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Targeted DamID reveals Fuss as a pivotal element in bitter gustatory neurons

ABSTRACT: Targeted DamID reveals Fuss as a pivotal element in bitter gustatory neurons

PROVIDER: PRJNA474671 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7263370.fastq.gz	Fastqsanger.gz
	SRR7263380.fastq.gz	Fastqsanger.gz
	SRR7263371.fastq.gz	Fastqsanger.gz
	SRR7263381.fastq.gz	Fastqsanger.gz
	SRR7263372.fastq.gz	Fastqsanger.gz

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Targeted DamID reveals Fuss as a pivotal element in bitter gustatory neurons

Project description:To find differentially expressed genes by comparing Fuss neurons and mutant Fuss neurons we utilised targeted DamID in Drosophila melanogaster. This not only predicts many genes expressed and nonexpressed in adult Fuss neuron populations, but also reveals Fuss being expressed in gustatory neurons, especially bitter gustatory neurons. Comparison of control and mutant datasets reveals a reduced expression of gustatory receptor gene Gr66a. Gr66a is an important component of the gustatory receptors compounds responsible for toxic compound sensation. Behaviourial tests reveal an impaired toxic compound sensation of adult Fuss mutant flies.

2019-01-10 | GSE115347 | GEO

Targeted DamID reveals Fuss as a pivotal element in bitter gustatory neurons

Project description:Targeted DamID reveals Fuss as a pivotal element in bitter gustatory neurons

| PRJNA474671 | ENA

Bitter taste cells in the ventricular walls of the murine brain regulate glucose homeostasis

Project description:The median eminence (ME) is a circumventricular organ at the base of the brain that controls body homeostasis. Tanycytes are its specialized glial cells that constitute the ventricular walls and regulate different physiological states, however individual signaling pathways in these cells are incompletely understood. Here, we identify a functional tanycyte subpopulation that expresses key taste transduction genes including bitter taste receptors, the G protein gustducin and the gustatory ion channel TRPM5 (M5). M5 tanycytes have access to blood-borne cues via processes extended towards diaphragmed endothelial fenestrations in the ME and mediate bidirectional communication between the cerebrospinal fluid and blood. This subpopulation responds to metabolic signals including leptin and other hormonal cues and is transcriptionally reprogrammed upon fasting. Acute M5 tanycyte activation induces insulin secretion and acute diphtheria toxin-mediated M5 tanycyte depletion results in impaired glucose tolerance in diet-induced obese mice. We provide a cellular and molecular framework that defines how bitter taste cells in the ME integrate chemosensation with metabolism.

2023-03-01 | GSE226066 | GEO

RNA-Seq on Malus domestica Braeburn x Cameo lines resistant and susceptible to bitter pit disorder

Project description:Bitter pit is the most important physiological disorder affecting apples. In order to ascertain the genetic bases of its incidence in apple fruit, a mapping population of ‘Braeburn’ (susceptible to bitter pit) × ‘Cameo’ (resistant to bitter pit) cultivars was used to map the trait over two growing seasons. RNA-Seq on pools of RNA extracted from fruits of three resistant and three susceptible to bitter pit progenies at post-fertilization and full maturity stages, permitted us to identify a number of candidate genes underlying genetic resistance/susceptibility to bitter pit.

2018-06-12 | E-MTAB-6190 | biostudies-arrayexpress

Identification of genome-wide binding sites of Psi, Myc and Pol in Drosophila imaginal wing discs using Targeted DamID

Project description:Targeted DamID was performed to identify binding targets of P-element somatic inhinitor (Psi), Myc and RNA Polymerase (using the RpII18 subunit common to all 3 polymerases). Scalloped(sd)-GAL4 was used to restrict expression to the wing disc.

2020-06-30 | GSE149718 | GEO

Inflammation induces bitter taste oversensitization via epigenetic changes in Tas2r gene clusters

Project description:T2R bitter receptors, encoded by Tas2r genes, are not only critical for bitter taste signal transduction but also important for defense against bacteria and parasites. However, little is known about whether and how Tas2r gene expression are regulated. Here, using single-cell assays for transposase-accessible chromatin with sequencing (scATAC-seq), we found that the chromatin accessibility of Tas2rs was highly cell type specific and lipopolysaccharide (LPS)-induced inflammation increased the accessibility of many Tas2rs. scATAC-seq also revealed substantial chromatin remodeling in immune response genes in taste tissue stem cells, suggesting potential long-term effects. Together, our results suggest an epigenetic mechanism connecting inflammation, Tas2r gene regulation, and altered bitter taste, which may explain heightened bitter taste that can occur with infections and cancer treatments.

