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Y-linked rDNA deletions in Drosophila melanogaster

ABSTRACT: Please see publication. These experiments were performed to ascertain the contribution of Y-linked rDNA copy number variation in the modulation of gene expression. Males (XY) and female (XXY) genotypes were probed.

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE27695 | GEO | 2011/08/01

SECONDARY ACCESSION(S): PRJNA138155

REPOSITORIES: GEO

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Y-linked rDNA deletions in Drosophila melanogaster

Project description:Please see publication. These experiments were performed to ascertain the contribution of Y-linked rDNA copy number variation in the modulation of gene expression. Males (XY) and female (XXY) genotypes were probed. Dye swaps and direct comparisons within each sex

2011-07-31 | E-GEOD-27695 | biostudies-arrayexpress

Genome-wide contacts of rDNA genes detected by 4C procedure (4C-rDNA) in Drosophila melanogaster S2 cells

Project description:4C-rDNA procedure was used for analysis of genomic contacts of rDNA units in D. melanogaster S2 cells.

2020-12-31 | GSE145321 | GEO

Effect of polymorphic Y chromosomes on XXY females

Project description:see publication, arrays from 4 XXY genotypes containing polymorphic Y chromosomes

2010-10-02 | GSE23612 | GEO

Hot spots of DNA double-strand breaks and genomic contacts of human rDNA units are involved in epigenetic regulation [rDNA units]

Project description:4C procedure was used for analysis of genomic contacts of rDNA units in HEK 293T cells. The primers for 4C were selected inside IGS. Our data indicate that mostly rDNA units exhibit close proximity with pericentromeric regions in different chromosomes. We also detected the contacts within a rDNA unit and between rDNA units. Examination of rDNA genome-wide contacts in HEK 293T cells using 4C approach.

2014-10-04 | E-GEOD-49193 | biostudies-arrayexpress

In Vitro Propagation of XXY Human Klinefelter Spermatogonia Stem Cells; a step towards new fertility opportunities

Project description:Human testicular cells of XY and XXY were isolated from cryopreserved tissue in an experimental testicular tissue banking program and propagated in long-term culture for 110 days.

2022-10-18 | GSE208761 | GEO

Zebrafish preserve preserve germline epigenetic memory globally but demethylate and amplify sex-linked rDNA during feminisation

Project description:The germline is unique because it is the only cellular lineage capable of transferring genetic information from one generation to the next. Intergenerational transmission of epigenetic memory is also possible; however, in mammals this is largely prevented by extensive epigenetic erasure during germline definition from somatic precursors. We report that the ‘preformed’ germline of zebrafish, defined by inheritance of cellular components from the egg and not cellular reprogramming, shows consistently high levels of DNA methylation throughout development. This demonstrates epigenetic erasure is not a barrier to transgenerational epigenetic inheritance in zebrafish and likely other vertebrates with preformed germlines. Our analysis also uncovered female-specific germline amplification and demethylation of an 11.5-kb repeat region encoding 45S ribosomal RNA (fem-rDNA). The peak of fem-rDNA expansion coincided with the initial expansion of stage IB oocytes, the poly-nucleolar cell type responsible for zebrafish feminisation. Given that fem-rDNA overlaps with the only zebrafish locus identified thus far as sex-linked, we hypothesize fem-rDNA expansion is intrinsic to sex determination in this species.

2018-11-20 | GSE122695 | GEO

Modeling sex differences using isogenic human neural progenitor cells

Project description:We developed a cellular model to study sex differences in humans. Using somatic cells from a mosaic Kleinefelter patient, we generated isogenic human induced pluripotent stem cell lines with different sex chromosome complements – 47,XXY / 46,XX / 46,XY and 45,X0. 46, XX and 46, XY hiPSCs were differentiated to neural progenitor cells and compared.

2022-11-24 | GSE145118 | GEO

Hot spots of DNA double-strand breaks and genomic contacts of human rDNA units are involved in epigenetic regulation [rDNA units]

2014-10-04 | GSE49193 | GEO

Modeling sex differences in humans using isogenic induced pluripotent stem cells

2022-11-24 | GSE145079 | GEO

Repression of damaged and intact rDNA by the SUMO pathway

Project description:Ribosomal RNAs (rRNAs) are essential components of the ribosome and are among the most abundant macromolecules in the cell. To ensure high rRNA level, eukaryotic genomes contain dozens to hundreds of rDNA genes, however, only a fraction of the rRNA genes seems to be active, while others are transcriptionally silent. In Drosophila rDNA units damaged by insertions of retrotransposons are repressed by an unknown mechanism. Here, we established a new model to study regulation of rDNA expression using molecularly marked rDNA transgenes. Using this model, we show that insertion of any heterologous sequence into rDNA leads to transcriptional repression. We found that SUMO (Small Ubiquitin-like Modifier) is required for efficient repression of damaged rDNA units. Surprisingly, SUMO also controls expression of intact rDNA, demonstrating that a single pathway is responsible for both selective repression of damaged units and silencing of surplus rDNA.

2020-02-01 | GSE141068 | GEO

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