Ontology highlight
ABSTRACT:
PROVIDER: PRJNA866303 | ENA |
REPOSITORIES: ENA
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Project description:Bdellovibrio bacteriovorus HD100 is a predatory bacterium which attacks a wide range of gram negative bacterial pathogens and is proposed to be a potential living antibiotic. In the current study, we evaluated the effects of indole, a bacterial signaling molecule commonly produced within the gut, on the predatory ability of B. bacteriovorus HD100. Indole significantly delayed predation on E. coli MG1655 and S. enterica KACC 11595 at physiological concentrations (0.25 to 1 mM) and completely inhibited predation when present at 2 mM. Microscopic analysis revealed that indole blocked the predator from attacking the prey. Furthermore, indole was not toxic to the predator but slowed down its motility. Microarray and RT-qPCR analyses confirmed this as the gene group showing the greatest down-regulation in the presence of 1 and 2 mM indole was flagellar assembly and motility genes. Aside from this group, indole also caused a wide spectrum changes in gene expression including the general down-regulation of genes involved in ribosome assembly and RNA translation. Furthermore, indole addition to the predatory culture after the entrance of B. bacteriovorus into the prey periplasm slowed down bdelloplast lysis. In conclusion, indole is an important gut-related signaling molecule that can have significant impacts on the predation efficiency and predator behavior. These findings should be taken into consideration especially if B. bacteriovorus is to be applied as a probiotic or living antibiotic. Bdellovibrio bacteriovorus HD100 was incubated for 30 min at 30°C in HEPES buffer supplemented with 0,1, and 2 mM indole. RNA was then extracted from each sample and purified. 100 ng of RNA from each sample were used for microarray experiment. For zero and 1 mM indole treatments, three independant samples were tested while for 2 mM indole treatment, two samples were tested. A total of 8 arrays were used.
2013-11-19 | E-GEOD-52455 | biostudies-arrayexpress
Project description:The transcriptional response of E. coli being predated by Bdellovibrio bacteriovorus Keywords: Transcriptional analysis
2009-12-09 | GSE9495 | GEO
Project description:Bdellovibrio bacteriovorus HD100 is a predatory bacterium which attacks a wide range of gram negative bacterial pathogens and is proposed to be a potential living antibiotic. In the current study, we evaluated the effects of indole, a bacterial signaling molecule commonly produced within the gut, on the predatory ability of B. bacteriovorus HD100. Indole significantly delayed predation on E. coli MG1655 and S. enterica KACC 11595 at physiological concentrations (0.25 to 1 mM) and completely inhibited predation when present at 2 mM. Microscopic analysis revealed that indole blocked the predator from attacking the prey. Furthermore, indole was not toxic to the predator but slowed down its motility. Microarray and RT-qPCR analyses confirmed this as the gene group showing the greatest down-regulation in the presence of 1 and 2 mM indole was flagellar assembly and motility genes. Aside from this group, indole also caused a wide spectrum changes in gene expression including the general down-regulation of genes involved in ribosome assembly and RNA translation. Furthermore, indole addition to the predatory culture after the entrance of B. bacteriovorus into the prey periplasm slowed down bdelloplast lysis. In conclusion, indole is an important gut-related signaling molecule that can have significant impacts on the predation efficiency and predator behavior. These findings should be taken into consideration especially if B. bacteriovorus is to be applied as a probiotic or living antibiotic.
2013-11-19 | GSE52455 | GEO
Project description:Bdellovibrio is a Gram-negative bacterium that preys upon other Gram-negative bacteria, including many pathogens, and as such has potential as a biocontrol agent. Little is known of the molecular and genetic control of Bdellovibrioâ??s attack upon its prey and of the nature of the HI phenotype. Here, we apply microarray technology to monitor changes of gene expression during the initial stages of prey infection to determine which predatory genes are important in this stage and to gain insight into possible regulatory mechanisms controlling the predation process. Comparison to gene expression during HI growth reveals a â??predatosomeâ?? of genes specifically upregulated during predation and implicates some of those important in HI growth. 3 replicates of attack phase cells and 3 replicates of Host-Independent grown cells were analysed on individual arrays.
