P. D. Keightley

Variation in mutation, recombination, and transposition rates in Drosophila melanogaster and Drosophila simulans

The paper estimates mutation, recombination, and transposition rates in Drosophila melanogaster and D. simulans populations, finding variation between species, populations, and sexes.

Rates and spectra of de novo structural mutation in Chlamydomonas reinhardtii

This study estimates the rate and spectrum of structural mutations in two strains of Chlamydomonas reinhardtii using long-read sequencing, revealing strain-specific variation and associations with transposable elements.

Recommendations for improving statistical inference in population genomics

The paper discusses challenges in population genomics due to data abundance and highlights best practices for statistical inference and model fitting.

The distribution of fitness effects of spontaneous mutations in Chlamydomonas reinhardtii inferred using frequency changes under experimental evolution

The paper infers the distribution of fitness effects of mutations in Chlamydomonas reinhardtii by analyzing frequency changes under experimental evolution and finds a leptokurtic distribution with equal positive and negative effects.

Selective sweeps influence diversity over large regions of the mouse genome

This study estimates the effects of positive selection on protein-coding and regulatory mutations in wild mice, finding stronger fitness impacts from coding mutations but higher frequency in regulatory regions.

Cis-regulatory evolution spotlights species differences in the adaptive potential of gene expression plasticity

The paper identifies cis-regulatory variants affecting gene expression plasticity in three Arabidopsis species under dehydration stress, showing lineage-specific selective pressures on regulatory changes.

Direct inference of the distribution of fitness effects of spontaneous mutations in Chlamydomonas reinhardtii

The paper infers the distribution of fitness effects of spontaneous mutations in Chlamydomonas reinhardtii using a Bayesian mixture model and mutation accumulation experiments.

Understanding the factors that shape patterns of nucleotide diversity in the house mouse genome

The paper investigates how selection at linked sites affects nucleotide diversity in the house mouse genome using simulations and site frequency spectrum analysis.

Inferring the probability of the derived versus the ancestral allelic state at a polymorphic site

The paper develops a method to accurately infer ancestral and derived allele probabilities at polymorphic sites, correcting biases in parsimony-based approaches.

The recombination landscape in wild house mice inferred using population genomic data

This study constructs a recombination map for M. m. castaneus and finds conservation of recombination rate variation with M. m. domesticus, along with a positive correlation between recombination rate and genetic diversity.