RNA-seq of bovine genital ridges from male and female fetuses at three different time points corresponding to sex determination and early differentiation of the gonads
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB32183 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| ERR3281160_1.fastq.gz | Fastqsanger.gz | |||
| ERR3281160_2.fastq.gz | Fastqsanger.gz | |||
| ERR3281171_1.fastq.gz | Fastqsanger.gz | |||
| ERR3281171_2.fastq.gz | Fastqsanger.gz |
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Project description:RNA-seq of bovine genital ridges from male and female fetuses at three different time points corresponding to sex determination and early differentiation of the gonads
2019-07-24 | E-MTAB-7887 | ExpressionAtlas
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Project description:The aim of this study was to study the gene expression profile in developing female and male gonads of Xenopus laevis at four stages: at the Nieuwkoop-Faber stage 50 (genital ridge), at NF53 (sex-determining period), NF56 (the onset of sexual differentiation), NF62 (gonads sexually differentiated).
2017-10-18 | GSE105103 | GEO
Project description:Initially, we had compared gene expression differences in the embryonic gonads (E13.5) of the 129 and M19 strains by performing microarray analysis. These studies allowed us to identify downregulation of expression of the D19Bwg1357e, Zfp162 and Cox15 genes in the M19 strain. We next decided to examine gene expression profile changes in the embryonic gonads of 129 and M19 at additional stages so as to identify other TGCT genes from M19 that are also involved in initiation and maintenance of transformed germ cells. For this we isolated E13.5, E15.5 and E17.5 genital ridges from male embryos.
2009-12-31 | GSE14481 | GEO
Project description:The Drosophila genitalia develop from an imaginal disc that is patterned during the larval period and undergoes morphogenesis during the pupal period. Although the genetic hierarchy that controls sexual identity in Drosophila is well characterized, the downstream genes that effect sexually dimorphic development of the genitalia are largely unknown. We used microarrays to profile gene expression in female and male genital imaginal discs at three time points during development: late third-instar larvae (L3), pupae approximately 6 hours after puparium formation (P6) and pupae approximately 20 hours after puparium formation (P20). We identified genes that are sex-differentially expressed in the developing genital disc, including three genes encoding transcription factors that are expressed in the genital disc of one sex but not the other. Through genetic analysis, we showed how the master regulator of sexual identity, Doublesex, limits expression of each of these three genes to one sex. We also determined which genital structures fail to develop properly in the absence of each of the three genes.
2011-02-25 | GSE23344 | GEO
Project description:Single Cell Microarray <br>E10.5 genital ridges (TM at E7.5) incubated in 0.5mM EDTA/ PBS for 20 minutes at 37ï¾°C were transferred to 2% BSA/ PBS. PGCs were collected from the genital ridges pierced with fine glass needles. Released PGCs were identified by their morphological characteristics and transferred into lysis buffer with a mouth pipette. PGCs were genotyped with the remaining genital ridges. The amplified cDNA library of each PGC was classified by qPCR-based expression analyses of Nanog, Oct4, and Stella/Dppa3 (Kurimoto et al., 2007). cDNAs were labeled by in vitro transcription (Affymetrix). The cRNAs were hybridized with the GeneChip Mouse Genome 430 2.0 Array (Affymetrix). Data were analyzed using the Microsoft Excel and MeV (multiple experimental viewer) software. <br>
2009-11-16 | E-MEXP-2411 | biostudies-arrayexpress
Project description:The Drosophila genitalia develop from an imaginal disc that is patterned during the larval period and undergoes morphogenesis during the pupal period. Although the genetic hierarchy that controls sexual identity in Drosophila is well characterized, the downstream genes that effect sexually dimorphic development of the genitalia are largely unknown. We used microarrays to profile gene expression in female and male genital imaginal discs at three time points during development: late third-instar larvae (L3), pupae approximately 6 hours after puparium formation (P6) and pupae approximately 20 hours after puparium formation (P20). We identified genes that are sex-differentially expressed in the developing genital disc, including three genes