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Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP (RNA-seq data seq)

ABSTRACT: The mechanism of 3-HP tolerance related to YieP was elucidated. The genome-wide analysises were carried out to find out the genes reponsible for 3-HP tolerance.

ORGANISM(S): Escherichia coli W

PROVIDER: GSE129317 | GEO | 2020/11/09

REPOSITORIES: GEO

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Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP (ChIP-exo data)

Project description:The mechanism of 3-HP tolerance related to YieP was elucidated. The genome-wide analysises were carried out to find out the genes reponsible for 3-HP tolerance.

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Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP

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Improvement of isopropanol tolerance of Escherichia coli using adaptive laboratory evolution and omics technologies

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Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP

Project description:Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP

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Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP (ChIP-exo data)

Project description:Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP (ChIP-exo data)

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Effect of Escherichia coli O157: H7 on gene expression before and after citric acid-induced antibiotic tolerance

Project description:In order to explore the differentially expressed genes of E. coli O157: H7 after citric acid induced antibiotic tolerance, we artificially induced the antibiotic tolerance of E. coli O157: H7 and verified its phenotype.

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Evolution combined with genomic study elucidates genetic bases of isobutanol tolerance in Escherichia coli

Project description:BACKGROUND:Isobutanol is a promising next generation biofuel with demonstrated high yield microbial production, but the toxicity of this molecule reduces fermentation volumetric productivity and final titers. Organic solvent tolerance is a complex, multigenic phenotype that has been recalcitrant to rational engineering approaches. We apply experimental evolution followed by genome resequencing and a gene expression study to elucidate genetic bases on adaptation to exogenous isobutanol stress. RESULTS:The adaptations acquired in our evolved lineages exhibit antagonistic pleiotropy between minimal and rich medium, and appear to be specific to the effects of longer chain alcohols. By examining genotypic adaptation in multiple independent lineages, we find evidence of parallel evolution in hfq, mdh, acrAB, gatYZABCD, and rph genes. Many isobutanol tolerant lineages show reduced rpoS activity, perhaps related to mutations in hfq or acrAB. Consistent with the complex, multigenic nature of solvent tolerance, we observe adaptations in a diversity of cellular processes. Many adaptations appear to involve epistasis between different mutations, implying a rugged fitness landscape for isobutanol tolerance. We observe a trend of evolution targeting post-transcriptional regulation and high centrality nodes of biochemical networks. Collectively, the genotypic adaptations we observe suggest mechanisms of adaptation to isobutanol stress based on remodelling the cell envelope and surprisingly, stress response attenuation. CONCLUSIONS:We have discovered a set of genotypic adaptations that confer increased tolerance to exogenous isobutanol stress. Our results are immediately useful to efforts to engineer more isobutanol tolerant host strains of E. coli for isobutanol production. We suggest that rpoS and post-transcriptional regulators, such as hfq, RNA helicases, and sRNAs may be interesting mutagenesis targets for futurue global phenotype engineering.

2010-08-10 | GSE23526 | GEO

Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP (RNA-seq data seq)

Project description:Mechanism of tolerance improvement of Escherichia coli W against 3-hydroxypropionic acid by deletion of a less characterized transcription factor yieP (RNA-seq data seq)

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