Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1067844 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR27688633_1.fastq.gz | Fastqsanger.gz | |||
| SRR27688633_2.fastq.gz | Fastqsanger.gz | |||
| SRR27688634_1.fastq.gz | Fastqsanger.gz | |||
| SRR27688634_2.fastq.gz | Fastqsanger.gz | |||
| SRR27688635_1.fastq.gz | Fastqsanger.gz |
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Project description:Here, we investigated the impact of Stx2 phage carriage on Escherichia coli (E. coli) K-12 MG1655 host gene expression. Using quantitative RNA-seq analysis, we compared the transcriptome of naïve MG1655 and the lysogens carrying the Stx2 phage of the 2011 E. coli O104:H4 outbreak strain or of the E. coli O157:H7 strain PA8, which share high degree of sequence similarity.
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Project description:After the attachment of the lytic phage T4 to Escherichia coli cells, 1% E. coli cells showed an approximately 40-fold increase in mutant frequency. They were designated as mutator A global transcriptome analysis using microarrays was conducted to determine the difference between parental strain and mutators, and the host responce after adsorption of the phage and the ghost.
2018-11-29 | E-MTAB-5636 | biostudies-arrayexpress
Project description:The Escherichia coli strain Nissle 1917 (EcN) is used as a probiotic for the treatment of certain gastrointestinal diseases in several European and non-European countries. In vitro studies showed EcN to efficiently inhibit the production of Shiga toxin (Stx) by Stx producing E. coli (STEC) such as Enterohemorrhagic E. coli (EHEC). The occurrence of the latest EHEC serotype (O104:H4) responsible for the great outbreak in 2011 in Germany was due to the infection of an enteroaggregative E. coli by a Stx 2-encoding lambdoid phage turning this E. coli into a lysogenic and subsequently into a Stx producing strain. Since EHEC infected persons are not recommended to be treated with antibiotics, EcN might be an alternative medication. However, because a harmless E. coli strain might be converted into a Stx-producer after becoming host to a stx encoding prophage, we tested EcN for stx-phage genome integration. Our experiments revealed the resistance of EcN towards not only stx-phages but also against the lambda phage. This resistance was not based on the lack of or by mutated phage receptors. Rather the expression of certain genes (superinfection exclusion B (sieB) and a phage repressor (pr) gene) of a defective prophage of EcN was involved in the complete resistance of EcN to infection by the stx- and lambda phage. Obviously, EcN cannot be turned into a Stx producer. Furthermore, we observed EcN to inactivate phages and thereby to protect E. coli K-12 strains against infection by stx- as well as lambda-phages. Inactivation of lambda-phages was due to binding of lambda-phages to LamB of EcN whereas inactivation of stx-phages was caused by a thermostable protein of EcN. These properties together with its ability to inhibit Stx production make EcN a good candidate for the prevention of illness caused by EHEC and probably for the treatment of already infected people.
2018-06-14 | GSE109932 | GEO
Project description:After the attachment of the lytic phage T4 to Escherichia coli cells, 1% E. coli cells showed an approximately 40-fold increase in mutant frequency. They were designated as mutator A global transcriptome analysis using microarrays was conducted to determine the difference between parental strain and mutators.
2014-09-18 | E-MTAB-2938 | biostudies-arrayexpress
Project description:This project is about the proteomic and phosphoproteomic analyses of phage JSS1 or JSS1Δ004 infected Salmonella strains. AD032TQ is proteomes of phage JSS1 or JSS1Δ004 infected S. enterica serovar Cerro 87. AD032TPST is phosphoproteome of phage JSS1 or JSS1Δ004 infected S. enterica serovar Cerro 87. AE065TQ is proteomes of phage JSS1 or JSS1Δ004 infected CX1, a S. enterica serovar Cerro 87 dndFGH deficient strain, harboring a plasmid expressing DndFGH from Escherichia coli B7A. AE065TPST is phosphoproteome of phage JSS1 or JSS1Δ004 infected CX1 harboring a plasmid expressing DndFGH from E. coli B7A.
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Project description:This project is about the proteomic and phosphoproteomic analyses of phage JSS1 or JSS1Δ004 infected Salmonella strains. AD032TQ is proteomes of phage JSS1 or JSS1Δ004 infected S. enterica serovar Cerro 87. AD032TPST is phosphoproteome of phage JSS1 or JSS1Δ004 infected S. enterica serovar Cerro 87. AE065TQ is proteomes of phage JSS1 or JSS1Δ004 infected CX1, a S. enterica serovar Cerro 87 dndFGH deficient strain, harboring a plasmid expressing DndFGH from Escherichia coli B7A. AE065TPST is phosphoproteome of phage JSS1 or JSS1Δ004 infected CX1 harboring a plasmid expressing DndFGH from E. coli B7A.
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2024-10-04 | PXD056211 | Pride
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Project description:Rapidly growing antibiotic resistance among gastrointestinal pathogens, and the ability of antibiotics to induce the virulence of these pathogens makes it increasingly difficult to rely on antibiotics to treat gastrointestinal infections. The probiotic E. coli strain Nissle 1917 (EcN) is the active component of the pharmaceutical preparation Mutaflor® and has been successfully used in the treatment of gastrointestinal disorders. Gut bacteriophages are dominant players in maintaining the microbial homeostasis in the gut, however, their interaction with incoming probiotic bacteria remains to be at conception. The presence of bacteriophages in the gut makes it inevitable for any probiotic bacteria to be phage resistant, in order to survive and successfully colonize the gut. This study addresses the phage resistance of EcN, specifically against lytic T4 phage infection. From various experiments we could show that i) EcN is resistant towards T4 phage infection, ii) EcN’s K5 polysaccharide capsule plays a crucial role in T4 phage resistance and iii) EcN’s lipopolysaccharide (LPS) inactivates T4 phages and notably, treatment with the antibiotic polymyxin B which neutralizes the LPS destroyed the phage inactivation ability of isolated LPS from EcN. Our results further indicate that N-acetylglucosamine at the distal end of O6 antigen in EcN’s LPS could be the interacting partner with T4 phages. From our findings, we have reported for the first time, the role of EcN’s K5 capsule and LPS in its defense against T4 phages. In addition, by inactivating the T4 phages, EcN also protects E. coli K-12 strains from phage infection in tri-culture experiments. The combination of the identified properties is not found in other tested commensal E. coli strains. Furthermore, our research highlights phage resistance as an additional safety feature of EcN, a clinically successful probiotic E. coli strain.
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Project description:References:
1. Xiaomei Zhu, Lan Yin, Leroy Hood, David Galas and Ping Ao, Efficiency, Robustness and Stochasticity of Gene Regulatory networks in Systems biology: Lambda switch as a working example, 2006.
2. Adam Arkin, John Ross and Harley H. McAdams, Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells, 1998, Genetics, 149: 1633-1648.
3. GenBank sequence: NC_001416 is the whole genome sequence of phage lambda.
2005-01-01 | MODEL1308080003 | BioModels