Thomas Wiehe

Copy Number Variation: A Substrate for Plant Adaptation and Stress Response in Arabidopsis

The paper identifies rapidly evolving gene families and environmentally associated CNVs in Arabidopsis species, showing their role in adaptation and stress response.

Interlocus gene conversion causes mosaic divergence in tandem paralogues - simulating HMA4 evolution in Arabidopsis halleri

The paper models interlocus gene conversion in tandem paralogues using Arabidopsis halleri HMA4 genes to show mosaic divergence patterns and the impact of IGC on gene copy diversity.

Inferring the history of gene copy number evolution

The paper introduces a model to infer gene copy number evolution history using copy number counts, applied to NLR genes in A. thaliana to estimate duplication events.

Muller's Ratchet and Gene Duplication

The paper models duplication-selection dynamics in gene families, showing that finite populations experience unbounded copy number growth unless counteracted by synergistic epistasis.

Decay of the CTCF paralog BORIS in neognathous birds

The paper shows that BORIS is present in birds but frequently degraded in neognathous birds, with independent decay events affecting the coding sequence and linked to evolutionary changes.

Copy number variation and population-specific immune genes in the model vertebrate zebrafish

The paper analyzes NLR gene copy number variation and population-specific immune genes in zebrafish, finding significant differences between wild and laboratory strains.

Parthenogenomics: insights on mutation rates and nucleotide diversity in parthenogenetic Panagrolaimus nematodes

This study compares mutation rates and genetic diversity in parthenogenetic and sexual nematode species, finding lower mutation rates and higher nucleotide diversity in asexual populations.

Genetic diversity of the Atacama Desert shrub Huidobria chilensis in the context of geography and climate

The paper analyzes genetic diversity of Huidobria chilensis in the Atacama Desert using GBS data, revealing geographic genetic clusters and the influence of topography and hydrology on population structure.

The laboratory domestication of zebrafish: from diverse populations to inbred substrains

This study compares genetic diversity between wild and laboratory zebrafish strains using RAD-seq, finding higher diversity in wild populations and distinct patterns in different regions.

A common genomic code for chromatin architecture and recombination landscape

The paper investigates the relationship between chromatin architecture and recombination landscapes in human and mouse, finding that GC-rich TADs correlate with increased recombination and specific protein binding.

The neutral frequency spectrum of linked sites

The paper derives the conditional Site Frequency Spectrum for a genomic region linked to a focal mutation and presents formulas for neutrality tests in non-recombining regions.

Decomposing the site frequency spectrum: the impact of tree topology on neutrality tests

The paper decomposes the site frequency spectrum into components of tree topology and waiting times, showing their impact on neutrality tests like Tajima's D and Fay and Wu's H.

A catalogue of Bilaterian-specific genes - their function and expression profiles in early development

The paper identifies 85 clusters of bilaterian-specific genes and explores their functional roles and expression patterns across development in flies, worms, and fish.

Structure and evolutionary history of a large family of NLR proteins in the zebrafish

The paper analyzes the structure and evolutionary history of a large family of NLR proteins in zebrafish, identifying their genomic organization and mechanisms of diversification.