2010-05-18 | E-GEOD-16034 | biostudies-arrayexpress
Project description:Bdellovibrio is a Gram-negative bacterium that preys upon other Gram-negative bacteria, including many pathogens, and as such has potential as a biocontrol agent. Little is known of the molecular and genetic control of Bdellovibrio’s attack upon its prey and of the nature of the HI phenotype. Here, we apply microarray technology to monitor changes of gene expression during the initial stages of prey infection to determine which predatory genes are important in this stage and to gain insight into possible regulatory mechanisms controlling the predation process. Comparison to gene expression during HI growth reveals a “predatosome” of genes specifically upregulated during predation and implicates some of those important in HI growth.
2009-12-09 | GSE16034 | GEO
Project description:The transcriptional response of E. coli being predated by Bdellovibrio bacteriovorus Keywords: Transcriptional analysis 5 biological replicates with 2 technical replicates each of E. coli cells only and E. coli cells 15 minutes post-infection arrays 4 arrays, with samples swapped for each biological replicate. Gel image files generated by the ImageQuant scanning software. Each raw data txt file has the "control" samples which are the E. coli samples reading on the entire array and thus with the 2 technical replicates, and the "data" samples to which it is compared by Arrayvision. the "data" samples of ec1 to ec5 are Bdellovibrio only controls 2 technical replicates). The "data" samples of t1 to t5 are the test samples. Hence t1 to t5 are the raw data files for samples test1 to test10 and ec1 to ec5 are the raw data files for all of samples ec-1 to ec-10 and bd-1 to bd-10.
2009-12-08 | E-GEOD-9495 | biostudies-arrayexpress
Project description:RNA sequencing of Escherichia coli Nissle 1917 before and after HOCl treatment was perfomed to identify pathways that may be important in responding to oxidative stress caused by reachive chlorine species (RCS).
2020-01-23 | GSE144068 | GEO
Project description:This SuperSeries is composed of the following subset Series: GSE5075: Aerobic transcriptional responses of Escherichia coli to NO under defined chemostat conditions. GSE5076: Anaerobic transcriptional responses of Escherichia coli to NO under defined chemostat conditions. GSE5084: Anaerobic NO-exposed Chemostat Comparison of Wt & norR mutant Responses GSE5137: Aerobic NO-exposed Chemostat Comparison of Wt & norR mutant Responses GSE5139: Aerobic NO-exposed Chemostat Comparison of Wt & hmp mutant Responses Keywords: SuperSeries Refer to individual Series
2006-08-31 | E-GEOD-5098 | biostudies-arrayexpress
Project description:Myxococcus xanthus and Escherichia coli represent a well-studied microbial predatorprey pair frequently examined in laboratory settings. While significant progress has been made in comprehending the mechanisms governing M. xanthus predation, various aspects of the response and defensive mechanisms of E. coli as prey remain elusive. In this study, the E. coli large-scale chromosome deletion library was screened, and a mutant designated as ME5012 was identified to possess remarkable resistance to predation by M. xanthus. Within the deleted region of ME5012 encompassing seven genes, the significance of dusB and fis genes in driving the observed resistant phenotype became apparent. Specifically, the deletion of fis resulted in a notable reduction in flagellum production in E. coli, contributing to a certain level of resistance against predation by M. xanthus. Meanwhile, the removal of dusB in E. coli led to diminished inducibility of myxovirescin A production by M. xanthus, accompanied by a slight increase in resistance to myxovirescin A. These findings shed light on the molecular mechanisms underlying the complex interaction between M. xanthus and E. coli in a predatory context.
2024-01-26 | PXD046017 | Pride