Direct genome sequencing of Coxiella burnetti from clinical samples
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PROVIDER: PRJEB21559 | ENA |
REPOSITORIES: ENA
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Project description:Q fever is due to Coxiella burnetii, an obligate intracellular bacterium. We investigated the mechanism of establishment of chronic form of the Q fever that mainlym anifested by endocarditis. We showed that patients with acute Q fever and valvulopathy, who have the higher risk to develop an endocarditis, exhibited high levels of circulating apoptotic cells. We further investigated the effect of the uptake of dead cells on the intracellular fate of the bacterium and the immune response of monocytes and macrophages.
2008-10-09 | E-MEXP-1289 | biostudies-arrayexpress
Project description:Transcriptional profiling of Coxiella burnetii phase I (RSA 493) submitting either to Cold and Heat shock comparing to control untreated Coxiella burnetii phase I (RSA 493) grown at 35°C.
2011-01-01 | GSE21778 | GEO
Project description:Genotyping based on genomic comparative hybridization of different isolates of coxiella burnetii compared to NMI reference strain
2011-12-31 | GSE31543 | GEO
Project description:Infective endocarditis is a severe disease caused by the infection of heart valves and endocardium by pathogenic germ. Antimicrobial therapy and surgery remain the basis of treatment, and up to 50% of the patients require surgical replacement of the affected valves to control the infectious source. The objective of this work is to identify the existence of endotypes in a prospective cohort of patients with infective endocarditis. We performed a bulk RNA-seq form peripheral blood to cluster patients according to their transcriptomic profiles at diagnosis and during their follow-up. Clinical data, outcomes and response to surgery were assessed in a cluster-specific manner, in order to identify differences in the pathogenesis that could help to find personalized treatments and improve the outcome.
2023-08-08 | GSE240319 | GEO
Project description:Infective endocarditis is a severe disease caused by the infection of heart valves and endocardium by pathogenic germ. Antimicrobial therapy and surgery remain the basis of treatment, and up to 50% of the patients require surgical replacement of the affected valves to control the infectious source. The objective of this work is to identify the existence of endotypes in a prospective cohort of patients with infective endocarditis. We performed a bulk RNA-seq form peripheral blood to cluster patients according to their transcriptomic profiles at diagnosis and during their follow-up. Clinical data, outcomes and response to surgery were assessed in a cluster-specific manner, in order to identify differences in the pathogenesis that could help to find personalized treatments and improve the outcome.
2023-08-08 | GSE240320 | GEO
Project description:Transcriptional profiling of Coxiella burnetii phase I (RSA 493) submitting either to Cold and Heat shock comparing to control untreated Coxiella burnetii phase I (RSA 493) grown at 35°C. Four experiments : Cold shock 30 min Vs 35°C; Cold shock 60 min Vs 35°C; Heat shock 30 min Vs 35°C; Heat shock 60 min Vs 35°C 3 biological replicates, independently grown and harvested. Four replicate per array.
2011-01-01 | E-GEOD-21778 | biostudies-arrayexpress
Project description:New insights into valve-related intramural and intracellular bacterial diversity in infective endocarditis
| PRJEB19021 | ENA
Project description:The inability to propagate obligate intracellular pathogens under axenic (host cell-free) culture conditions imposes severe experimental constraints that have negatively impacted progress in understanding pathogen virulence and disease mechanisms. Coxiella burnetii, the causative agent of human Q (Query) fever, is an obligate intracellular bacterial pathogen that replicates exclusively in an acidified, lysosome-like vacuole. To define conditions that support C. burnetii growth, we systematically evaluated the organismâ??s metabolic requirements using expression microarrays, genomic reconstruction, and metabolite typing. This led to development of a complex nutrient medium that supported substantial growth (~ 3 log10) of C. burnetii in a 2.5% oxygen environment. Importantly, axenically grown C. burnetii were highly infectious for Vero cells and exhibited developmental forms characteristic of in vivo grown organisms. Axenic cultivation of C. burnetii will facilitate studies of the organismâ??s pathogenesis and genetics, and aid development of Q fever preventatives such as an effective subunit vaccine. Furthermore, the systematic approach used here may be broadly applicable to development of axenic media that support growth of other medically important obligate intracellular pathogens. Host cell-free growth, Vero cell growth and carryover baseline of Coxiella burnetii
2010-06-20 | E-GEOD-13338 | biostudies-arrayexpress
Project description:Genotyping based on genomic comparative hybridization of different isolates of coxiella burnetii compared to NMI reference strain Two-condition experiment, NMI vs. isolates. One replicate per isolate.
2011-12-31 | E-GEOD-31543 | biostudies-arrayexpress
Project description:BackgroundM-bM-^@M-^TDiagnosis and pronostic assessment are challenging in infective endocarditis (IE). To investigate the host response during IE and identify potential biomarkers, we determined the circulating gene expression profile through a whole genome microarray analysis. Methods and ResultsM-bM-^@M-^TA transcriptomic case-control study was performed on blood samples from patients with native valve IE (n=39), excluded IE after an initial suspicion (n=10) at patientM-bM-^@M-^Ys admission, and age-matched healthy controls (n=10). The whole genome microarray analysis showed that patients with IE exhibited a specific transcriptional program with a predominance of gene categories associated with cell activation, innate immune and inflammatory responses. These categories were organized in a dense network from which arose numerous subnetworks including major histocompatibily complex and natural killer cell network, type 1 interferon pathway and intracellular traffic. Quantitative real-time RT-PCR performed on a selection of highly modulated genes showed that the expression of the gene encoding S100 calcium binding protein A11 (S100A11) was significantly increased in patients with IE in comparison with controls (P<0.001) and patients with excluded IE (P<0.05). Interestingly, the upregulated expression of S100A11 gene was more pronounced in staphylococcal IE than in streptococcal IE (P<0.01). These results were confirmed by serum concentrations of the S100A11 protein. Finally, we showed that, in patients with IE, the upregulation of aquaporin-9 gene (AQP9) was significantly related to the occurrence of acute heart failure (P=0.02). ConclusionsM-bM-^@M-^T Using transcriptional signatures of blood samples, we identified S100A11 as a potential diagnostic marker of IE. In addition, the determination of AQP9 may improve the prognostic assessment of IE. The transcriptomic case-control study was performed in 39 consecutive patients with native valve IE (IE group) diagnosed by a multidisciplinary team who applied the modified Duke criteria,12 10 patients admitted for a suspicion of IE but with a final excluded IE diagnosis. Ten IE patients and five controls were arbitrary selected and investigated with microarrays.
2012-03-12 | E-GEOD-29161 | biostudies-arrayexpress