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Transcriptomic analysis of Vibrio vulnificus in response to iron concentration and Fur protein

ABSTRACT: V. vulnificus is a marine bacteria that causes diseases in both mammals and fish. In both hosts, the iron concentration represents a key factor that greatly influences the virulence of this bacterium. To further define the gene repertoire that is regulated by iron concentration and Fur protein (the main transcriptional regulator in response to iron concentration) in V. vulnificus, we obtained a mutant in Fur and used DNA microarray technology to monitor the expression of the entire gene repertoire in response to iron. Global transcriptomic response was reconstructed by comparing the transcriptional profiles of the wild-type (R99) and Fur mutant strains in poor and rich iron conditions.

ORGANISM(S): Vibrio vulnificus

PROVIDER: GSE60553 | GEO | 2014/12/20

SECONDARY ACCESSION(S): PRJNA258533

REPOSITORIES: GEO

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Transcriptomic analysis of Vibrio vulnificus in response to iron concentration and Fur protein

Project description:V. vulnificus is a marine bacteria that causes diseases in both mammals and fish. In both hosts, the iron concentration represents a key factor that greatly influences the virulence of this bacterium. To further define the gene repertoire that is regulated by iron concentration and Fur protein (the main transcriptional regulator in response to iron concentration) in V. vulnificus, we obtained a mutant in Fur and used DNA microarray technology to monitor the expression of the entire gene repertoire in response to iron. Global transcriptomic response was reconstructed by comparing the transcriptional profiles of the wild-type (R99) and Fur mutant strains in poor and rich iron conditions. To identify the genes that were under control of Fur, we compared the transcriptomic profile of the wild-type strain with the profile of a mutant strain in Fur protein; in contrast, to identify the genes that were under control of iron, we compared the transcriptomic profile of the wild-type strain grown in iron-rich conditions with the profile of the wild-type strain grown in iron-restricted conditions. For each one of the four samples, three replicates were performed, and RNA was sampled in the mid-log phase of growth (wild-type, 6h; Fur mutant, 6h; wild-type+iron, 5h; wild-type-iron,9h).

2014-12-20 | E-GEOD-60553 | biostudies-arrayexpress

Iron regulation in Vibrio vulnificus CMCP6

2008-08-07 | GSE10633 | GEO

Vibrio vulnificus

Project description:Transcriptomic analysis of Vibrio vulnificus in response to iron concentration and Fur protein

| PRJNA258533 | ENA

Iron regulation in Vibrio vulnificus CMCP6

Project description:Vibrio vulnificus multiply rapidly in host tissues under iron overloaded conditions. To understand the effects of iron in the physiology of this pathogen we performed a genome-wide transcriptional analysis of this bacterium growing under three different iron concentrations. V.vulnificus CMCP6 cells were grown under three different iron concentrations (TSBS + EDDA 50uM, TSBS and TSBS + FAC 250 ug/ml) and samples taken at log phase. Keywords: Response to the iron concentration of the media Strains were grown to an OD600nm of 0.6 to 0.8 in TSBS, TSBS with the addition of 250 Î¼g/ml FAC or TSBS with the addition of 50 Î¼M EDDA. Three independent cultures of the V. vulnificus cells grown in each media, were combined and treated as a single sample for the RNA extraction to minimize culture variation. Two samples per condition were used for the microarray analysis. Cells were centrifuged and the pellets resuspended in RNAWiz reagent (AmbionÂ®, Austin, TX). Total RNA was extracted from each strain according to the manufacturerâ??s instructions

2010-05-25 | E-GEOD-10633 | biostudies-arrayexpress

Bacillus subtilis CU1065: WT vs fur, fur vs fur fsrA, fur vs fur fbpAB, fur vs fur fbpC, and fur vs fur fbpABC

Project description:Global tranascriptional profiling of Bacillus subtilis cells comparing fur mutant to mutants of the iron-sparing response: fur fsrA double mutant, fur fbpAB triple mutant, fur fbpC double mutant, and fur fbpABC quadruple mutant Abstract of associated manuscript: The Bacillus subtilis ferric uptake regulator (Fur) protein is the major sensor of cellular iron status. When iron is limiting for growth, derepression of the Fur regulon increases the cellular capacity for iron uptake and mobilizes an iron-sparing response mediated, in large part, by a small non-coding RNA named FsrA. FsrA functions together with three small, basic proteins (FbpABC) to repress many "low-priority" iron-containing enzymes. We have used transcriptome analyses to define the scope of the iron-sparing response and to define subsets of genes dependent on either FbpAB or FbpC for their repression. Enzymes of the tricarboxylic acid cycle, including both aconitase and succinate dehydrogenase, are major targets of FsrA-mediated repression and, as a consequence, flux through this pathway is significantly decreased under iron limitation. FsrA also mediates a physiologically significant repression of iron-sulfur containing enzymes required for ammonium assimilation (the GltAB glutamate synthase) and catabolism of lactic acid (LutABC). Repression of the lutABC operon requires both FsrA and FbpB which supports a model in which the Fbp proteins function to enable repression of subsets of the FsrA regulon.

