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| Status |
Public on Jul 31, 2023 |
| Title |
Tyrosol-3. |
| Sample type |
SRA |
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| Source name |
fungal cells
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| Organism |
Candidozyma auris |
| Characteristics |
tissue: fungal cells
strain: Isolate 12
treatment: Tyrosol treated
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| Treatment protocol |
15 mM tyrosol treated and untreated exponentially growing phase cultures
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| Growth protocol |
YPDA medium (1% yeast extract, 2% mycological peptone, 2% glucose, 2% agar, pH 5.6)., 140 rpm, 37 °C
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from lyophilized samples with Trisol reagent.
RNA libraries for RNA-seq were prepared using TruSeq RNA Sample preparation kit (Illumina) following manufacturer's protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
The FastQC package (http://www.bioinformatics.babraham.ac.uk/projects/fastqc) was used for quality control.
Reads were aligned to the genome of C. auris B8441
The DESeq algorithm (StrandNGS software) was used to obtain normalized gene transcription values.
Gene transcription differences between treated and control groups were compared by a moderated t test; the Benjamini-Hochberg false discovery rate was used for multiple-testing correction, and a corrected P value of <0.05 was considered significant.
Assembly: genome: https://fungi.ensembl.org/_candida_auris_gca_002759435/Info/Index; features: http://www.candidagenome.org/download/gff/C_auris_B8441/archive/C_auris_B8441_version_s01-m01-r11_features_with_chromosome_sequences.gff.gz
Supplementary files format and content: excell file includes p corrected values, p values, fold change values and raw data for each Sample
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| Submission date |
Jan 29, 2023 |
| Last update date |
Jul 31, 2023 |
| Contact name |
Agnes Jakab |
| E-mail(s) |
jakab.agnes@med.unideb.hu
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| Organization name |
University of Debrecen
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| Street address |
Nagyerdei krt 98.
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| City |
Debrecen |
| ZIP/Postal code |
4032 |
| Country |
Hungary |
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| Platform ID |
GPL24811 |
| Series (1) |
| GSE223953 |
Total transcriptome analysis of Candida auris planktonic cells exposed to tyrosol |
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| Relations |
| BioSample |
SAMN32953580 |
| SRA |
SRX19210383 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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