Genetic diversity and population structure

The paper proposes and validates a Last Glacial Maximum calibration method for population genetic studies of reef species, showing its utility in linking population dynamics to environmental factors like sea level and reef development.

The paper assesses genetic diversity and differentiation of two Sperata species in Indian rivers using mitochondrial DNA, finding distinct maternal lineages and suggesting separate management units.

The paper shows that filtering parameter choices in reduced representation sequencing analyses impact population structure detection, depending on the inherent genetic differentiation of the dataset.

This study uses SNP markers from GBS to analyze genetic diversity and population structure of seven Acrocomia species, revealing genetic groupings and diversity patterns.

The paper assesses the utility of the Mouse Diversity Genotyping Array (MDGA) for cross-species genomic studies in non-model rodents, finding it effective for closely related species but underestimating diversity in more distant ones.

ClinePlotR visualizes genomic clines and detects outlier loci using outputs from two software packages, enhancing reproducibility and accessibility of cline analysis methods.

The paper reports the genetic confirmation of Kashmir musk deer presence in Uttarakhand, India, suggesting a range expansion and a new distribution record.

This study uses population genetic analysis to delimit species and assess landscape effects on genetic divergence in Rheobates frogs, finding that local environments, not geographic barriers, drive divergence.

geaR is an R package for evolutionary analysis of genome-wide genotype data, enabling efficient querying and analysis of genetic diversity and admixture using GDS format.

This study investigates the genetic variation and phylogeography of Himalayan goral, identifying two subspecies and suggesting six species within the genus Naemorhedus.

The paper analyzes the genetic structure of Coconut Rhinoceros Beetle populations and the prevalence of their biocontrol agent across the South Pacific, finding multiple mitochondrial lineages and high viral infection rates.

The paper shows that demographic inference models can produce false results when applied to data from sub-populations or genomes with loci under selection.

The paper uses whole-genome resequencing to analyze genetic diversity and sex determination system loss in northern pike across North America, finding reduced diversity and a patchwork distribution of the amhby gene.

The paper analyzes the population structure of golden mussels across five Brazilian reservoirs using ddRAD-seq and finds no geographic genetic structure.

This study examines genetic introgression in sticklebacks across the Baltic and North Seas, finding that introgression decreases with distance from source populations and shows signs of both neutral and adaptive effects.

The paper introduces approximate formulas for the joint site frequency spectrum across multiple populations, improving computational efficiency compared to exact methods.

The paper examines how genomic regions under soft sweeps affect population history inferences using site pattern frequencies, finding small impacts despite differences between neutral and selected regions.

This study analyzes the population genetics of sugar kelp in the Northwest Atlantic using genome-wide markers to assess genetic diversity and detect selection signatures.

This study uses mtDNA sequences to show that whaling and climate changes shaped the population history of bowhead whales, with hunting reducing effective population size to 38% of its original level.

The paper assesses genetic diversity and structure of wild and cultivated chestnut in France, finding high diversity and evidence of admixture between French and Iberian populations.

The paper shows that purifying selection reduces intraspecific mtDNA variation to that of slowly evolving nuclear rRNA, leading to unreliable demographic estimates.

ipADMIXTURE infers sub-population clusters and their phylogeny from genetic admixture Q matrices, offering a new approach to analyze population structure.

The paper develops resistance surfaces using a pattern-oriented modeling approach to analyze how landscape features influence genetic differentiation in Baru populations.

This study analyzes the genetic diversity of Ae. albopictus in Portugal, identifying multiple introduction events and potential within-country dispersal.

The paper introduces a novel genotyping pipeline, ACACIA, validated using a known model system to improve multi-locus genotyping in complex multigene systems.

The paper develops new measures to compare geographic histories in pathogens' genomes, revealing diverse diffusion paths in viral evolution.

This study analyzes genetic diversity in lions over time, finding decreased nuclear diversity and increased fine-scale structure due to habitat fragmentation, while mitochondrial diversity remained stable.

The paper analyzes genetic variation in Aedes aegypti populations from Ecuador using mitochondrial genes, finding two haplotypes with geographic distribution and evidence of balancing selection.

The paper compares SSR and SNP markers for constructing core-collections in a walnut germplasm collection, finding both suitable for preserving biodiversity.