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234 results for “Vibrio”
Uncropped gel—nuclease data from: A nicking class 1 OLD family nuclease encoded by <em>Vibrio cholerae</em> inhibits virbiophage replication and is countered by a direct inhibitor
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Confocal microscopy images for: Surface remodeling and inversion of cell-matrix interactions underlie community recognition and dispersal in Vibrio cholerae biofilms
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Nanopore long reads enable the first complete genome assembly of a Malaysian Vibrio parahaemolyticus isolate bearing the pVa plasmid associated with acute hepatopancreatic necrosis disease
<p>Supplemental File 1: Main genome assemblies (Unpolished Flye assembly, Polished Flye assembly, Unicycler Hybrid Assembly and Unicycler Illumina-only assembly) generated in this study for comparison and their BUSCO output.</p> <p>Supplemental File 2: Phyre2 protein modelling output of the putative MVP1 TcdA toxin</p> <p>Supplemental File 3: Phyre2 protein modelling output of the putative MVP1 TcdB toxin</p> <p>Supplemental File 4: Phyre2 protein modelling output of the putative MVP1 TccC toxin</p> <p>Supplemental File 5: InterProScan output of the NCBI-predicted MVP1 proteome.</p> <p>Supplemental Table 1: NCBI BlastN output using the <em>fuc</em> genes of <em>Vibrio parahaemolyticus</em> MVP1 as the query to search against the Vibrio reference WGS database as of 21 Oct 2019</p>
Data from: Quorum-sensing signaling by chironomid egg masses' microbiota affects haemagglutinin/protease (HAP) production by Vibrio cholerae
<p><i>Vibrio cholerae</i>, the causative agent of cholera, is commonly isolated, along with other bacterial species, from chironomid insects (<i>Diptera: Chironomide</i>). Nevertheless, its prevalence in the chironomid egg masses' microbiota is less than 0.5%. <i>V. cholerae</i> secretes haemagglutinin/protease (HAP) that degrades the gelatinous matrix of chironomid egg masses and prevents hatching. Quorum sensing (QS) activates HAP production in response to accumulation of bacterial autoinducers (AIs). Our aim was to define the impact of chironomid microbiota on HAP production by <i>V. cholerae</i>. To study QS signaling, we used<i> V. cholerae</i> bioluminescence reporter strains (QS-proficient O1 El-Tor wild type and QS-deficient mutants) and different bacterial species that we isolated from chironomid egg masses. These egg mass isolates, as well as a synthetic AI-2, caused an enhancement in <i>lux</i> expression by a <i>V. cholerae</i> QS-deficient mutant. The addition of the egg mass bacterial isolate supernatant to the QS-deficient mutant also enhanced HAP production and egg mass degradation activities. Moreover, the <i>V. cholerae</i> wild type strain was able to proliferate using egg masses as their sole carbon source while the QS-deficient was not. The results demonstrate that members of the chironomid bacterial consortium produce external chemical cues that, like AI-2, induce expression of the<i> hapA </i>gene in <i>V. cholerae</i>. Understanding the interactions between <i>V. cholerae</i> and the insects' microbiota may help uncover the interactions between this pathogen and the human gut microbiota.</p>
Data from: Differential gene expression analysis of symbiotic and aposymbiotic Exaiptasia anemones under immune challenge with Vibrio coralliilyticus
Anthozoans are a class of Cnidarians that includes scleractinian corals, anemones and their relatives. Despite a global rise in disease epizootics impacting scleractinian corals, little is known about the immune response of this key group of invertebrates. To better characterize the anthozoan immune response, we used the model anemone Exaiptasia pallida to explore the genetic links between the anthozoan-algal symbioses and immunity in a two-factor RNA-Seq experiment using both symbiotic and aposymbiotic(menthol-bleached) Exaiptasia pallida exposed to the bacterial pathogen Vibrio coralliilyticus. Multivariate and univariate analyses of Exaiptasia gene expression demonstrated that exposure to live Vibrio coralliilyticus had strong and significant impacts on transcriptome-wide gene expression for both symbiotic and aposymbiotic anemones, but we did not observe strong interactions between symbiotic state and Vibrio exposure. There were 4,164 significantly differentially expressed (DE) genes for Vibrio exposure, 1,114 DE genes for aposymbiosis, and 472 DE genes for the additive combinations of Vibrio and aposymbiosis. KEGG enrichment analyses identified 11 pathways - involved in immunity (5), transport and catabolism (4) and cell growth and death (2) - that were enriched due to both Vibrio and/or aposymbiosis. Immune pathways showing strongest differential expression included complement, coagulation, nucleotide-binding and oligomerization domain (NOD), and Toll for Vibrio exposure and coagulation and apoptosis for aposymbiosis.
The 16S rRNA genes of five strains of the genus Vibrio
<p>The 16S rRNA genes of five strains of the genus Vibrio. These strains isolated from marine sediments.</p>
Data : Effects of Fructooligosaccharides (FOS) on the Immune Response of the Shrimp Penaeus vannamei and on the Reduction in Vibrio spp. and Pseudomonas spp. in Cultures of Post-Larvae.
