K. Lohse

Rewinding the ratchet: rare recombination locally rescues neo-W degeneration and generates plateaus of sex-chromosome divergence

The paper studies neo-sex chromosome evolution in butterflies, finding that rare recombination can reverse degradation and create divergence plateaus on neo-W chromosomes.

Genomic regions of current low hybridisation mark long-term barriers to gene flow in scarce swallowtail butterflies

The paper investigates long-term gene flow barriers in hybridising swallowtail butterflies using whole-genome sequencing data, finding that regions of low recent hybridisation are enriched for long-term barriers to divergence.

Genomic analyses in Drosophila do not support the classic allopatric model of speciation.

The study analyzes genomic data from Drosophila species to test the allopatric speciation model, finding common gene flow and suggesting speciation often involves long-term gene flow rather than extensive allopatry.

Inferring inter-chromosomal rearrangements and ancestral linkage groups from synteny

The paper implements and evaluates algorithms for inferring ancestral linkage groups and inter-chromosomal rearrangements using synteny, showing their effectiveness and limitations with simulations and nematode genome data.

Do chromosome rearrangements fix by genetic drift or natural selection? A test in Brenthis butterflies

The paper investigates whether chromosome rearrangements in Brenthis butterflies fix via genetic drift or natural selection, finding evidence for both mechanisms.

Chromosomal inversions and the demography of speciation in Drosophila montana and Drosophila flavomontana

This study examines chromosomal inversions in Drosophila montana and D. flavomontana, finding that inversions were present in the common ancestor and reduced gene flow between species, potentially aiding speciation.

Chromosome fissions and fusions act as barriers to gene flow between Brenthis fritillary butterflies

This study shows chromosome fissions and fusions reduce gene flow between sympatric Brenthis fritillary butterflies by lowering effective migration rates in rearranged genomic regions.

Demographically explicit scans for barriers to gene flow using gIMble

This paper introduces gIMble, a method to identify genomic barriers to gene flow by integrating demographic and selection models, applied to Heliconius butterfly data to reveal both large-effect and polygenic barriers.

Experimental introgression in Drosophila: asymmetric postzygotic isolation associated with chromosomal inversions and an incompatibility locus on the X chromosome

This study investigates genetic incompatibilities in Drosophila species by analyzing introgression patterns and finds reduced introgression on the X chromosome in reciprocal backcrosses.

The genome sequence of the scarce swallowtail, Iphiclides podalirius

This paper presents a chromosome-level genome assembly for the scarce swallowtail butterfly and reports a negative correlation between chromosome length and heterozygosity at fourfold-degenerate sites.

The genome sequence of the lesser marbled fritillary, Brenthis ino, and evidence for a segregating neo-Z chromosome

This paper presents a chromosome-level genome assembly for the lesser marbled fritillary, Brenthis ino, and provides evidence for a segregating neo-Z chromosome in males.

Estimating the rates of crossover and gene conversion from individual genomes

The paper introduces heRho, a method to co-estimate crossover and gene conversion rates from individual genomes, showing accurate estimation and potential bias in previous crossover-only models.

Sweeps in time: leveraging the joint distribution of branch lengths

This paper develops a method to identify historically adaptive genomic regions by modeling the timing and context of positive selection, improving power over existing approaches.

The Pleistocene species pump past its prime: evidence from European butterfly sister species

The paper estimates divergence times for European butterfly sister species using genome-wide transcriptome data, finding most diverged before the Pleistocene and showing contact zones are not limited to early speciation stages.

Low coverage genomic data resolve the population divergence and gene flow history of an Australian rain forest fig wasp

The paper uses low coverage genomic data to infer the divergence and gene flow history of an Australian rain forest fig wasp, finding strong support for an admixture model.

The impact of global selection on local adaptation and reproductive isolation.

This study shows that globally beneficial mutations limit local adaptation and delay genome-wide reproductive isolation despite divergent selection pressures.

Diverse demographic histories in a guild of hymenopteran parasitoids

The paper uses whole genome sequences to compare demographic histories of seven chalcid parasitoid wasp species during the Quaternary, finding idiosyncratic population size changes rather than shared patterns.

The determinants of genetic diversity in butterflies - Lewontin's paradox revisited

This study examines genetic diversity in European butterflies and finds it correlates with body size and genetic map length, not population size or fecundity.

Whole genome data reveal the complex history of a diverse ecological community

The paper uses whole genome data to analyze the assembly history of an ecological community, revealing complex patterns of species expansion and rejecting simple models of community assembly.

Maintaining their genetic distance; limited gene flow between widely hybridising species of Geum with contrasting mating systems

The paper measures gene flow between two hybridizing Geum species with different mating systems and finds limited genetic exchange despite frequent hybridization.

Blockwise Site Frequency Spectra for Inferring Complex Population Histories and Recombination

ABLE infers population history and recombination using blockwise site frequency spectra from whole genomes, showing orangutans split 650-950 kya with recent secondary contact.