Ontology highlight
ABSTRACT:
PROVIDER: PRJNA827473 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:the Bacillus and Burkholderia strains are plant beneficial bacterial strains genome sequencing
| PRJNA302739 | ENA
Project description:Bacterial strains within a species can differ in traits that shape host–microbe interactions. Using the squid–vibrio symbiosis, we examined how strain-level variation influences host responses. Strains from squid and fish light organs were compared for their effects on Euprymna scolopes gene expression and development. Non-native strains showed reduced colonization success and delayed host phenotypes. Transcriptomic responses were most similar with native isolates and most divergent with a fish-derived strain. These findings demonstrate that fine-scale strain differences shape host compatibility and underscore the importance of strain-level diversity in the establishment of beneficial symbioses.
2025-11-05 | GSE306269 | GEO
Project description:This study identified and compared the bacterial diversity and clinically relavent bacterial strains around a newly developed hospital and university precinct in southern India for a period of twelve months.
2025-02-28 | GSE233292 | GEO
Project description:The intestinal microbiota influences the development of a normal intestinal physiology, education and functioning of the mucosal immune system. The goal of this study is to analyze how the transcriptional profile of the colonic endothelial cells is influence by colonization of gnotobiotic mice with specific bacterial strains . The goal of this study is to analyze how the transcriptional profile of the colonic endothelial cells is influence by colonization of gnotobiotic mice with specific bacterial strains .
2022-10-05 | GSE180907 | GEO
Project description:Genome engineering offers the possibility to create completely novel cell factories with enhanced properties for biotechnological application. In recent years, the possibilities for genome engineering have been extensively explored in the Gram-positive bacterial cell factory Bacillus subtilis, where up to 42% of the genome, encoding dispensable functions has been removed. Such studies have shown that some strains with minimized genomes gained beneficial features, for instance in protein production. However, strains with the most minimal genomes also showed particular growth defects. This has focused our attention on strains with less extensive genome deletions that show close-to-wild-type growth properties, while retaining the acquired beneficial traits in secretory protein production of strains lacking larger genomic segments. A strain of the latter category is B. subtilis IIG-Bs27-47-24, here referred to as midiBacillus II, which lacks 30.95% of the parental genome. To date, it was unknown how the altered genomic configuration of midiBacillus II impacts on cell physiology at large, and protein secretion in particular. Therefore, the present study was aimed at bridging this knowledge gap through an in-depth proteomics analysis with special focus on protein secretion stress responses. Interestingly, the results show that the secretion stress response of midiBacillus II as elicited by high-level expression of a staphylococcal antigen is completely different from the secretion stress responses that occur in the parental strain 168. This implies that high-level protein secretion has different implications for wild-type and genome-engineered Bacillus strains, dictated by the altered genomic and proteomic configurations.
2021-11-25 | PXD021841 | Pride
Project description:Legume plants can form root organs called nodules where they house intracellular symbiotic rhizobium bacteria. Within nodule cells, rhizobia differentiate into bacteroids, which fix nitrogen for the benefit of the plant. Depending on the combination of host plants and rhizobial strains, the output of rhizobium-legume interactions is varying from non-fixing associations to symbioses that are highly beneficial for the plant. Bradyrhizobium diazoefficiens USDA110 was isolated as a soybean symbiont but it can also establish a functional symbiotic interaction with Aeschynomene afraspera. In contrast to soybean, A. afraspera triggers terminal bacteroid differentiation, a process involving bacterial cell elongation, polyploidy and membrane permeability leading to loss of bacterial viability while plants increase their symbiotic benefit. A combination of plant metabolomics, bacterial proteomics and transcriptomics along with cytological analyses was used to study the physiology of USDA110 bacteroids in these two host plants. We show that USDA110 establish a poorly efficient symbiosis with A. afraspera, despite the full activation of the bacterial symbiotic program. We found molecular signatures of high level of stress in A. afraspera bacteroids whereas those of terminal bacteroid differentiation were only partially activated. Finally, we show that in A. afraspera, USDA110 bacteroids undergo an atypical terminal differentiation hallmarked by the disconnection of the canonical features of this process. This study pinpoints how a rhizobium strain can adapt its physiology to a new host and cope with terminal differentiation when it did not co-evolve with such a host.
2020-12-11 | GSE163004 | GEO
Project description:Background & Objectives: Identification of news targets for metabolic diseases treatment or prevention was required. In this context, FIAF/ANGPTL4 appeared as a crucial regulator of energy homeostasis. Lactobacilli are often considered to display beneficial effect for their hosts, acting on regulatory pathway. The aim of the present work was to study the effect of several lactobacilli strains on Fiaf gene expression in human intestinal epithelial cells (IECs) and on mice tissues to decipher the underlying mechanisms. Subjects & Methods: Nineteen lactobacilli strains have been tested on HT-29 cells for their ability to regulate Fiaf gene expression by RT-qPCR. In order to determine regulated pathways, we analyzed the whole genome transcript of IECs. We then validate in vivo bacterial effect using C57BL/6 mono-colonized mice fed with normal chow. Results: We identified one strain (L. rhamnosus CNCMI-4317, p<0,001) modulating Fiaf expression in IECs. This regulation relies potentially on bacterial surface-exposed molecules and seems to be PPAR-γ independent and PPAR-α dependent. Functional analysis revealed that most of the significant different expressed genes affected by this strain were involved in cellular function and maintenance, lymphoid tissues structure and development or lipids metabolism. The regulation of immune system and lipids and carbohydrates metabolism was also confirmed by overrepresentation of Gene Ontology terms analysis. In vivo, the strain increased FIAF protein (p<0,05) in the serum and tend to up regulate it in distal small intestine (p=0,14). Moreover, the observed induction of IL-7 (p<0,05) suggested a role on immune cells regulation. Conclusion: We showed that the strain induce Fiaf expression in human IECs and in mice intestine. This bacterial effect is accompanied by modulation of immune response and metabolism providing such a bacterial strain an interesting candidate to modulate metabolic and low grade inflammation disorders.
2015-10-16 | GSE62311 | GEO