Project description:The purpose of this study is to determine whether the presence of pathogenic Escherichia coli in colon is associated with psychiatric disorders.
Project description:Despite the characterization of many aetiologic genetic changes. The specific causative factors in the development of sporadic colorectal cancer remain unclear. This study was performed to detect the possible role of Enteropathogenic Escherichia coli (EPEC) in developing colorectal carcinoma.
Project description:Counting DNA reads using whole genome sequencing is providing new insight into DNA double-strand break repair (DSBR) in the model organism Escherichia coli. We describe the application of RecA chromatin immunoprecipitation coupled to genomic DNA sequencing (RecA-ChIP-seq) and marker frequency analysis (MFA) to analyse the genomic consequences of DSBR.
Project description:Escherichia coli (E. coli) amine oxidase (ECAO) encoded by tynA gene has been one of the model enzymes to study the mechanism of oxidative deamination of amines to the corresponding aldehydes by amine oxidases. The biological roles of ECAO have been less addressed. Therefore we have constructed a gene deletion Escherichia coli K-12 strain, E. coli tynA-, and used the microarray technique to address its function by comparing the total RNA gene expression to the one of the wt. Our results suggest that tynA is a reserve gene for stringent environmental conditions and its gene product ECAO a growth advantage compared to other bacteria due to H2O2 production.
Project description:Counting DNA reads using whole genome sequencing is providing new insight into DNA double-strand break repair (DSBR) in the model organism Escherichia coli. We describe the application of RecA chromatin immunoprecipitation coupled to genomic DNA sequencing (RecA-ChIP-seq) and marker frequency analysis (MFA) to analyse the genomic consequences of DSBR.
Project description:The goal of this study is to compare gene expression data for a well known model organism (Escherichia coli) using different technologies (NGS here, microarray from GSE48776).
Project description:Transcriptome analysis plays a central role in elucidating the complexity of gene expression regulation in Escherichia coli. By analyzing the transcriptomics of E. coli treated with water, acetone, and Cinnamomum camphora essential oil, the inhibitory mechanism of the essential oil on the human intestinal microbe was studied. The results showed that the inhibitory effect of the essential oil on E. coli increased with an increase in concentration; 1/4 minimum inhibitory concentration was the reaction equilibrium point. RNAseq transcriptomic comparison indicated that the essential oil inhibited the growth of E. coli by inhibiting the metabolism, chemotaxis, and some resistance reactions of them, while E. coli maintained its life activities by enhancing its resistance reactions. These results are of great importance to the study of the medical use of C. camphor essential oil and gene regulation in E. coli under stress conditions.
Project description:The experiment contains native Tn-seq data for Escherichia coli strain MG1655. The strain was grown at 37 degrees in LB medium and genomic DNA was isolated. We then used PCR to select for DNA regions containing a junction between insH3 and chromosomal DNA. Libraries were then prepared using these DNA fragments.