Pierre H. H. Schneeberger

The antiparasitics ivermectin and moxidectin trigger genomic and transcriptomic adaptation in bacteria

This study shows that ivermectin and moxidectin exposure leads to genomic and transcriptomic changes in bacteria, including ribosome modulation and resistance gene adjustments.

Profound taxonomic and functional gut microbiota alterations associated with trichuriasis: cross-country and country-specific patterns

This study identifies consistent taxonomic and functional gut microbiota changes associated with Trichuris trichiura infection across three countries, revealing shared ecological responses and metabolic impacts.

Assessment of ecological fidelity of human microbiome-associated mice in observational studies and an interventional trial

This study evaluates the ecological fidelity of HMA mice in replicating human microbiome responses to a microbial consortium, finding they are more similar to other mice than their human donors.

Hybrid-metagenomics reveal off-target effects of albendazole, ivermectin-albendazole and moxidectin-albendazole on the human gut bacteria.

The paper uses hybrid sequencing to analyze the off-target effects of antiparasitic drugs on the human gut microbiome, finding that ivermectin-albendazole significantly alters microbial composition and function.

A novel barcoded nanopore sequencing workflow of high-quality, full-length bacterial 16S amplicons for taxonomic annotation of bacterial isolates and complex microbial communities

This paper introduces a nanopore sequencing workflow for high-quality, full-length 16S rDNA amplicons to identify bacterial isolates and profile microbial communities, showing high agreement with MALDI-TOF and strong correlation with Illumina sequencing.

Nanopore-based analysis unravels the genetic landscape and phylogenetic relationships of human-infecting Trichuris incognita and Trichuris trichiura in Cote d'Ivoire, Uganda, Tanzania, and Laos

The paper uses nanopore sequencing to identify two genetically distinct Trichuris species in humans and non-human primates, revealing geographic patterns and highlighting a new diagnostic marker for resource-limited settings.

Discovery of a novel Trichuris species, T. incognita, with low sensitivity to albendazole-ivermectin treatment in Cote d'Ivoire patients, identified through fecal DNA metabarcoding

Genomic and morphological characterization of Trichuris incognita n. sp., a Human-Infecting Trichuris species

This study identifies and characterizes a new human-infecting Trichuris species, Trichuris incognita n. sp., which shows resistance to albendazole-ivermectin treatment and suggests species-level differences in drug response rather than resistance.

Performance characteristics of next-generation sequencing for antimicrobial resistance gene detection in genomes and metagenomes

This study evaluates the performance of short-read sequencing for detecting antimicrobial resistance genes in genomes and metagenomes, finding that assembly-based methods require 15X coverage for reliable detection.