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SRX6385646: GSM3912998: III_KO3_Treated; Candida albicans; RNA-Seq
1 ILLUMINA (NextSeq 500) run: 23.4M spots, 1.8G bases, 626.2Mb downloads

Submitted by: NCBI (GEO)
Study: Deletion of the fungus specific protein phosphatase Z1 exaggerates the consequences of oxidative stress elicited by tert-butyl-hydroperoxide in Candida albicans (RNAseq data set)
show Abstracthide Abstract
Candida albicans is an opportunistic pathogen which is responsible for widespread nosocomial infections. It encompasses a fungus specific serine/threonine protein phosphatase gene CaPPZ1 that is involved in cation transport, cell wall integrity, oxidative stress response, morphological alterations, and virulence. We demonstrated that tert-butyl-hydoperoxide induced oxidative stress suppressed the growth rate and blocked the proliferation of the fungal cells without effecting their viability, both in the cappz1 KO mutant and in the genetically matching QMY23 control strains. To reveal the gene expression changes behind the above observation we carried out a global transcriptome analysis by DNA microarray hybridization as well as RNA sequencing, and confirmed our results by quantitative RT-PCR. The numbers of genes affected and the amplitudes of the transcript-level changes revealed that the deletion of CaPPZ1 enhances the effects of oxidative stress. Thus the roles of this fungus specific protein phosphatase in important physiological processes like membrane transport, cell surface interactions, oxidoreductase activity, cell signaling, translation, and RNA processing becomes more pronounced under oxidative conditions. We conclude that in the wild type C. albicans CaPPZ1 has a protective role against oxidative damage, and suggest that the specific inhibition of this phosphatase combined with mild oxidative treatment could be a feasible approach of topical antifungal therapy. Overall design: Examination of untreated and 0.4 mM tBOOH-treated control and cappz1 mutant Candida albicans cultures in three- three replicates.
Sample: III_KO3_Treated
SAMN12173005 • SRS5045154 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Freeze- lyophilized cells were processed using TRISOL reagent (Invitrogen, Austria) reagent (Chomczynski BioTechniques. 1993; 15:536–7.) and glass beads. RNA concentration and purity were determined using NanoDrop (Thermo Scientific) and by Bioanalyser (Agilent) using Eukaryotic Total RNA Nano Kit according to the manufacturer's protocol. RNA-Seq libraries were prepared from total RNA using TruSeq RNA Sample preparation kit (Illumina, San Diego, CA, USA) according to the manufacturer's protocol. Briefly, poly-A RNAs were captured by oligo-dT conjugated magnetic beads then the eluted mRNAs were fragmented at 94°C. First strand cDNA was generated by random priming reverse transcription; double stranded cDNA was generated in a second strand synthesis step. After repairing ends, A-tailing and adapter ligation steps, adapter-ligated fragments were amplified in enrichment PCR and finally sequencing libraries were generated. Sequencing libraries were normalized to the same molar concentration and pooled together. Library pool was sequenced on NextSeq500 instrument (Illumina, San Diego, CA, USA) generating single read 75bp-long sequencing reads. Fastq files were generated automatically after the sequencing run by Illumina BaseSpace.
Links:
Runs: 1 run, 23.4M spots, 1.8G bases, 626.2Mb
Run# of Spots# of BasesSizePublished
SRR962312523,417,9661.8G626.2Mb2019-11-07

ID:
8458714

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