Genetic diversity and population structure

The paper investigates Lewontin's paradox by comparing k-mer-based and SNP-based genetic diversity metrics across 112 plant species, finding that k-mer diversity scales more strongly with population size.

This study investigates biases in inferring gene flow between species under misspecified models and finds that pulse introgression models are more robust to model misspecification than continuous migration models.

The paper analyzes whole-genome data from two European bumblebee species to reveal fine-scale population structure and species-specific genomic divergence patterns, including a chromosomal inversion in B. pascuorum.

This study analyzes genetic diversity in jaguars across three geographic regions, identifying population structure and immune gene variability to guide conservation strategies.

The paper analyzes whole-genome sequencing data of Lake Malawi cichlids to reveal cryptic population structure and potential undescribed species diversity in Copadichromis mloto.

The paper compares genetic variation across different geographic scales in Arabidopsis thaliana, finding that local populations contain a significant proportion of continental variation and a logarithmic relationship between genetic and geographic distance.

The paper uses museum genomics to compare historical and contemporary steelhead populations, finding minimal introgression and a decline in migration-associated haplotypes over time.

GENOMALICIOUS provides an R package with functions for population genomic analyses, simplifying data manipulation and visualization across different tools and environments.

The paper investigates genetic and epigenetic variation in two Erodium species, finding no genetic structure but significant epigenetic variation, particularly in DNA methylation patterns.

The paper examines adaptive genetic variation in Lactuca serriola along a precipitation gradient, identifying candidate genes under selection and predicting adaptive shifts in response to climate change.

The paper estimates effective (Ne) and census (Nc) population sizes and densities for invasive riverine meta-populations of Silurus glanis using genetic and demographic data combined with simulation and statistical methods.

The paper uses a new long-read genome assembly to improve population history and recombination landscape analysis in Chironomus riparius, revealing divergence timing and TE impacts.

The paper assesses how genetic mountain pine beetle populations from outbreaks alter the genetic structure of established populations over time.

The paper analyzes SNP data from Thuja plicata in UK woodlands to assess genetic diversity and effective population size under CCF management.

The paper examines the genomic structure of a clownfish hybrid zone, identifying first-generation hybrids and early backcrosses, and suggests adaptive introgression from one parent species.

This study uses SNP analysis to show that white clover populations in Brazil have high within-population genetic diversity, with some populations showing admixture with cultivars and others having distinct genetic backgrounds, confirming its naturalization.

This study evaluates genomic offset methods for predicting maladaptation to future environments across simulated datasets, finding performance depends on local adaptation and environmental complexity.

This paper develops a method to accurately compute genetic statistics from low-depth sequencing data, improving the reliability of population tree inference.

The paper investigates gene flow between mainland and island vampire bat populations in Trinidad, finding genetic distinctness and male-biased gene flow, with implications for rabies virus spread.

This study analyzes genetic diversity and population dynamics of feral horses in the Western US using microsatellite markers, finding variation influenced by management practices and geographic proximity.

This study examines the genetic impacts of commercial whaling on bowhead whales and narwhals, finding that bowhead populations experienced a sharp decline in effective population size while narwhals showed recent growth.

This study provides genomic evidence of hybridization between blue and green peafowls, identifies genetic causes of white plumage, and highlights conservation concerns.

This study uses RAD-seq to show low genetic diversity and isolation in the Uruguayan Otaria flavescens population compared to Patagonian populations.

The paper analyzes microsatellite markers across the Crassostrea genus genome, identifying distribution patterns and developing validated loci for genetic studies.

The paper develops chloroplast genome-based genetic resources for 12 subalpine tree and shrub species using genome skimming, identifying SNPs and SSRs for phylogeographic and conservation studies.

The paper uses genomics to assess genetic diversity in koalas and highlights the need for conservation strategies based on threat severity rather than genetic value.

The paper uses SNP data from Huidobria fruticosa to show recent population structure shaped by climate change over the last 2 million years in the Atacama Desert.

This study uses RAD-seq to analyze genetic adaptation in Zizania latifolia across China's eco-geographical regions, finding environmental factors strongly influence genetic structure and local adaptation.

The paper introduces a genome-wide segmentation method to detect selection footprints using FST, demonstrating its efficiency and accuracy in animal and human population genetics.