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RNA-seq analysis of doxycycline-regulated gene expression in Aspergillus fumigatus cells containing a dox off-ffmA fusion gene.

ABSTRACT: RNA-seq analysis of doxycycline-regulated gene expression in Aspergillus fumigatus cells containing a dox off-ffmA fusion gene.

PROVIDER: PRJNA956575 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24199629_1.fastq.gz	Fastqsanger.gz
	SRR24199629_2.fastq.gz	Fastqsanger.gz
	SRR24199630_1.fastq.gz	Fastqsanger.gz
	SRR24199630_2.fastq.gz	Fastqsanger.gz
	SRR24199631_1.fastq.gz	Fastqsanger.gz

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RNA-seq analysis of doxycycline-regulated gene expression in Aspergillus fumigatus cells containing a dox off-ffmA fusion gene.

Project description:To determine the genes responsive to FfmA in A. fumigatus, a doxycycline-repressible (dox off) gene fusion to the ffmA coding sequence was constructed. This strain was designated SPF182. These cells were grown for 16 hours in the absence of doxycycline and then shifted into medium containing doxycycline (+dox) or untreated (-dox). After 8 additional hours, the cells were harvested and total RNA prepared. Wild-type cells were grown in parallel as a control in -dox medium.

2023-07-26 | GSE229912 | GEO

Genome-wide tongue epithelia transcriptomic profiles from K14-rtTA;TRE-FLBmi-1 (KrTB) and KrTB+Doxycycline (KrTB+DOX).

Project description:We developed a transgenic mouse model (truncated K14-rtTA; TRE/Bmi1, KrTB) containing a doxycycline- (dox) controlled, Tet-responsive element system to selectively overexpress Bmi1 only in the basal epithelial SCs of the tongue. Here, we used this model to assess Bmi1 actions in tongue epithelia. Genome-wide transcriptomics revealed increased levels of transcripts involved in the cellular response to hypoxia in Bmi1-overexpressing (KrTB+DOX) mice.

2024-08-16 | GSE241153 | GEO

Transcription profiling of transgenic mice (tTA/IkappaBalpha-AA) treated with doxycycline (DOX), which represses expression of the transgenic IkappaBalpha

Project description:double transgenic mice (tTA/IkappaBalpha-AA) were treated with doxycycline (DOX), which represses expression of the transgenic IkappaBalpha. Double transgenic mice without Dox-treatment overexpress the transdominant IkappaBalpha, which represses NFkappaB activation.

2006-05-10 | E-MEXP-358 | biostudies-arrayexpress

ChIP-seq analysis of FfmA binding in Aspergillus fumigatus

Project description:Two strains were analyzed by ChIP-seq to determine the genomic binding sites for the Aspergillus fumigatus transcription factor FfmA. A wild-type strain (AfS35) was subjected to ChIP-seq analysis using an antibody directed against the wild-type version of the FfmA protein. An strain containing an epitope-tagged version (FLAG-ffmA) of the ffmA gene under control of a doxycycline off (dox off) promoter was also analyzed by ChIP-seq. In this latter case, an anti-FLAG antibody was used. The negative controls in both cases consisted of a ChIP-seq reaction with the respective primary antibody omitted.

2023-07-26 | GSE229911 | GEO

Targeted ErbB3 loss in mammary organoids harvested from ErbB3 DOX-KO mice +/- DOX treatment

2012-01-04 | GSE32129 | GEO

Transcription profiling of dox-inducible, bitransgenic Ccsp-rtta x Teto-fgf7 mice lungs to 1 and 3 days of doxycycline treatment

Project description:Response of dox-inducible, bitransgenic Ccsp-rtta x Teto-fgf7 mice to 1 and 3 days of doxycycline treatment

2022-11-22 | E-MEXP-644 | biostudies-arrayexpress

Effect of doxycycline treatment on germ-free mice

Project description:To characterize the mitochondrial stress response induced by Doxycycline in vivo in liver and kidneys, we administered doxycycline (Dox) at 500 mg/kg/day (mpkd) in the drinking water to 9 weeks-old germ-free C57BL/6J mice for 16 days, hence eliminating the potential confounding impacts of Doxycycline on the microbiome.

