Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide expression analysis of C. elegans nematodes overexpressing the transcription factor grh-1

ABSTRACT: We report identification of possible GRH-1 target genes in C. elegans, by analyzing changes in overall transcriptome following stable overexpression of this transcription factor.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE159077 | GEO | 2021/10/24

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Genome-wide expression analysis of C. elegans nematodes engineered to stably express a Cas9-derived synthetic transcription factor, fed HT115 scrambled bacteria

Project description:We report identification of possible differentially regulated genes in C. elegans, by analyzing changes in overall transcriptome following stable overexpression of this transcription factor.

2022-05-19 | GSE202213 | GEO

Genome-wide expression analysis of C. elegans nematodes overexpressing the transcription factor grh-1

Project description:Genome-wide expression analysis of C. elegans nematodes overexpressing the transcription factor grh-1

| PRJNA667640 | ENA

Whole-organism C. elegans L2 GRH-1 ChIP-seq (experiment 2 of 2)

Project description:We performed ChIP-seq to determine chromatin regions binding Transcription Factor GRH-1, and thereby potential binding motifs and sites, in C. elegans (larval stage 2) whole organisms.

2022-12-31 | GSE213509 | GEO

Whole-organism C. elegans L2 GRH-1 ChIP-seq (experiment 1 of 2)

Project description:We performed ChIP-seq to determine chromatin regions binding Transcription Factor GRH-1, and thereby potential binding motifs and sites thereof, in C. elegans (larval stage 2) whole organisms.

2022-12-31 | GSE213508 | GEO

GRH-inducible genes in rice plants

Project description:The green rice leafhopper (GRH), Nephotettix cincticeps Uhler, is a major insect pest of cultivated rice in temperate Asia. GRH2-near-isogenic line (NIL) TGRH11, GRH4-NIL (TGRH16) and GRH2/GRH4-pyramided line (PYL) TGRH29 were developed by introducing the GRH2 and GRH4 from indica rice (DV85). We identified GRH-inducible genes in respective rice lines. Furthermore, we compared the gene expression levels between NILs/PYL and control plants (T65). The gene expression changes in respective rice lines were detected by comparison between GRH-infested and pre-infested plants. Seedlings at the second-leaf stage were infested with 10 to 15 first- or second-instar nymphs in test tubes and shoots were collected at 30 h after GRH infestation. Detached-leaf blades at heading stage were infested with 10 to 15 first- or second-instar nymphs in test tubes and samples were collected at 30 h after GRH infestation. For each treatment, two biological replicates were performed.

2016-04-02 | E-GEOD-46409 | biostudies-arrayexpress

GRH-inducible genes in rice plants

2016-04-02 | GSE46409 | GEO

The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes [ATAC-seq Grh mutants and Human GRHL]

Project description:Transcriptional enhancers function as docking platforms for combinations of transcription factors to control gene expression. How enhancer sequences determine nucleosome occupancy, transcription factor recruitment, and transcriptional activation in vivo remains unclear. Using ATAC-seq across a panel of Drosophila inbred strains we found that SNPs affecting Grainyhead binding sites causally determine the accessibility of epithelial enhancers. We show that deletion or ectopic expression of Grh causes loss or gain of DNA accessibility, respectively. However, while Grh binding is necessary for enhancer accessibility, it is insufficient to activate enhancers. Finally, we show that human Grh homologs, GRHL1/2/3, function similarly. We conclude that Grh binding is necessary and sufficient for the opening of epithelial enhancers, but not for their activation. Our data support the model that complex spatiotemporal expression patterns are controlled by regulatory hierarchies in which pioneer factors, such as Grh, establish tissue-specific accessible chromatin landscapes upon which other factors can act.

2018-06-04 | GSE108019 | GEO

Stable Binding of the Conserved Transcription Factor Grainy Head to Its Target Genes Throughout Drosophila melanogaster Development

Project description:It has been suggested that transcription factor binding is temporally dynamic, and that changes in binding determine transcriptional output. Nonetheless, this model is based on relatively few examples in which transcription factor binding has been assayed at multiple developmental stages. The essential transcription factor Grainy head (Grh) is conserved from fungi to humans, and controls epithelial development and barrier formation in numerous tissues. Drosophila melanogaster, which possess a single grainy head (grh) gene, provide an excellent system to study this conserved factor. To determine whether temporally distinct binding events allow Grh to control cell fate specification in different tissue types, we used a combination of ChIP-seq and RNA-seq to elucidate the gene regulatory network controlled by Grh during four stages of embryonic development (spanning stages 5-17) and in larval tissue. Contrary to expectations, we discovered that Grh remains bound to at least 1146 genomic loci over days of development. In contrast to this stable DNA occupancy, the subset of genes whose expression is regulated by Grh varies. Grh transitions from functioning primarily as a transcriptional repressor early in development to functioning predominantly as an activator later. Our data reveal that Grh binds to target genes well before the Grh-dependent transcriptional program commences, suggesting it sets the stage for subsequent recruitment of additional factors that execute stage-specific Grh functions.

2017-02-02 | GSE83305 | GEO

Protective microbes alter the transcriptional response of Caenorhabditis elegans nematodes to pathogenic infection

Project description:We sequenced the transcriptome of a host (Caenorhabditis elegans) following its interaction with a non-native bacterium (Enterococcus faecalis) that has protective traits against the pathogen, Staphylococcus aureus. We also investigated the impact that the evolutionary history of the protective bacterium has on the transcriptional history of the host. We tested protective bacteria that had either coevolved against the pathogen within C. elegans, or had evolved on its own within C. elegans.

2021-04-20 | GSE151731 | GEO