<p>Data related with Corrales Barrios, Y.; Roncarati, A.; Martín Ríos, L.D.; Rodríguez González, M.; González Salotén, M.; López Zaldívar, Y.; Arenal, A. Effects of Fructooligosaccharides (FOS) on the Immune Response of the Shrimp <em>Penaeus vannamei</em> and on the Reduction in <em>Vibrio</em> spp. and <em>Pseudomonas</em> spp. in Cultures of Post-Larvae. Microbiol. Res. 2023, 14,</p>
Data from: Differential gene expression analysis of symbiotic and aposymbiotic Exaiptasia anemones under immune challenge with Vibrio coralliilyticus
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Data from: Cholera outbreaks (2012) in three districts of Nepal reveal clonal transmission of multi-drug resistant Vibrio cholerae O1
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Data from: Quorum-sensing signaling by chironomid egg masses’ microbiota affects haemagglutinin/protease (HAP) production by Vibrio cholerae
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Chitoporin from Vibrio cholerae O1: single-channel properties, sugar specificity and role in adaptive survival of the bacteria
<p>Mass identification data for VcChiP from Vibrio cholerae. The data are included in the article under consideration for publication in JBC (Reference number JBC/2020/012921R1).</p>
Data from: Adaptation to temperature stress by Vibrio fischeri facilitates this microbe's symbiosis with the Hawaiian bobtail squid (Euprymna scolopes)
For microorganisms cycling between free-living and host-associated stages, where reproduction occurs in both of these lifestyles, an interesting inquiry is whether adaptation to stress during the free-living stage can impact microbial fitness in the host. To address this topic, the mutualism between the Hawaiian bobtail squid (Euprymna scolopes) and the marine bioluminescent bacterium Vibrio fischeri was utilized. Using microbial experimental evolution, V. fischeri was selected to low (8⁰C), high (34⁰C), and fluctuating temperature stress (8⁰C/34⁰C) for 2,000 generations. The temperatures 8⁰C and 34⁰C were the lower and upper growth limits, respectively. V. fischeri was also selected to benign temperatures (21⁰C and 28⁰C) for 2,000 generations, which served as controls. V. fischeri demonstrated significant adaptation to low, high, and fluctuating temperature stress. V. fischeri did not display significant adaptation to the benign temperatures. Adaptation to stressful temperatures facilitated V. fischeri's ability to colonize the squid host relative to the ancestral lines. Bioluminescence levels also increased. Evolution to benign temperatures did not manifest these results. In summary, microbial adaptation to stress during the free-living stage can promote coevolution between hosts and microorganisms.
Bacterial exposure mediates developmental plasticity and resistance to lethal Vibrio lentus Infection in purple sea urchin (Strongylocentrotus purpuratus) larvae
<p>Exposure to and colonization by bacteria during development have wide-ranging beneficial effects on animal biology but can also inhibit growth or cause disease. The immune system is the prime mediator of these microbial interactions and is itself shaped by them. Studies using diverse animal taxa have begun to elucidate the mechanisms underlying the acquisition and transmission of bacterial symbionts and their interactions with developing immune systems. Moreover, the contexts of these associations are often confounded by stark differences between 'wild type' microbiota and the bacterial communities associated with animals raised in conventional or germ-free laboratories. In this study, we investigate the spatio-temporal kinetics of bacterial colonization and associated effects on growth and immune function in larvae of the purple sea urchin (Strongylocentrotus purpuratus) as a model for host-microbe interactions and immune system development. We also compare the host-associated microbiota of developing embryos and larvae raised in natural seawater or exposed to adult-associated bacteria in the laboratory. Bacteria associated with zygotes, embryos, and early larvae are detectable with 16S amplicon sequencing, but 16S-FISH indicates that the vast majority of larval bacterial load is acquired after feeding begins and is localized to the gut lumen. The bacterial communities of laboratory-cultured embryos are significantly less diverse than the natural microbiota but recapitulate its major components (Alphaproteobacteria, Gammaproteobacteria, and Bacteroidetes), suggesting that biologically relevant host-microbe interactions can be studied in the laboratory. We also demonstrate that bacterial exposure in early development induces changes in morphology and in the immune system. In the absence of bacteria, larvae grow larger at the 4-arm stage. Additionally, bacteria-exposed larvae are significantly more resistant to lethal infection with the larva-associated pathogen Vibrio lentus suggesting that early exposure to high levels of microbes, as would be expected in natural conditions, affects the immune state in later larvae. These results expand our knowledge of microbial influences on early sea urchin development and establish a model in which to study the interactions between the developing larval immune system and the acquisition of larval microbiota.</p>
Data from: The dual nature of hemocyanin in the establishment and persistence of the squid-vibrio symbiosis
We identified and sequenced from the squid Euprymna scolopes two isoforms of haemocyanin that share the common structural/physiological characteristics of haemocyanin from a closely related cephalopod, Sepia officinalis, including a pronounced Bohr effect. We examined the potential roles for haemocyanin in the animal's symbiosis with the luminous bacterium Vibrio fischeri. Our data demonstrate that, as in other cephalopods, the haemocyanin is primarily synthesized in the gills. It transits through the general circulation into other tissues and is exported into crypt spaces that support the bacterial partner, which requires oxygen for its bioluminescence. We showed that the gradient of pH between the circulating haemolymph and the matrix of the crypt spaces in adult squid favours offloading of oxygen from the haemocyanin to the symbionts. Haemocyanin is also localized to the apical surfaces and associated mucus of a juvenile-specific epithelium on which the symbionts gather, and where their specificity is determined during the recruitment into the association. The haemocyanin has an antimicrobial activity, which may be involved in this enrichment of V. fischeri during symbiont initiation. Taken together, these data provide evidence that the haemocyanin plays a role in shaping two stages of the squid–vibrio partnership.
