Ontology highlight
ABSTRACT:
PROVIDER: PRJEB18877 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Acidiphilium rubrum ATCC 35905 genome sequencing
| PRJNA329872 | ENA
Project description:To study the mechanisms of Ni resistance in the metal resistant Acidiphilium sp. PM, the transcriptome of Acidiphilium sp. PM was studied 5min and 30 min after the addition of 10mM Ni and compared to the transcriptome in untreated cells.
2013-06-18 | GSE48042 | GEO
Project description:Acidiphilium angustum ATCC 35903 Genome sequencing and assembly
| PRJNA223034 | ENA
Project description:In order to investigate the physiological and biochemical characteristics and molecular mechanisms during the leaf colour change of Acer rubrum L, this study used Acer rubrum L. 'Autumn Blaze' cuttings as material and analysed the transcriptome and miRNAs of Acer rubrum L leaves under different light and temperature treatments. The transcriptome and miRNAs of Acer rubrum L leaves were analysed under different light and temperature treatments, and miRNA-mRNA association analysis was performed for the differentially expressed mRNAs and miRNAs.
2023-03-02 | GSE226127 | GEO
Project description:A cDNA microarray was constructed from the expressed sequence tags (ESTs) of different developmental stages, and comparative genome hybridization based on microarray procedures were carried out. Dermatophyte species are classified into three genera: Epidermophyton, Microsporum, and Trichophyton. To determine the relationship between these three groups comparative genome hybridization were used in our experiment. Trichophyton rubrum genmic DNA was reference DNA and labelled by Cy3 while the other dermatophytes genomic DNA were test DNA and labelled by CY5. Test and reference DNA were co-hybridized with the T. rubrum cDNA microarray and the numbers of genes shared between each species and T. rubrum were determined. Keywords: Comparative Genomic Hybridization
2010-05-04 | GSE7909 | GEO
Project description:Acidiphilium sp. C61 cultures were cultivated in APPW+YE+Glucose medium with 0 µM or 10 µM PEA. RNA was extracted and library preparation was done using the NEBNext Ultra II directional RNA library prep kit for Illumina. Data was demultiplied by GATC sequencing company and adaptor was trimmed by Trimgalore. After trimming, data was processed quality control by sickle and mRNA was sorted by SortmeRNA. mRNA transcripts were mapped to the assembled genome of Acidiphilium sp. C61 and read counts table was produced by featurecounts. Differential gene expression analysis was done by edgeR package.
2020-03-01 | E-MTAB-8619 | biostudies-arrayexpress
Project description:Trichophyton rubrum, an anthropophilic and cosmopolitan fungus, is the most common agent of superficial mycoses, causing rarely deep dermatophytosis in immunocompromised hosts. In this study, an infection condition of T. rubrum was modeled by adding human skin sections into a limited medium containing glucose to monitor T. rubrum gene expression patterns using cDNA microarrays on a global level. We found that exposure to human skin resulted in up-regulation of the expression levels of T. rubrum genes related to many cellular and biological processes, including transcription and translation, metabolism and secondary transport, stress response, and signaling pathways. These results provide a reference set of T. rubrum genes whose expression patterns change upon infection and reveal previously unknown genes that probably corresponding to proteins that should be considered as virulence factor candidates and potential new drug targets for T. rubrum infections.
2011-10-02 | E-GEOD-15532 | biostudies-arrayexpress
Project description:In the present study, the susceptibility of the purple pigmented photosynthetic alphaproteobacterium Rhodospirillum rubrum S1H to gamma irradiation was investigated and its molecular response was characterised by means of gene expression analysis. R. rubrum S1H appears to be about 4 times more sensitive than the model strain Escherichia coli MG1655 to cobalt-60 gamma irradiation. Whole genome response of R. rubrum to 25 Gy revealed the common expression of SOS response related genes in both rich and minimal media. Quantitative expression of the lexA gene was followed after various recovery time following gamma irradiation and showed differential gene expression pattern between minimal and rich medium. This work paves the way for forthcoming molecular studies on the effect of ionizing radiation on R. rubrum S1H and the other MELiSSA strains. Keywords: Rhodospirillum rubrum; ionizing radiation tolerance; microarray; quantitative PCR.
2015-11-10 | GSE23799 | GEO
Project description:Purpose: Evaluate the effect of terbinafine in T. rubrum gene expression using a co-culture model in conjunction with RNA-seq Methods: T. rubrum and HaCat cells line were co-cultured in RPMI medium supplemented with 5% of fetal bovine serum and treated with 0.0162 µM of terbinafine.The co-culture was incubated for 24 h at 37ºC in a humidified atmosphere containing 5% CO2 , followed RNA by extraction of both organisms, libraries construction and sequence. Results: Our data demonstrated the modulation of several T. rubrum genes involved in the biosynthesis of ergosterol in addition to the target gene of terbinafine that is already known, genes encoding MFS- and ABC-type membrane transporters that are associated with the phenomenon of multidrug resistance, genes that have been discussed in the literature as possible novel targets for antifungal compounds and genes which do not have a known function in T. rubrum yet, but have been modulated in response to the drug. Conclusions: RNA-seq sequencing of the T. rubrum co-culture in the presence of terbinafine showed that several genes of the ergosterol biosynthesis cascade were repressed. We highlight the induction of transmembrane transporters, which may be associated with the efflux of this allylamine. In addition, other genes that could be involved in the pathogenicity of T. rubrum were also modulated in the presence of the drug. In addition, we observed the modulation of hypothetical genes with still unknown functions in T. rubrum but that possess orthologs in other dermatophytes.
2019-11-28 | GSE135095 | GEO