Ontology highlight
ABSTRACT:
PROVIDER: PRJNA683016 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:A popular strategy for enhancing the antibacterial properties of probiotic bacteria is to retrofit them with the ability to overproduce heterologous bacteriocins. This is often achieved from strong, non-native promoters. How the dysregulated overproduction of heterologous bacteriocins affects the fitness and antibacterial efficacy of the retrofitted probiotic bacteria is often overlooked. We conferred the prototypical probiotic Escherichia coli strain Nissle (EcN) the ability to produce different amounts of the bacteriocin microcin C (McC). Expression of the bacteriocin synthesis genes was driven from the native promoter (Pmcc-WT), or from promoters manipulated to be stronger (Pmcc-High) and weaker (Pmcc-Low) than the WT, in a plasmid-based system. Pmcc-Low and Pmcc-High retained their native regulation. A strain harbouring a non-functional promoter (Pmcc-Mut) produces no McC and was used as a control. Each strain was grown to early stationary phase, when production of McC starts, in Luria-Bertani broth at 37 degrees. The RNA was isolated and the effects of different levels of production of McC on the transcriptome of EcN was examined by RNA-Seq.
2023-06-30 | E-MTAB-13078 | biostudies-arrayexpress
Project description:To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented. This experiment is a validation experiment, where we hybridized labelled DNA from 20 LAB strains, covering 86% of all oligos. Keywords: Platform validation experiment
2009-10-20 | GSE9082 | GEO
Project description:Bacteriocins are natural antimicrobial peptides produced by a bacterium to kill closely related competitors. Streptococcus gallolyticus subsp. gallolyticus (Sgg) UCN34 produces a two-component bacteriocin named gallocin to colonize the gut by killing resident enterococci. In the present work, we investigated how gallocin was regulated by deleting individually three genes present in the locus and encoding potentially an inducing peptide (gsp), a histidine kinase (ghk) and a LytTR-containing response regulator (grr). Comparative transcriptional analyses of these three mutants as compared to the WT UCN34 showed that this 3- component regulatory system induces the transcription of the whole gallocin locus encoding gallocin but also five others putative bacteriocins and genes necessary for bacteriocins biosynthesis and secretion. Beside gallocin locus, only two other pairs of genes were coordinately induced in Sgg genome, encoding an ABC transporter and hypothetical proteins. We conclude that this regulatory system appears highly specialized in bacteriocins induction in Sgg UCN34.
2020-12-04 | GSE148401 | GEO
Project description:The arrays in this series correspond to a comparative genomic analysis between S. cerevisiae strain JAY270 and the reference laboratory strain S288c. JAY270 is a heterothalic diploid used in bioethanol production from sugar cane feedstock in Brazil. This strain has several chromosomal length polymorphisms between homologous chromosomes. The two Chr6 homologs, Chr6 short and Chr6 long, were examined using microarrays to determine the genomic regions which are rearranged.
2009-01-29 | GSE14601 | GEO
Project description:In chorioamnionitis (CAM), a major cause of preterm birth (PTB), maternal-fetal inflammatory responses in the decidua and amnio-chorion cause the release of cytokines that elicit cervical ripening, fetal membrane rupture and myometrial activation. We posited that this inflammatory milieu can trigger PTB via inhibited progesterone receptor (PR) expression and increased decidual prostaglandin (PG) production. We found significantly lower decidual cell PR levels in CAM-complicated PTB using immunohistochemistry. Decidual cells (DCs) treated with IL-1β displayed decreased PR expression and significantly increased PGE2 and PGF2α production and COX2 expression. While addition of PGF2α to DC cultures was also found to suppress PR expression, the COX inhibitor, indomethacin, did not reverse IL-1β suppression of PR expression in DC cultures. Although IL-1β treatment activated NF-B, ERK1/2 and p38 MAPK signaling cascades in DCs, only inhibition of ERK1/2 MAPK signaling completely reversed IL-1β suppressed PR levels. These findings suggest that CAM-associated PTB is induced at least in part by IL-1β-mediated functional progesterone withdrawal.
2015-02-11 | GSE65835 | GEO
Project description:Recently, we established Corynebacterium glutamicum as a suitable production host for various bacteriocins including garvicin Q (GarQ). Here, we establish secretion of GarQ by C. glutamicum via the Sec translocon. At neutral pH, the cationic peptide is efficiently adsorbed to the negatively charged envelope of producer bacteria limiting availability of the bacteriocin in culture supernatants. Using a reporter strain and proteomic analyses, we identified HtrA, a protease associated with secretion stress, as another potential factor limiting GarQ production.
2024-01-08 | PXD046499 | Pride
Project description:The central part of Brazil, consisting mostly of the Cerrado Biome, is considered to be the new frontier for increasing Brazilian wheat production. However, rainfed wheat production in that area must cope with drought stress. In order to better understand the drought response, we analyzed the mRNA profiling under drought in roots and leaves of the cultivar MGS1 Aliança (a well-adapted cultivar to the Cerrado). We identified 4,422 candidate genes in roots and leaves.
2016-11-29 | GSE81833 | GEO
Project description:To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented. This experiment is a validation experiment, where we hybridized labelled DNA from 20 LAB strains, covering 86% of all oligos. Keywords: Platform validation experiment All sampels were hybridized twice in the Cy3 channel. In the Cy5 channel no sample was hybridized.
2009-10-20 | E-GEOD-9082 | biostudies-arrayexpress
Project description:To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented. This experiment is a validation experiment, where we hybridized labelled RNA from 20 LAB strains, covering 86% of all oligos. Keywords: Platform validation experiment Loop design, hence all RNA samples were hybridized once in each colour (Cy3 and Cy5).
2010-06-21 | E-GEOD-9140 | biostudies-arrayexpress
Project description:To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented. This experiment is a validation experiment, where we hybridized labelled RNA from 20 LAB strains, covering 86% of all oligos. Keywords: Platform validation experiment
2009-10-20 | GSE9140 | GEO