Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

13 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic analysis of Alishewanella species utilizing pectin as a sole carbon source

ABSTRACT: Comparative transcriptomic analysis of three Alishewanella species utilizing pectin as a sole carbon source Gene expression level of three Alishewanella species grown on pectin was investigated and compared with A. jeotgali grown on succinate

ORGANISM(S): Alishewanella jeotgali

SUBMITTER: Jaejoon Jung

PROVIDER: E-GEOD-45511 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Genomic and Transcriptomic Analysis of NaCl-Tolerant Staphylococcus sp. OJ82 from Fermented Seafood

Project description:Analysis of gene expression of Staphylococcus sp.OJ82 from fermented seafood in salted environment Total RNA obtained from Staphylococcus sp.OJ82 in 1% and 11% NaCl condition

2012-12-19 | E-GEOD-42992 | biostudies-arrayexpress

Acinetobacter oleivorans DR1 : Control vs. norfloxacin treated

Project description:Transcriptional profiling of A. oleivorans DR1 cells comparing control untreated wild type cells with norfloxacin treated wild type cells. To identify genes important for norfloxacin stress response in A. oleivorans DR1, the cells were grown to exponential phase (OD600 ~0.5) and treated with norfloxacin (4?g/ml) over a period of 15 min.

2012-06-04 | E-GEOD-38340 | biostudies-arrayexpress

Acinetobacter oleivorans DR1 : Wild type treated with tetracycline vs. harboring plasmid (pAST2) treated with tetracycline

Project description:Transcriptional profiling of A. oleivorans DR1 cells comparing tetracylcline-treated wild type cells with tetracycline-treated DR1 cell harboring pAST2. To identify genes important for tetracycline stress response in A. oleivorans DR1 and A. oleivorans DR1 harboring pAST2, the cells were grown to exponential phase (OD600 ~0.4) and treated with tetracycline (1μg/ml) over a period of 15 min.

2013-02-21 | E-GEOD-44428 | biostudies-arrayexpress

Acinetobacter oleivorans DR1 : Wild-type cell harboring plasmid (pAST2) in nutrient media

Project description:Transcriptional profiling of A. oleivorans DR1 cells harboring pAST2. Plasmid pAST2 is a tetracycline-resistance plasmid which was isolated from activated sludge (Hong et al., 2014). The complete plasmid sequence was deposited in the National Center for Biotechnology Information (NCBI) GenBank under accession number KC734561 [PMID: 24337108]. Acquisition of TC resistance through plasmid uptake is related to loss of biological fitness and affected host gene expression in oil-degrading soil bacterium, Acinetobacter oleivorans DR1. To identify genes in A. oleivorans DR1 harboring pAST2, the cells were grown to exponential phase (OD600 ~0.4) and total RNA was extracted using an RNeasy Mini kit (Qiagen, USA) following the manufacturer's instructions.

2014-02-22 | E-GEOD-55239 | biostudies-arrayexpress

Acinetobacter oleivorans DR1 : WT stationary phase vs. aqsR mutant stationary phase

Project description:Transcriptional profiling of A. oleivorans DR1 cells comparing wild type stationary phase cells with aqsR mutant stationary phase cells. To identify genes regulated QS system in A. oleivorans DR1, the cells were grown to stationary phase (OD600 >0=2.0).

2013-02-16 | E-GEOD-44347 | biostudies-arrayexpress

Transcriptomic analysis of Alishewanella species utilizing pectin as a sole carbon source

Project description:Comparative transcriptomic analysis of three Alishewanella species utilizing pectin as a sole carbon source

2013-03-29 | GSE45511 | GEO

Acinetobacter oleivorans DR1 : Cell treated Kanamycin 4 M-BM-5g/ml in nutrient media

Project description:Transcriptional profiling of A. oleivorans DR1 treated Kanamycin 4M-BM-5g/ml for 15min . To identify effect of kanamycin in A. oleivornas DR1, the cells were grown to exponential phase (OD600 ~0.4) and treated kanamycin 4M-BM-5g/ml for 15 min.

2014-06-03 | E-GEOD-58167 | biostudies-arrayexpress

Acinetobacter oleivorans DR1 : Cell treated Ampicillin 100 M-BM-5g/ml in nutrient media

Project description:Transcriptional profiling of A. oleivorans DR1 treated Ampicillin 100 M-BM-5g/ml for 15min . To identify effect of ampicillin in A. oleivornas DR1, the cells were grown to exponential phase (OD600 ~0.4) and treated ampicillin 100 M-BM-5g/ml for 15 min.

2014-06-03 | E-GEOD-58166 | biostudies-arrayexpress

A defect in iron uptake enhances the susceptibility of Cryptococcus neoformans to azole antifungal drugs.

Project description:Transcriptome profiling of wild type and cfo1 mutant with fluconazole treatment in Cryptococcus neoformans var. grubii H99 Purpose: The goals of this study are to compare cfo1 mutant transcriptome profiling (RNA-seq) to wild-type with or without fluconazole treatment in Cryptococcus neoformans var. grubii H99. Methods: mRNA profiles of wild-type and cfo1 mutant with or without fluconazole treatment were generated by RNA-Seq, using Illumina GAIIx. The sequence reads that passed quality filters were mapped to reference genome and the normalized RPKM values were calculated by CLC Genomics Workbench. Results: Compared to wild-type, a number of genes were differentially expressed in the cfo1 mutant, especially genes involved in iron homeostasis and transport, ergosterol biosynthesis, mitochondrial function and respiration. Conclusions: Our data suggested reduced expression of the genes in the respiratory chain is the main reason for altered antifungal sensitivity of the cfo1 mutant. The results of our study revealed that iron uptake plays a key role in fluconazole sensitivity of C. neoformans. mRNA profiles of wild-type and cfo1 mutant with fluconazole treatment were generated by RNA-Seq, using Illumina GAIIx.

2013-05-31 | E-GEOD-37875 | biostudies-arrayexpress

Vanillin derivatives triggers oxidative stress and inhibit mitochondrial functions in Cryptococcus neoformans

Project description:Purpose: The purpose of this study is to define the mechanism of antifungal action of the vanillin derivative, o-vanillin, against Cryptococcus neoformans Methods: mRNA profiles of C. neoformasn cells cultured with or without o-vanillin were generated by RNA-Seq, using Illumina GAIIx. The sequence reads that passed quality filters were mapped to reference genome and the normalized RPKM values were calculated by CLC Genomics Workbench. Results: o-vanillin significantly altered global transcript profiles, induces oxidative stress, and interferes mitochondrial functions in C. neoformans. Conclusions: o-vanillin can be considered as the effective antifungal drug candidate. mRNA profiles of the cells grown in the presence or absence of o-vanillin were generated by RNA-Seq using Illumina GAIIx.

2014-10-22 | E-GEOD-52645 | 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