Whole-transcriptome microarray to identify sexually dimorphic RNA transcripts that are differentially expressed in disease-susceptible versus nonsusceptible CNS regions of male and female SJL mice
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ABSTRACT:
ORGANISM(S): Mus musculus
PROVIDER: GSE55718 | GEO | 2014/04/15
SECONDARY ACCESSION(S): PRJNA240685
REPOSITORIES: GEO
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Project description:We hypothesized that sexual dimorphism in experimental autoimmune enecphalomyelitis arises from sexually dimorphic and CNS-region specific expression of genes that regulate BBB permeability and leukocyte entry. To test this hypothesis, we profiled total RNA from the cerebella and frontal cortices of naïve female versus male SJL mice 100 ng of total RNA was extracted from cerebella and frontal cortices of naïve SJL female and male littermates to identify differential expression of gene transcripts unique to female cerebellum.
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2010-01-31 | E-GEOD-19973 | biostudies-arrayexpress
Project description:Sexual dimorphism is one of the important topic in mammal species because appearance of males and females is obvious different in all mammal species. In addition to this, molecular mechanisms also very different each other. Furthermore, it is important to employ a variety of tissues in RNA-seq experiment because recent studies imply gene expression pattern are highly tissue specific. Although previous related studies discovered numerous sexually dimorphic mechanism in mammal species, but still, many mechanisms are undiscovered in case of non-model organisms. One of the representative mammal organism is a cattle which is less researched about sexual dimorphism. For investigate bovine sexual dimorphism, we generated two-way factorial designed 40 samples RNA-seq data composed with two factors such as gender and tissues. Two statistical approaches are employed for identifying bovine sexually dimorphic genes using such two-way factorial designed RNA-seq data. As a result, we observed that detected sexually dimorphic genes exhibited strong tissue specific pattern, but fat tissue showed relatively small tissue specificity than the others. In addition, we observed that sex-related genes are shared in two mammal species such as cattle and rat through qRT-PCR experiments. Finally, we investigated pros and cons of two statistical approaches for complex structured RNA-seq analysis.
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Project description:Sexually dimorphic traits are by definition exaggerated in one sex, which may arise from a history of sex-specific selection – in males, females, or both. If this exaggeration comes at a cost, exaggeration is expected to be greater in higher condition individuals (condition-dependent). Although studies using small numbers of morphological traits are generally supportive, this prediction has not been examined at a larger scale. We test this prediction across the trancriptome by determining the condition-dependence of sex-biased (dimorphic) gene expression. We find that high-condition populations are more sexually dimorphic in transcription than low-condition populations. High condition populations have more male-biased genes and more female-biased genes, and a greater degree of sexually dimorphic expression in these genes. Also, condition-dependence in male-biased genes was greater than in a set of unbiased genes. Interestingly, male-biased genes expressed in the testes were not more condition-dependent than those in the soma. By contrast, increased female-biased expression under high condition may be have occurred because of the greater contribution of the ovary-specific transcripts to the entire mRNA pool. We did not find any genomic signatures distinguishing the condition-dependent sex-biased genes. The degree of condition-dependent sexual dimorphism (CDSD) did not differ between the autosomes and the X-chromosome. There was only weak evidence that rates of evolution correlated with CDSD. We suggest that the sensitivity of both female-biased genes and male-biased genes to condition may be akin to the overall heightened sensitivity to condition that life-history and sexually selected traits tend to exhibit. Our results demonstrate that through condition-dependence, early life experience has dramatic effects on sexual dimorphism in the adult transcriptome.
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Project description:As sex determines mammalian development, understanding the nature and developmental dynamics of the sexually dimorphic transcriptome is important. To explore this, we generated 72 genome-wide RNA-seq profiles from mouse eight-cell embryos, late gestation and adult livers, together with 4 ground-state pluripotent embryonic (ES) cell lines from which we generated both RNA-seq and multiple ChIP-seq profiles. We complemented this with previously published data to yield 5 snap-shots of pre-implantation development, late-gestation placenta and somatic tissue and multiple adult tissues for integrative analysis. We define a high-confidence sex-dimorphic signature of 56 genes in eight-cell embryos. Sex-chromosome-linked components of this signature are largely conserved throughout pre-implantation development and ES cells, whilst the autosomal component is more dynamic. Sex-biased gene expression is reflected by enrichment for activating and repressive histone modifications. The eight-cell signature is largely non-overlapping with that defined from fetal liver, neither was it correlated with liver or other adult tissues analysed. Fetal and adult liver gene expression signatures are also substantially different, yet a core set of common genes showing modest dimorphic expression was identified. Dramatic sex-specific expression of olfactory receptors was found in fetal liver. Sex-biased expression differences unique to adult liver were enriched for growth hormone-responsiveness. The majority of sex-chromosome based differences identified from eight-cell embryos are also present in placenta but not somatic tissue at the same gestational age. This systematic study identifies three distinct phases of sex dimorphism throughout mouse development, and has significant implications for understanding the developmental origins of sex-specific phenotypes and disease in mammals. Examination of the sexual dimorphisim during developmental stages of 8 Cell, Es Cell, Fetal Liver and Adult Liver
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