2023-05-25 | GSE213404 | GEO

Targeted DamID Detects Cell Type Specific Histone Modifications in intact tissues or organisms

Project description:Histone modifications play a key role in regulating gene expression and cell fate during development and disease. Current methods for cell-type specific genome-wide profiling of histone modifications require dissociation and isolation of cells and are not compatible with all tissue types. Here we adapt Targeted DamID to recognise specific histone marks, by fusing chromatin binding proteins or single-chain antibodies to Dam, an E. coli DNA adenine methylase. When combined with Targeted DamID (TaDa), this enables cell-type specific chromatin profiling in intact tissues or organisms. We first profiled H3K4me3, H3K9ac, H3K27me3 and H4K20me1 in vivo in neural stem cells of the developing Drosophila brain. Next, we mapped cell-type specific H3K4me3, H3K9ac and H4K20me1 distributions in the developing mouse brain. Finally, we injected RNA encoding DamID constructs into 1-cell stage Xenopus embryos to profile H3K4me3 distribution during gastrulation and neurulation. These results illustrate the versatility of Targeted DamID to profile cell-type specific histone marks throughout the genome in diverse model systems.

2024-10-23 | GSE278272 | GEO

Human intestinal bitter taste receptors regulate innate immune responses and metabolic regulators in obesity

Project description:An expression profiling was conducted to analyse the effect of the bitter tasting compounds denatonium benzoate (DB) or aloin on the transcriptome of human jejunal crypts compared to DMEM-treated crypts. These two bitter compounds are agonists for the human bitter taste receptor TAS2R43. We took advantage of a deletion polymorphism for TAS2R43, that exists in about 33% of the population to compare the effects of the TAS2R43 agonists in obese subjects that express (TAS2R43(+)) or do not express (TAS2R43(-)) TAS2R43. Primary jejunal crypts from lean (multi-organ donors) or obese (RYGB surgery) subjects were cultured for 24 hours and treated for 4 hours with either DMEM (control) or 1 mM DB or 30 µM aloin. In total 48 mRNA samples were subjected to RNAseq analysis.

2021-11-23 | GSE186509 | GEO

Targeted DamID to understand transcription factor genomic occupancy in human foetal lung progenitor cells

Project description:In order to study the genomic occupancy of transcription factors, including SOX9, ETV4 and ETV5, in human foetal lung tip progenitor cells, we have introduced Targeted DamID system via lentivirus in a human foetal lung tissue derived organoid culture (Nikolic et al., 2017). We were able to identify the corresponding TF motif enrichment and discovered a potential co-regulation function of SOX9 and ETV factors in human feotal lung progenitor cells. This study has pioneered the use of targeted DamID approach in tissue derived organoid system.

2022-04-30 | GSE189786 | GEO

Targeted DamID reveals differential binding of mammalian pluripotency factors

Project description:The precise control of gene expression by transcription factor networks is critical to organismal development. The predominant approach for mapping transcription factor-chromatin interactions has been chromatin immunoprecipitation (ChIP). However, ChIP requires a large number of homogeneous cells and antisera with high specificity. A second approach, DamID, has the drawback that high levels of Dam methylase are toxic. Here we modify our Targeted DamID approach (TaDa) to enable cell type-specific expression in mammalian systems, generating an inducible system (mammalian TaDa or MaTaDa) to identify protein/DNA interactions in 100 to 1000 times fewer cells than ChIP. We mapped the binding sites of key pluripotency factors, OCT4 and PRDM14, in mouse embryonic stem cells, epiblast-like cells and primordial germ cell-like cells (PGCLCs). PGCLCs are an important system to elucidate primordial germ cell development in mice. We monitored PRDM14 binding during the specification of PGCLCs, identifying direct targets of PRDM14 that are key to understanding its critical role in PGCLC development. We show that MaTaDa is a sensitive and accurate method to assess cell type specific transcription factor binding in limited numbers of cells.

2018-09-05 | GSE101971 | GEO

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