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.
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.
Project description:Comparative genomic hybridization microarrays featuring overlapping probes spanning the entire C. botulinum type A1 strain ATCC 3502 genome were used to identify regions whose presence are variable among a diverse panel of type A C. botulinum strains.
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).
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. The motile 17978hm cells and the non-motile wild-type ATCC 17978 cells were harvested and RNA was isolated. The comparative transcriptome analysis was performedThe probes on the microarray cover all predicted open reading frames (at least 4 per ORF) and additional replicates of housekeeping genes of the A. baumannii ATCC 17978 genome .
Project description:Purpose:first,we want to find the genes revelant to curdlan synthesis and oxygen regulation, second, we want to research the function of fnrN gene in Agrobacterium sp. ATCC 31749. Method: samples of cell growth phase, curdlan-producing phase (normoxia) and curdlan-producing phase (micro-oxygen treated) in both Agrobacterium sp. ATCC 31749 wild strain and ΔfnrN strain were collectecd to extract mRNA. Each sample was treated in duplicate. The softwares we used include fastqc, trimmomatic, TopHat2 and Cufflinks. Illumina Hiseq4000 was used to complete the research.
Project description:Investigation of whole genome gene expression level changes in Yersinia intermedia strain ATCC 29909 in response to oxygen. The experiments and results have not been published yet (manuscript has been submitted to journal office and is under revision)
Project description:Comparative genomic hybridization microarrays featuring overlapping probes spanning the entire C. botulinum type A1 strain ATCC 3502 genome were used to identify regions whose presence are variable among a diverse panel of type A C. botulinum strains. For each hybridization, the reference strain (C. botulinum ATCC 3502) was labeled with Cy5 and test strains were labeled with Cy3.
Project description:S. aureus ATCC 25923 is performance standard for antimicrobial susceptibility testing. S. aureus ATCC 33591 showed resistance against erytrhromycin, penicillin, and streptomycin. We used microarray to compare RNA expression between sensitive and resistant strain of S. aureus as a preliminary research for MRSA inhibition.