AIMC Topic: Escherichia coli
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LC-MS/MS metabolomics unravels the resistant phenotype of carbapenemase-producing Enterobacterales.
Metabolomics : Official journal of the Metabolomic Society
Aug 12, 2025
INTRODUCTION: The degree of antimicrobial resistance demonstrated by carbapenemase-producing Enterobacterales (CPE) represents a growing public health challenge. Conventional methods for detecting CPE involve culture-based techniques with lengthy inc...
Measurement and prediction of small molecule retention by Gram-negative bacteria based on a large-scale LC/MS screen.
Scientific reports
Jul 14, 2025
The challenge of assessing intracellular accumulation represents a major hurdle to the discovery of new antibiotics with Gram-negative activity. To address this, a high-throughput assay was developed to measure compound uptake and retention in Escher...
Inhibiting heme piracy by pathogenic Escherichia coli using de novo-designed proteins.
Nature communications
Jul 9, 2025
Iron is an essential nutrient for most bacteria and is often growth-limiting during infection, due to the host sequestering free iron as part of the innate immune response. To obtain the iron required for growth, many bacterial pathogens encode trans...
Quantifying complexity in DNA structures with high resolution Atomic Force Microscopy.
Nature communications
Jul 1, 2025
DNA topology is essential for regulating cellular processes and maintaining genome stability, yet it is challenging to quantify due to the size and complexity of topologically constrained DNA molecules. By combining high-resolution Atomic Force Micro...
Data-driven protease engineering by DNA-recording and epistasis-aware machine learning.
Nature communications
Jul 1, 2025
Protein engineering has recently seen tremendous transformation due to machine learning (ML) tools that predict structure from sequence at unprecedented precision. Predicting catalytic activity, however, remains challenging, restricting our capabilit...
Experimentally profiling dielectric properties of Escherichia coli and Staphylococcus aureus by movement velocity and force.
Scientific reports
Jul 1, 2025
The gradual research in integrating artificial intelligence in the Dielectrophoresis system is rapid since the evolution of AI in every aspect of technology since the early 2020s. The benefits of AI integration into DEP systems include improving posi...
Microbial vitamin biosynthesis links gut microbiota dynamics to chemotherapy toxicity.
mBio
May 20, 2025
Dose-limiting toxicities pose a major barrier to cancer treatment. While preclinical studies show that the gut microbiota influences and is influenced by anticancer drugs, data from patients paired with careful side effect monitoring remains limited....
Development and evaluation of a direct disk diffusion, rapid antimicrobial susceptibility testing method from blood culture positive for Gram-negative bacilli using rapid molecular testing and microbiology laboratory automation.
Microbiology spectrum
May 15, 2025
Rapid antimicrobial susceptibility testing (RAST) using disk diffusion (DD) from positive blood cultures (BC) can aid initiation of effective antimicrobial therapy. Rapid molecular blood culture identification panels (BCID) and microbiology laborator...
Comparative study on antibacterial activities and removal of iron ions from water using novel modified sand with silver through the hydrothermal technique.
Scientific reports
May 8, 2025
The hydrothermal-calcination technique was used to modify raw sand with silver (Ag) at different weight percentages: 2%, 5%, and 10% using silver nitrate. The raw and sand-coated Ag nanoparticle samples were analyzed using various techniques, includi...
Predictive biophysical neural network modeling of a compendium of in vivo transcription factor DNA binding profiles for Escherichia coli.
Nature communications
May 7, 2025
The DNA binding of most Escherichia coli Transcription Factors (TFs) has not been comprehensively mapped, and few have models that can quantitatively predict binding affinity. We report the global mapping of in vivo DNA binding for 139 E. coli TFs us...
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