4% BSA gradient. The cells were allowed to sediment for a standard period of 2.5 h, and fractions of 2-ml volume were collected. The cells of each fraction were examined under a phase contrast microscope, and fractions containing cells of similar size and morphology were pooled and spun down by low-speed centrifugation. Purity of spermatogonia was estimated and was routinely higher than 90%. Total RNA was extracted from the isolated germ cells using TRIzol ® Reagent, and cleaned with RNeasy minicolumns. RNA content was determined by measurement of optical density at 260 nm. Only the RNA samples showing an OD 260/280 ratio higher than 1.8 were used for microarray hybridization. Raw expression values in Affymetrix CEL file format were generated by GeneChip Operating Software.
2010-08-03 | E-GEOD-23119 | biostudies-arrayexpress
Project description:the goal of this study is to use high-throughput RNA-Sequencing technology to identify genes that are differentially expressed in iron deficient (ID) placentas compared to iron adequate (IA) placentas. A secondary aim is to explore whether iron deficiency has differential impact on male compared with female placental transcriptome.
2020-09-23 | GSE157667 | GEO
Project description:To investigate the change of embryo transcriptome upon the inhibition of transition, we treated the late zygote with CHX and performed RNA-seq; To test KLF17 necessity for ZGA transcripts expression and embryo development, we next generated conditional knockout mouse models for Klf17 and collected embryo to perform RNA-seq and Stacc-seq.
2024-01-11 | GSE211845 | GEO
Project description:Many studies have reported that taste receptor TAS1R3 is highly expressed in male reproductive tract, but the role of TAS1R3 in male reproduction and underlying molecular mechanisms remain unknown. To investigate the role of taste receptor TAS1R3 in the male reproduction, we performed RNA-sequenceing analysis on testes from C57BL/6 male mice.
2024-02-07 | GSE226995 | GEO
Project description:After 2 months arsenic exposure, among the 33,492 surveyed genes, 13,005 genes were detected with expression (mean FPKM > 1) in 27 samples of the intestinal tracts (ileum, cecum, and colon) of control and test mice. Among the detected genes, and in comparison to the control and test mice, 328, 579 and 90 dierentially expressed genes (DEGs) were obtained from ileum, cecum, and colon, respectively (FDR < 0.05, Log2 Fold Change > 1). To explore the potential functions of DEGs in the three intestines, we performed GO and KEGG pathway enrichment analysis. Analysis revealed by machine learning of the transcriptome results showed that significantly affected the gene network of pathways related to disease and immunity in the intestine. The results demonstrated that food arsenicals change the intestinal transcriptome significantly, suggest that the host genes might participate in arsenical biotransformation.
2024-03-03 | GSE168161 | GEO
Project description:Gene expression during spermatogenesis is highly variable and this differential pattern is very important for the successive culmination of different stages of the process, leading to production of the male gamete. Taking the time window of first wave of spermatogenesis, we did a microarray profiling of total testicular transcriptome in mouse and found several significant patterns of variable gene expression, forming upregulated and downregulated clusters among the three stages analyzed here. Mouse testis tissue were taken at three stages, 8 days, 16 days and 24 days, during first wave of spermatogenesis for RNA extraction and hybridization on the Affymetrix microarrays. Three biological replicates per age group were included and comparisons were done as 16 days vs 8 days, 24 days vs 16 days and 24 days vs 8 days testis transcriptome profile.
2014-10-01 | E-GEOD-41858 | biostudies-arrayexpress