Project description:In this study the transcriptomes of Acinetobacter baumannii strains ATCC 17978 and 17978hm were compared. Strain 17978hm is a hns knockout derivative of strain ATCC 17978. Strain 17978hm displays a hyper-motile phenotype on semi-solid Mueller-Hinton (MH) media (0.25% agar). ATCC 17978 and 17978hm from an 37C overnight culture were transferred to the centre of the semi-solid MH plate and incubated at 37C for 8 hours. Only 17978hm cells displayed a motile phenotype and covered the complete surface of the plate. These motile 17978hm cells and the non-motile wild-type ATCC 17978 cells were harvested and RNA was isolated. The comparative transcriptome analysis was performed using the FairPlay labeling kit and a custom made Agilent MicroArray with probes designed to coding regions of the ATCC 17978 genome. The data was analyzed using Agilent GeneSpring GX9 and the significance analysis of microarray MS Excel add-on.

2013-08-05 | GSE40681 | GEO

Comparative LC/MS-based profiling of L-arginine producing, canavanine resistant Corynebacterium glutamicum strain ATCC 21831 and type strain ATCC 13032

Project description:Corynebacterium glutamicum strain ATCC 21831 is a producer of L-arginine that was created by random mutagenesis. It is resistant to the arginine structural analogue canavanine. In order to identify potential bottlenecks in the biosynthetic pathway that leads to this industrially important amino acid, relative metabolite abundances of biosynthetic intermediates were determined in comparison to the type strain ATCC 13032. An extract of U13C-labeled biomass was used as internal standard, to correct for different ionization efficiencies. Metabolites were identified using the ALLocator web platform.

2015-10-06 | MTBLS128 | MetaboLights

Multiple roles for CodY in the type strain Bacillus cereus ATCC 14579

Project description:Comparison of the B cereus codY deletion mutant with wild type strain (ATCC 14579)

2012-07-05 | GSE31017 | GEO

Expression Data from Acinetobacter baumannii strain ATCC 17978 and isogenic lpsB mutant cells

Project description:lpsB encodes a glycosyltransferase involved in lipopolysaccharide (LPS) synthesis. LPS is a major component of the Gram-negative bacterial outer membranes. We used custom-made Affymetrix A. baumannii strain ATCC 17978 derived GeneChips to compare the gene expression properties of wild type and isogenic lpsB mutant cells. Two mutants were evaluated; A. baumannii strain 5A7 is a ATCC 17978 derivative harboring a transposon (Tn5) within lpsB (A1S_0430 locus); A. baumannii strain containing a deletion of lpsB (A1S_0430).

2012-12-01 | GSE40771 | GEO

Data-dependent acquisition based proteomic analysis of Mycobacterium kansasii ATCC 12478

Project description:Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium kansasii is essential. Therefore, we carried out an in-depth global proteomic experiment using M. kansasii ATCC 12478 strain followed by proteome database search and spectral library generation. The lysate was subjected to in-solution proteomic sample preparation and fractionated using an offline C18 StageTip. Each fraction was acquired in technical triplicates using a 180 min data-dependent acquisition (DDA) method in Orbitrap Fusion Tribrid (Thermo Scientific) mass spectrometer. The resulting raw DDA data were searched against the M. kansasii proteome database using Proteome Discoverer and FragPipe. The resulting peptide spectrum matches were converted into a spectral library using BiblioSpec.

2024-03-07 | PXD040523 | Pride

Data-dependent acquisition based proteomic analysis of Mycobacterium intracellulare ATCC 13950

Project description:Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium intracellulare is essential. Therefore, we carried out an in-depth global proteomic experiment using M. intracellulare ATCC 13950 strain followed by proteome database search and spectral library generation. The lysate was subjected to in-solution proteomic sample preparation and fractionated using an off-line C18 StageTip. Each fraction was acquired in technical triplicates using a 180 min data-dependent acquisition (DDA) method in Orbitrap Fusion Tribrid (Thermo Scientific) mass spectrometer. The resulting raw DDA data were searched against the M. intracellulare proteome database using Proteome Discoverer and FragPipe. The resulting peptide spectrum matches were converted into a spectral library using BiblioSpec.

2024-03-07 | PXD040549 | Pride

Data-dependent acquisition based proteomic analysis of Mycobacterium fortuitum ATCC 6841

Project description:Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium fortuitum is essential. Therefore, we carried out an in-depth global proteomic experiment using M. fortuitum ATCC 6841 strain followed by a proteome database search and spectral library generation. The lysate was subjected to in-solution proteomic sample preparation and fractionated using an offline C18 StageTip. Each fraction was acquired in technical triplicates using a 180 min data-dependent acquisition (DDA) method in Orbitrap Fusion Tribrid (Thermo Scientific) mass spectrometer. The resulting raw DDA data were searched against the M. fortuitum proteome database using Proteome Discoverer and FragPipe. The resulting peptide spectrum matches were converted into a spectral library using BiblioSpec.

2024-03-07 | PXD040567 | Pride

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