Project description:Use of whole-genome sequencing of Vibrio cholerae O1 isolates to assist the epidemiological investigation of a cholera outbreak in Zimbabwe, 2018

| PRJEB32770 | ENA

paratyphoid fever outbreak investigation

Project description:investigate the paratyphoid fever outbreak caused by Salmonella enterica serovar Paratyphi A with genome resequencing

| PRJEB6350 | ENA

RNA-seq to investigate differential expression of serotype emm1 Streptococcus pyogenes strains S119 and S126

Project description:The human pathogen Streptococcus pyogenes, or group A streptococcus, is responsible for mild infections to life-threatening diseases. We previously have performed the transcription start site profiling of a Streptococcus pyogenes emm1 strain, strain S119, an invasive strain isolated from a blood culture. Here, we perform strand-specific RNA-seq experiments to complete this characterization and analyze the global coverage and the differential expression in growth medium complemented or not with 15 mM MgCl2. In addition we compare these results to those obtained with a related strain, strain S126, corresponding to a colonization sample, that differs from S119 by only one mutation in the two-component regulator of virulence CovRS.

2018-11-30 | E-MTAB-7101 | biostudies-arrayexpress

Transcriptional profiling of 2 outbreak strains of E. coli O157:H7 following exposure to epithelial cells

Project description:Two outbreak strains of E. coli O157:H7 differ phylogenetically, in gene content, and in epidemiological characteristics. The working hypothesis in this experiment was that these strains will also differ in the transcription of shared virulence genes. Indeed, following a 30 minute exposure to epithelial cells, strain TW14359 overexpressed major and ancillary virulence genes, relative to strain Sakai. E. coli O157:H7 strains were physiologically normalized by growth to stationary phase, twice, in MOPS minimal media. Cultures were then transferred to DMEM media for adaptation. After 3 h of growth in DMEM, O157:H7 cultures were used to infect monolayers of MAC-T epithelial cells. 30 min following incubation, aliquots of suspended, non-adherent bacteria were used for RNA extraction. Five biological replications of the experiment were performed with each strain and, together with dye-swaps, 10 array hybridizations were carried out. Array data were fitted to a mixed model ANOVA using the following linear model: array+dye+sample (biological replicate)+strain+error.

2010-05-05 | E-GEOD-17389 | biostudies-arrayexpress

IPD outbreak 2019

Project description:Outbreak of invasive pneumococcal disease connected to shipyard, Finland, May-October 2019

| PRJEB35348 | ENA