2011-02-19 | GSE27416 | GEO

Bacillus subtilis CU1065: fur vs fur fsrA, fur vs fur fbpAB, fur vs fur fbpC, and fur vs fur fbpABC

Project description:Global transcriptional profiling of Bacillus subtilis cells comparing fur mutant to mutants of the iron-sparing response: fur fsrA double mutant, fur fbpAB triple mutant, fur fbpC double mutant, and fur fbpABC quadruple mutant fur vs fur fsrA (fsrA), fur vs fur fbpAB (AB), fur vs fur fbpC (C), and fur vs fur fbpABC (ABC). Each experiemnt (fur vs mutant) was conducted three times using three independent total RNA preparations (2 independent experiement + 1 independent dye swap).

2011-02-19 | E-GEOD-27416 | biostudies-arrayexpress

Vibrio vulnificus : biofilm cells vs. planktonic cells

Project description:The profiles of transcripts from the planktonic cells and biofilm cells of V. vulnificus were compared by using a V. vulnificus whole-genome microarray

2014-07-26 | GSE59753 | GEO

Vibrio vulnificus: Wild type vs. iscR mutant (V. vulnificus iron-sulfur cluster regulator)

Project description:IscR is a novel global regulator potentially contributing to the overall success in survival and pathogenesis of V. vulnificus by coordinating the regulation of various virulence factors. The profiles of transcripts from the V. vulnificus iscR mutant and the parental wild type were compared by using a V. vulnificus whole-genome microarray.

2013-02-27 | GSE44679 | GEO

European eel immune response against Vibrio vulnificus challenge

Project description:Vibriosis caused by Vibrio vulnificus on eels represents an important threat for this specie under culture conditions. Development of new transcriptomic tools is essential to increase the knowledge of eel biology, that nowadays is scarcer. Therefore, using previous results obtained by 454 sequencing of the eel immune-enriched transcriptome, an eel-specific custom microarray have been designed. Gills transcriptomic pattern were analyzed as a principal portal of entry for pathogens in fish after 1h of bath infection with Vibrio vulnificus to describe gill immune response. Moreover, two different strains were used, vibro vulnificus wild type (R99) and rtx double mutant (CT285), to asses the virulence of these pathogen caused by MARTX.

2013-03-15 | GSE45163 | GEO

TRANSCRIPTIONAL PROFILING OF FUR– AND IRON- REGULATED GENE EXPRESSION IN LISTERIA MONOCYTOGENES

Project description:Iron is required by almost all bacteria but concentrations of iron above the physiological levels are toxic. In bacteria, intracellular iron is regulated mostly by ferric uptake regulator, Fur or a similar functional protein. Iron limitation results in regulation of number of genes, including those involved in iron uptake process. A subset of the genes under the control of Fur is called Fur regulon. In this study we have identified the Fur- and iron- regulated genes in Listeria monocytogenes by DNA microarray analysis using fur mutant and its isogenic parent. In order to identify genes exclusively regulated in response to iron limitation, fur mutant and its isogenic parent grown in iron-deficient KRM media were compared. Similarly, to identify Fur regulated genes, fur mutant was compared with the parent under iron-deficient and excess-iron conditions. Listeria in low-iron resulted in up-regulation of 180 and down-regulation of 200 genes whereas in the fur mutant, 79 genes were up-regulated and 49 genes down-regulated. Our studies have identified at least 12 genes that are negatively controlled by Fur. In iron-deficient condition, these genes were up-regulated, while expression of fur was down-regulated. To further investigate the fur regulation, the fur promoter-lacZ transcriptional fusion strains were constructed in fur and perR mutant background. In the perR mutant, the regulation of fur, svpA, and feoB was inhibited in the iron-limited conditions. Our results indicate that fur is negatively regulated by Fur and PerR. Furthermore, these results demonstrate that regulation of some of the genes in iron-limited conditions require PerR.

2008-12-25 | GSE12735 | GEO

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