encoding transcription factors that are expressed in the genital disc of one sex but not the other. Through genetic analysis, we showed how the master regulator of sexual identity, Doublesex, limits expression of each of these three genes to one sex. We also determined which genital structures fail to develop properly in the absence of each of the three genes. Drosophila female or male genital discs were dissected at the L3, P6 or P20 time points, total RNA was extracted, and labeled cDNA was produced for hybridization to Affymetrix microarrays. To aid in identifying genital discs, and thereby to avoid loss or contamination of tissue, we used animals expressing GFP in all imaginal discs (esgGAL4.B, UAS-GFP.nls/CyO). To collect discs of specific developmental ages, short-duration sex-nonspecific morphological features were used. L3 discs were dissected from wandering third-instar larvae and sexed by gonad size. For the two pupal time points, each sex-sorted larva was observed until it reached the white prepupa stage (0 hours after puparium formation, APF), which lasts 15-20 minutes. This short duration improves synchronization of the following stages. An air bubble forms mid-dorsally on the puparium at around 4 hours APF, peaks in size at 6-6.5 hours APF and disappears at 9-11 hours APF. We therefore used this morphological feature to collect P6 samples, rather than merely timing 6 hours since the white prepupa. Each animal was observed every 20 minutes from 5 hours APF, until peak bubble size was evident, at which time its genital disc was dissected. We followed a similar protocol for P20. We noted that GFP expression in an oval patch in the eye disc becomes faintly visible at around 20 hours APF. We observed each pupa every 20 minutes from 18 hours APF, until GFP appeared in the eye, at which time its genital disc was dissected. Morphologies of P6 and P20 discs collected this way showed little within-sex variation. For each combination of sex and time point, four biological replicates were performed.
2011-02-25 | E-GEOD-23344 | biostudies-arrayexpress
Project description:Initially, we had compared gene expression differences in the embryonic gonads (E13.5) of the 129 and M19 strains by performing microarray analysis. These studies allowed us to identify downregulation of expression of the D19Bwg1357e, Zfp162 and Cox15 genes in the M19 strain. We next decided to examine gene expression profile changes in the embryonic gonads of 129 and M19 at additional stages so as to identify other TGCT genes from M19 that are also involved in initiation and maintenance of transformed germ cells. For this we isolated E13.5, E15.5 and E17.5 genital ridges from male embryos. Microarray analysis of E13.5, E15.5 and E17.5 genital ridges from male embryos of M19 and 129. Total RNA prepared from the embryonic gonads were analyzed on 12 Affymetrix mouse 430_2 arrays. The objective of the analysis is to determine the differentially expressed genes for the following comparisons: 1. Comparisons of the two strains at each stage, specifically: 1a. 129-E13-GR vs. M19-E13-GR 1b. 129-E15-GR vs. M19-E15-GR 1c. 129-E17-GR vs. M19-E17-GR 2. Comparisons of the different stage in strain 129, specifically: 2a. 129-E13-GR vs. 129-E15-GR 2b. 129-E15-GR vs. 129-E17-GR 3. Comparisons of the different stage in strain CSS, specifically: 3a. M19-E13-GR vs. M19-E15-GR 3b. M19-E15-GR vs. M19-E17-GR After data process and quality assessment, 38069 out of 45101 probe sets proceeded for further analysis to identify differentially expressed genes. Hierarchical cluster analysis shows that samples of two strains from the same stage were grouped together and separated from the other stages (Fig.8). The initial analysis indicates a number of trends in gene expression patterns. Moreover, downregulation of expression of D19Bwg1357e, Zfp162 and Cox15 genes in M19 was also verified in this analysis. These data are currently being analyzed with the help of Dr. Y. Ji and L. Xiao from the Department of Bioinformatics and Computational Biology and Department of Biostatistics at M.D. Anderson Cancer Center. The results are unpublished.
2009-12-30 | E-GEOD-14481 | biostudies-arrayexpress
Project description:Comparing gene expression in Oral and genital lichen planus with normal oral and genital epithelium trying to idenitfy differently expressed genes in lichen planus compared to normal epithelium Total RNA obtained from oral and genital lichen planus epithelium compared with normal oral and genital epithelium
2013-11-08 | E-GEOD-52130 | biostudies-arrayexpress