2022-09-14 | GSE202754 | GEO

RNA-seq profiling of murine Tet-off MLL-AF9; NRAS acute myeloid leukemia at different timepoints upon doxycycline-induced MLL-AF9 down-regulation.

Project description:Using an acute myeloid leukemia (AML) mouse model driven by tet-regulated MLL-AF9 (fusion between the gene MLL1 (KMT2A/MLL) and MLLT3 (AF9)) co-expressed with oncogenic NRASG12D (Tet-off MLL-AF9), we investigated the effect of modulating the expression of the MLL-AF9 fusion oncogene on the transcriptome and proteome of established murine AML. Treatment in vitro or in vivo of these Tet-off MLL-AF9 AMLs with doxycycline (DOX) results in the efficient down-regulation of the expression of the driver oncogene MLL-AF9. RNA sequencing analysis was performed on primary Tet-Off MLL-AF9 AML cells obtained from the spleen of leukemic animals and cultured in vitro for either 2 or 4 days in the presence of doxycycline (1μg/ml) (DOX= down-regulation of MLL-AF9) or left untreated (UT).

2021-12-31 | GSE108326 | GEO

Reducing Aspergillus fumigatus virulence through targeted dysregulation of the conidiation pathway

Project description:Inhalation of conidia of the opportunistic mold Aspergillus fumigatus by immunocompromised hosts can lead to invasive pulmonary disease. Inhaled conidia that escape immune defenses germinate to form filamentous hyphae that invade lung tissues. Conidiation rarely occurs during invasive infection of the human host, allowing the bulk of fungal energy to be directed towards vegetative growth. We hypothesized that forced induction of conidiation during infection can suppress A. fumigatus vegetative growth, impairing the ability of this organism to cause disease. To study the effects of conidiation pathway dysregulation on A. fumigatus virulence, a key transcriptional regulator of conidiation (brlA) was expressed under the control of a doxycycline-inducible promoter. Time- and dose-dependent brlA overexpression was observed in response to doxycycline both in vitro and in vivo. Exposure of the inducible brlA overexpression strain to low doses of doxycycline under vegetative growth conditions in vitro induced conidiation, while high doses arrested growth. Overexpression of brlA attenuated A. fumigatus virulence in both an invertebrate and mouse model of invasive aspergillosis. RNA sequencing studies and phenotypic analysis revealed that brlA-overexpression results in altered cell signaling, amino acid and carbohydrate metabolism, including a marked up-regulation of trehalose biosynthesis and a downregulation in the biosynthesis of the polysaccharide virulence factor galactosaminogalactan. This proof-of-concept study demonstrates that activation of the conidiation pathway in A. fumigatus can reduce virulence and suggests that brlA-inducing small molecules may hold promise as a new class of therapeutics for A. fumigatus infection.

2020-01-15 | GSE143601 | GEO

Targeted ErbB3 loss in mammary organoids harvested from ErbB3 DOX-KO mice +/- DOX treatment

Project description:Mammary organoids harvested from ErbB3 DOX-KO mice, which utilize MMTV-Cre transgene expression in the LE to cause genomic recombination at floxed ErbB3 alleles in ErbB3FL/FL were cultured in the presence or absence of doxycycline to induce ErbB3 loss. The gene expression shift following DOX-induced ErbB3 loss in the 3D organoids was examined by microarray. Gene expression patterns were interrogated in mammary organoids from ErbB3 inducible-knockout mice cultured in the presence of absence of doxycycline. Three biological replicates of the experiment were performed, resulting in a total of 6 samples (3 treatment, 3 control).

2012-01-04 | E-GEOD-32129 | biostudies-arrayexpress

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