Screening of AMR-related genes in the genomes of Vibrio parahaemolyticus strains isolated in Europe from clinical, environmental and other sources
<p>The distribution of antimicrobial resistance (AMR) genes for the EU and European Free Trade Association (EFTA) countries data was obtained from the global <em>Vibrio parahaemolyticus</em> genomes based on a collection of nearly 10,000 genomes. Some of the strains are from the collection of prof. Jaime Martinez-Urtaza (Department of Genetics and Microbiology, Universitat Autònoma de Barcelona) or are part of ongoing studies to expand the genome collection; other genomes were retrieved from the European Nucleotide Archive (ENA at <a href="https://www.ebi.ac.uk/ena/browser/home" target="_blank" rel="noopener">https://www.ebi.ac.uk/ena/browser/home</a>) and the National Center for Biotechnology Information (NCBI) [GenBank at <a href="https://www.ncbi.nlm.nih.gov/genbank/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/genbank/</a>; RefSeq at <a href="https://www.ncbi.nlm.nih.gov/refseq/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/refseq/</a>; SRA at <a href="https://www.ncbi.nlm.nih.gov/sra" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/sra]</a>. For detection of AMR genes, a resistance genes detection pipeline based on one of the standard databases (CARD database at<a href="https://card.mcmaster.ca/" target="_blank" rel="noopener"> https://card.mcmaster.ca/</a>) was used. The phylogenetic tree was prepared and includes the reference genome from Japan <em>"Osaka" </em>as reference. The RIMD 2210633 strain has been added as the global reference strain which has been historically used for all the phylogenetic analysis of <em>V. parahaemolyticus</em>. The metadata includes the source of the strain, i.e., country, origin (clinical, environmental or unclear), date of isolation, and subtype. The antibiotic-resistant genes are shown as present, absent or not applicable. To build the ARGs European <em>V. parahaemolyticus</em> tree, the Parsnp tool, a fast core-genome multi-aligner and SNP detector, from the Harvest suite was used (Treangen et al., 2014). Parsnp calculates the MUMi distances between the reference genome (RIMD_2210633) and each one of the 152 genomes used in this study. The resulting Newick formatted core genome SNP tree was then uploaded onto the webtool I-Tol (Letunic and Bork, 2021), midpoint rooted and the metadata of the samples was incorporated.</p> <p>The accession IDs for the genomes included in the metadata are accessible in the following databases according to the first characters:<br>* GCA: GenBank (<a href="https://www.ncbi.nlm.nih.gov/genbank/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/genbank/</a>)<br>* GCF: RefSeq (<a href="https://www.ncbi.nlm.nih.gov/refseq/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/refseq/</a>)<br>* ERR: ENA (<a href="https://www.ebi.ac.uk/ena/browser/home" target="_blank" rel="noopener">https://www.ebi.ac.uk/ena/browser/home</a>)<br>* SRR: SRA (<a href="https://www.ncbi.nlm.nih.gov/sra" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/sra</a>)</p> <p>References</p> <p>Letunic I and Bork P, 2021. Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Res, 49:W293-w296. doi: 10.1093/nar/gkab301</p> <p>Treangen TJ, Ondov BD, Koren S and Phillippy AM, 2014. The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes. Genome Biol, 15:524. doi: 10.1186/s13059-014-0524-x</p>
Data from: Hosts are ahead in a marine host-parasite coevolutionary arms race: innate immune system adaptation in pipefish Syngnathus typhle against Vibrio phylotypes
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Data from: The dual nature of hemocyanin in the establishment and persistence of the squid-vibrio symbiosis
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Data from: Adaptation to temperature stress by Vibrio fischeri facilitates this microbe's symbiosis with the Hawaiian bobtail squid (Euprymna scolopes)
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Bacterial exposure mediates developmental plasticity and resistance to lethal Vibrio lentus Infection in purple sea urchin (Strongylocentrotus purpuratus) larvae
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Vibrio cholerae O395 toxSL33S vs toxSL33S delta rpoE
GEO Series GSE72378. Vibrio cholerae; Vibrio cholerae O395. 4 samples. Type: Expression profiling by array.
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