Nitrogen nutrition of E. coli in the mammalian intestine
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1009058 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR25757151.fastq.gz | Fastqsanger.gz | |||
| SRR25757152.fastq.gz | Fastqsanger.gz | |||
| SRR25757153.fastq.gz | Fastqsanger.gz | |||
| SRR25757154.fastq.gz | Fastqsanger.gz | |||
| SRR25757155.fastq.gz | Fastqsanger.gz |
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Project description:Our focus of this study is to determine the differential expression of genes related to uptake and degradation of nitrogenous compounds in E. coli colonizing the mouse intestine as compared to E. coli grown in minimal medium in vitro. We colonized CD-1 male mice with E. coli MG1655 StrR wild type and extracted the total RNA from mouse cecal mucus (GSE217743). We also colonized CD-1 male mice with E. coli MG1655 ∆glnG StrR CamR and extracted the total RNA from mouse cecal mucus. We grew E. coli MG1655 StrR wild type in MOPS minimal medium containing high nitrogen (10 mM NH4Cl) and low nitrogen (3 mM NH4Cl) and extracted the total RNA from exponential phase and stationary phase culture. We also grew E. coli MG1655 ∆glnG StrR CamR in MOPS minimal medium containing low nitrogen (3 mM NH4Cl) and extracted the total RNA from exponential phase culture. The extracted RNA samples were sequenced, and differential expression analysis was done to determine the genes related to uptake and degradation of nitrogenous compounds that are important for E. coli colonization. Our results indication nitrogen is not limiting for E. coli in the intestine and genes related to uptake and degradation of several aminoacids, di- and tripeptides, aminosugars, ethanolamine, urea among others are upregualated in the mouse intestine as compared to invitro culture grown in high nitrogen conditions.
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Project description:Our focus of this study is to determine the gene expression changes in E. coli colonizing the mouse intestine as compared to E. coli grown in minimal medium in vitro. We colonized CD-1 male mice with E. coli MG1655 StrR wild type and extracted the total RNA from mouse cecal mucus. We also extracted E. coli MG1655 StrR RNA from in vitro culture and sequenced and compared to determine the genes important for E. coli colonization of the mammalian intestine. Our results indicate that OmpC is important for E. coli to colonize the mouse intestine as it is upregulated as compared to in vitro culture. OmpF is not important; it is detrimental for E. coli colonization of the mouse intestine and is highly downregulated in the colonized E. coli
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