Markus Pfenninger

This study compares machine learning and statistical methods for detecting polygenic adaptation using simulated evolve-and-resequence data, finding that the OCSVM-FET approach performs best.

The study shows that mutation rates in Chironomus riparius vary with temperature differently across populations from Central Europe and the Mediterranean.

The paper uses popGWAS to identify genomic variation predicting drought survival in Fagus sylvatica seedlings, showing wild-collected material outperforms seed bank sources.

The paper examines recombination rates in Chironomus riparius across latitudes, seasons, and experimental conditions, finding environmental and selection influences on recombination dynamics.

This study identifies genomic features that influence mutation distribution in Chironomus riparius, showing that coding regions are protected while repetitive elements and gene proximity shape mutational patterns.

This study shows climate change drives rapid genomic selection in Fagus sylvatica, with intense selection on heat and drought stress genes in young growth classes, but high-emission scenarios may exceed adaptive capacity.

The paper uses whole-genome sequencing to analyze genomic responses to Bti and copper exposure in Chironomus riparius, revealing distinct adaptive mechanisms despite limited phenotypic adaptation.

This study investigates how multigenerational exposure to urban runoff sediment affects fitness and genomic adaptation in Chironomus riparius, revealing polygenic adaptation and fitness trade-offs.

This study shows that mutation rates in midges are influenced by a trade-off between developmental speed and replication fidelity, with shorter generation times leading to higher daily mutation rates.

This study shows that cryptic genetic variation in Chironomus riparius is dynamically released across a temperature gradient, challenging the idea that such variation only emerges under extreme conditions.

This study measures ROS production in midge larvae across temperatures, finding distinct oxidative stress mechanisms at cold and warm extremes and adaptive antioxidant responses.

This study examines coevolution between a host and parasitic ant species across a climate gradient, revealing asymmetric genomic responses and shared adaptations to environmental pressures.

This study predicts forest tree leaf phenology under climate change by combining satellite data with GWAS to identify genetic and environmental drivers of leaf-out and shedding days.

This study introduces popGWAS, a GWAS approach using phenotypic population means and allele frequencies to identify loci underlying quantitative traits, showing effectiveness for oligogenic and moderately polygenic traits.

This study shows exposure to urban sediments containing TRWPs increases mutation rates in Chironomus riparius by 50%, with mutational profiles similar to those caused by Benzo[a]Pyrene.

The paper shows that artificial light at night alters gene expression in midges, leading to reduced fertility and population decline.

The paper identifies genomic adaptations in Aedes aegypti populations along an altitudinal gradient in Nepal, revealing non-gradual expansion of the vector into colder regions.

This study uses a multi-genomic approach to assess genetic adaptation to cadmium exposure in Chironomus riparius, finding evidence of genome-wide selective responses and potential metal efflux gene involvement.

The paper presents the first draft genome assembly and annotation of the land snail Candidula unifasciata, providing a reference for evolutionary and population genetic studies.

ModEst estimates genome size from NGS data using coverage distribution analysis, showing good agreement with flow-cytometry results even at low coverage.

The paper introduces a new file format (tbg) for genomic data and associated tools to efficiently analyze SNPs and predict amino acid changes.

The paper presents a high-quality genome assembly for Chironomus riparius using short and long reads, improving contiguity and providing the first complete mitochondrial genome and recombination rate estimates.

This paper shows that offspring number significantly influences the adaptation speed of polygenic traits in populations, explaining 42% of variance regardless of genetic architecture.

The paper investigates how minisatellite transposable elements contribute to population divergence in Chironomus riparius through differential activity and selection pressures.

The paper presents a draft genome of Radix auricularia, a freshwater snail, with high coverage and gene annotation, providing a resource for genomic and population genetic studies.