Rolf Müller

TopFor automates the generation of AMBER-compatible parameters for noncanonical amino acids in peptides, enabling efficient MD simulations and integration into peptide discovery workflows.

This study identifies sex-dimorphic molecular responses to microglial depletion in aged mice, highlighting differences in transcriptional and proteomic changes between males and females.

The paper presents 154 new Myxococcota genomes, expands taxonomy, and identifies novel natural products, highlighting their biosynthetic potential for drug discovery.

This study identifies nitroxoline's antibacterial mechanism as pathogen-driven reactivation of its metabolites through iron deprivation in uropathogens.

This study develops MAPPER, a framework for predicting antibiotic modes of action using proteomics and chemical data, showing it can classify mechanisms and detect novel compounds.

This study isolates and characterizes two new compounds from myxobacteria, elucidates their structures, and evaluates their antimicrobial activity against Gram-positive bacteria.

The paper introduces RACE, a method for rapidly evolving NRPSs through recombineering, generating novel peptides and uncovering new recombination sites.

LoReMINE is an automated pipeline for microbial genome mining that integrates assembly, classification, and biosynthetic gene cluster prediction from long-read data.

This study identifies chlorotonils as potent anti-Mtb agents and shows resistance is mediated by MmpR5-MmpL5.

The paper reveals streptavidin's dual role in sequestering biotin and neutralizing acidomycin, balancing an antibiotic network in microbial competition.

This paper discovers first-in-class 1,2,4-triazole-based non-nucleoside inhibitors of MraY with broad-spectrum antibacterial activity against multiple bacterial species.

This study profiles cystobactamids' off-target effects in eukaryotes, showing safety, superoxide reduction, and SCARB1 inhibition with therapeutic potential.

This study investigates how mechanical confinement in hydrogels affects growth, metabolism, and gene expression in gram-negative and gram-positive probiotic bacteria.

This study develops PEARL, an engineered living material using encapsulated recombinant lactobacilli in alginate beads for controlled protein release over 14 days.

The paper develops a thermo-amplifier circuit in probiotic E. coli to control the release of darobactin, a peptide antibiotic, at 40°C while maintaining low leakiness at 37°C.

This study uses spatial transcriptomics to compare aging and infection effects across multiple organs in mice, identifying shared gene expression patterns in immune pathways.

This study identifies and characterizes XrdM, an amide methyltransferase involved in dithiolopyrrolone antibiotic biosynthesis, and shows it is distinct from DtpM in structure and function.

ABC-HuMi catalogs 19,218 biosynthetic gene clusters from the human microbiome, offering a comprehensive resource for exploring bioactive compound potential.

The paper shows that bursts in biosynthetic gene cluster transcription in Sorangium sp. correlate with natural compound production, challenging the idea that BGCs are preferentially expressed under nutrient limitation.

The paper integrates whole-genome sequencing and culture-based antibiotic resistance data from 11,087 clinical isolates to identify gene-drug resistance associations and create a resource for research.