Project description:Transcriptome profiles for Clostridium thermocellum ATCC 27405 wild type strain and two ethanol-adapted strains, E50A and E50C were generated to gain insights into ethanol tolerance. Details of the strains have been described, Shao X., et al. Appl Microbiol Biotechnol (2011) 92:641–652.
Project description:Purpose: The purpose of this study is to clarify the response of Clostridium perfringens ATCC 13124 to host polysaccharide. Methods: Clostridium perfringens ATCC 13124 cells were cultured anaerobically in a medium containing Minimal medium-like condition Poor + medium, medium in which hyaluronic acid or mucin was added to Poor + medium. Total RNA was extracted from bacterial cells by the Hot-Phenol method. Samples for RNA-seq were prepared according to the Illmina protocol available from the manufacturer. Array leads passed through quality filters were analyzed at the transcript isoform level using bowtie v 1.1.2. Results: Using the optimized data analysis workflow, we mapped about 50 million sequence leads per sample to the whole genome of Clostridium perfringens ATCC 13124. In addition, 2735 transcripts in C. perfringens ATCC 13124 were identified using a Bowtie aligner. Lead counts per genome were extracted from known gene annotations using the HTSeq program.
Project description:Determine overall gene expression profiles; RNA expression observed in stationary relative to exponential phase cells of strain Clostridum thermocellum (ATCC 27405) grown on cellobiose; Comparative RNA expression of 3 Clostridium thermocellu strains (DSM 1237, 2650, and 4150) grown to mid exponential phase on cellobiose; Verify whether observed differences in fermentation end-product ratios are reflected in differences in RNA expression profiles. RNA-seq data will be compared with the same experiments performed with proteomic experiments; Compare gene expression across relative strains.
Project description:Clostridium botulinum ATCC 3502 was grown in continuous culture at 39°C, subjected to heat shock at 45°C, and then continuously grown at 45°C. The goal was to determine the impact of stressful temperature to the whole genome expression profile and identify stress adaptation mechanisms.
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.
