Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Multiazole resistance in clinical and environmental fungal isolates

ABSTRACT: Whole genome sequencing of SYBARIS Aspergillus spp. known to be multi-drug resistant and difficult to treat. Aim of this experiment is to investigate the genetic basis of susceptibility to disease and elucidate molecular mechanisms of drug resistance in these strains.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Aspergillus nidulans

SUBMITTER: Michael Bromley

PROVIDER: E-SYBR-1 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Whole genome sequence for S. cerevisiae strains.

Project description:Aim of this project is to characterize colony morphology in the M28 strain, identifying the peculiar genomic traits determining the rough phenotype

2016-04-30 | E-SYBR-10 | biostudies-arrayexpress

Whole genome sequencing to study of pathogenic Candida strains

Project description:Aim of this project is to identify biomarkers associated with persistance of Candida strains in the host and with virulence/pathogenicity of the different strains

2016-04-30 | E-SYBR-9 | biostudies-arrayexpress

DNA-seq of budding yeast hybrid species isolated from the wild and from human-related environment to reconstruct the natural evolution of Saccharomyces spp. evolution, SYBARIS project

Project description:Genomic surveys of yeast hybrid species isolated from the wild and from human-related environment, aimed at the reconstruction of the natural evolution of Saccharomyces spp. evolution

2016-04-30 | E-SYBR-11 | biostudies-arrayexpress

Mistranslation accelerates the adaptation of Candida albicans to Fluconazole

Project description:The leucine CUG codon was reassigned to serine in the fungal pathogen Candida albicans. To clarify the biological role of this tuneable codon ambiguity on drug resistance, we evolved C. albicans strains that were engineered to mistranslate the CUG codon at constitutively elevated levels, in the presence and absence of the antifungal drug fluconazole. Elevated levels of mistranslation resulted in the rapid acquisition of resistance to fluconazole.

2016-10-27 | E-SYBR-13 | biostudies-arrayexpress

DNA-seq of various fungi isolated from faecal materials and environmental samples for comparative genomic analyses, SYBARIS project

Project description:Aim of this project is to perform a comparative genomic study (including all S. cerevisiae sequenced and available) of the variability and evolutionary traits of yeast.

2016-04-30 | E-SYBR-12 | biostudies-arrayexpress

DNA-seq of Candida albians strains engineered with increasing levels of leucine mis-incorporation at CUG codon, SYBARIS project

Project description:The aim of this experiment is to test how atypical codon assignment (in our case Ser and Leu at CUG sites) flexibility can provide an effective mechanism to alter the genetic code. We have reengineered C. albicans strains to mis-incorporate increasing levels of Leu at protein CUG sites.

2016-04-30 | E-SYBR-7 | biostudies-arrayexpress

Whole genome sequence for S. cerevisiae isolates.

Project description:Aim of this project is to identify biomarkers associated with fungal persistence in the host and genomic variability among strains isolated from different environments.

2016-04-30 | E-SYBR-8 | biostudies-arrayexpress

Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation

Project description:To assess variation and inheritance of genome-wide patterns of DNA methylation simultaneously in humans, we applied reduced representation bisulfite sequencing (RRBS) to somatic DNA from six members of a three-generation family. Reduced representation bisulfite sequencing was applied to genomic DNA from leukocytes of 6 family members and two unrelated individuals.

2011-07-01 | E-GEOD-30253 | biostudies-arrayexpress

Combining transcriptome and proteome analysis to identify and characterize the RpoS regulon in Pseudomonas fluorescens

Project description:Background: Microorganisms are the major cause of food spoilage during storage, processing and distribution. Pseudomonas fluorescens is a typical spoilage bacterium that contributes to a large extent to the spoilage process of proteinaceous food. RpoS is considered an important global regulator involved in stress survival and virulence in many pathogens. Our previous work revealed that RpoS contributed to the spoilage activities of P. fluorescens by regulating resistance to different stress conditions, extracellular acylated homoserine lactone (AHL) levels, extracellular protease and total volatile basic nitrogen (TVB-N) production. However, RpoS-dependent genes in P. fluorescens remained undefined. Results: RNA-seq transcriptomics analysis combined with quantitative proteomics analysis basing on multiplexed isobaric tandem mass tag (TMT) labeling was performed for the P. fluorescens wild-type strain UK4 and its derivative carrying a rpoS mutation. A total of 375 differentially expressed genes (DEGs) and 212 differentially expressed proteins (DEPs) were identified in these two backgrounds. The DGEs were further verified by qRT-PCR tests, and the genes directly regulated by RpoS were confirmed by 5’-RACE-PCR sequencing. The combining transcriptome and proteome analysis revealed a role of this regulator in several cellular processes, including polysaccharide metabolism, intracellular secretion and extracellular structures, cell well biogenesis, stress responses, ammonia and biogenic amine production, which may contribute to biofilm formation, stress resistance and spoilage activities of P. fluorescens. Moreover, in this work we indeed observed that RpoS contributed to the production of the macrocolony biofilm’s matrix.

2019-11-12 | PXD010845 | Pride

Arabidopsis EDM2 Promotes IBM1 Distal Polyadenylation and Regulates Genome DNA Methylation Patterns [BS-Seq]

Project description:A forward genetics screen led to the identification of the putative chromatin regulator EDM2 as a cellular anti-silencing factor and regulator of genome DNA methylation patterns. EDM2 contains a composite PHD finger domain that recognizes both active H3K4 and repressive H3K9 methylation marks at the intronic repeat elements in genes such as the histone H3K9 demethylase gene IBM1, and is necessary for maintaining the expression of these genes by promoting mRNA distal polyadenylation. Because of its role in maintaining IBM1 expression, EDM2 is required for preventing CHG methylation in the bodies of thousands of genes.Our results thus increase the understanding of anti-silencing, genome methylation patterns, and regulation of alternative RNA processing by intronic heterochromatin. Col-0 and edm2-4 total genomic DNAs are extracted from leaves and then subjected to bisulfite convertion and sequencing in accordance with standard protocol.

2013-10-29 | E-GEOD-51762 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data