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RNA-seq Analysis of Wild-Type and G898D UPC2A Transcriptomes [G898D UPC2A transcriptome]

ABSTRACT: RNA-seq Analysis of Wild-Type and G898D UPC2A Transcriptomes [G898D UPC2A transcriptome]

PROVIDER: PRJNA756364 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15532683_1.fastq.gz	Fastqsanger.gz
	SRR15532683_2.fastq.gz	Fastqsanger.gz
	SRR15532684_1.fastq.gz	Fastqsanger.gz
	SRR15532684_2.fastq.gz	Fastqsanger.gz
	SRR15532685_1.fastq.gz	Fastqsanger.gz

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RNA-seq Analysis of Wild-Type and G898D UPC2A Transcriptomes [G898D UPC2A transcriptome]

Project description:Purpose: Determine the number of genes that respond to the presence of a gain-of-function mutant form of the UPC2A transcription factor in Candida glabrata. Methods: Prepare total RNA from wild-type and gain-of-function G898D UPC2A cells. Use standard RNA-seq to evaluate and compare the transcriptomic changes caused by this allele of UPC2A. Results: Although a clear increase was seen in fluconazole resistance conferred by the G898D UPC2A allele, elevated transcription was only observed for 11 genes with 9 of these involved in ergosterol biosynthesis. Conclusions: The presence of the G898D UPC2A allele led to elevated constitutive transcription for genes involved in ergosterol biosynthesis.

2021-09-23 | GSE182490 | GEO

RNA-sequencing analysis of fluconazole-treated wild-type and upc2A null cells [Fluconazole]

Project description:Purpose: Compare the fluconazole-induced transcriptome of isogenic wild-type and upc2A null cells. Methods: Prepare total RNA from wild-type and upc2A null cells grown under unstressed conditions or challenged with 50 microgram/ml fluconazole for 6 hours. Use standard RNA-seq to evaluate and compare the transcriptomic changes caused by fluconazole in the presence or absence of UPC2A. Results: These data established that over 100 genes were induced by fluconazole in a UPC2A-dependent manner. However, most fluconazole-induced genes (>500) did not require the presence of UPC2A. Fluconazole-induced genes included the expected genes involved in ergosterol biosynthesis but also large number of plasma membrane-localized transporters. Conclusions: These data suggest that Upc2A provided transcriptional co-regulation between membrane transporters and the lipid environment in which these proteins function. A significant portion of the fluconazole-induced transcriptome does not require the presence of Upc2A, suggesting the presence of other transcriptional circuits responsive to this pharmacologic block of ergosterol biosynthesis.

2021-09-23 | GSE182489 | GEO

ChIP-seq analysis of transcription factor Upc2A binding across the Candida glabrata genome [Upc2A ChIP-seq]

Project description:To determine the genomic binding sites for the Candida glabrata transcription factor Upc2A, we utilized three different strains. One was the wild-type KKY2001 which contains a wild-type copy of UPC2A but lacks any HA tag. The other two are both derived from KKY2001 but contain a 3X HA tag immediately after the start codon of UPC2A. These strains are BVGC82 and BVGC84, respectively. Both contain a single copy of a loxP element located 252 bp downstream from the UPC2A stop codon. BVGC82 contains a wild-type copy of the UPC2A gene while BVGC84 contains a mutant form of UPC2A (G898D) that confers elevated resistance to fluconazole. ChIP was performed with anti-HA antibodies in all cases. Strains containing the wild-type UPC2A gene (no HA tag) are referred to as C1 and C2. Strains containing the 3X HA epitope tag at the N-terminus of the wild-type UPC2A gene are referred to as wt1 and wt2. These same strains challenged with fluconazole prior to ChIP are referred to as wtf1 and wtf2. The strain containing the G898D UPC2A allele are referred to as M1 and M2 (no fluconazole challenge) and MF1 and MF2 (with fluconazole challenge.

2021-09-23 | GSE182488 | GEO

RNA-sequencing analysis of fluconazole-treated wild-type and upc2A null cells [Fluconazole]

Project description:RNA-sequencing analysis of fluconazole-treated wild-type and upc2A null cells [Fluconazole]

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Analysis of Wild Type and MFN2-/- Macrophage Transcriptomes

Project description:Analysis of Wild Type and MFN2-/- Macrophage Transcriptomes

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Analysis of Wild Type and Whsc1-/- small intestine Transcriptomes

Project description:Analysis of Wild Type and Whsc1-/- small intestine Transcriptomes

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Quantitative analysis of wild type and set2 mutant transcriptomes

Project description:Quantitative analysis of wild type and set2 mutant transcriptomes

| PRJNA805230 | ENA

RNA-seq analysis of Wild Type and Mll5-/- Retinal Transcriptomes

Project description:RNA-seq analysis of Wild Type and Mll5-/- Retinal Transcriptomes

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Analysis of Wild Type and Leptin-overexpressing Pig PBMC Transcriptomes

Project description:Analysis of Wild Type and Leptin-overexpressing Pig PBMC Transcriptomes

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RNA-seq analysis of Wild Type and Mll5-/- Retinal Transcriptomes

Project description:Analysis of differential gene expression in wild type vs Mll5-/- Retinal Transcriptomes. The aim is to identify potential genes that are regulated by MLL5.

2022-02-20 | GSE196935 | GEO

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