Genetic diversity and population structure

The paper develops a method to infer dispersal parameters and effective population density in spatially heterogeneous populations using shared haplotype segments.

The paper examines genetic structure in Cannabis sativa across nine collections, finding inconsistent clustering and greater diversity in modern cultivars compared to landraces.

The paper examines hybridisation between cultivated Robusta coffee and its wild relative Coffea canephora in DR Congo, finding limited but detectable gene flow from cultivated to wild populations.

This study reveals genetic admixture, population decline, and wide sourcing of white-bellied pangolins in West Africa, highlighting conservation concerns and the need for multi-locus trade tracking.

The paper identifies structural variants, SNPs, and indels in Atlantic salmon populations to explore their role in local adaptation.

The paper uses genotyping-by-sequencing to analyze genetic diversity and population structure in harbour seals across the eastern Pacific and western Atlantic, finding elevated diversity in the Pacific and subspecies differentiation.

RIDGE detects gene flow barriers between species pairs using Bayesian statistics and summary statistics, showing effectiveness in identifying barrier loci and migration signals.

The paper identifies Helicoverpa armigera-H. zea hybrids using genome admixture analysis and highlights the importance of reference datasets for accurate predictions.

The paper uses genomic analyses to study demographic changes in deer populations due to climate and human pressures, finding evidence of population decline and recovery.

The paper describes relatedness coefficients for gene triplets and quartets, focusing on statistical methods and challenges in estimation using genetic marker data.

This study examines genetic differentiation in the spider Argyrodes bonadea across the Southwestern Pacific, finding that host specialization drives genetic variation while generalist strategies promote broad dispersal and gene flow.

The paper investigates introgressive hybridization in nine-spined sticklebacks, finding that selection on introgressed variation varies across genomic regions and that adaptive introgression occurs in response to environmental conditions.

This study investigates genetic changes in Svalbard reindeer due to historical overharvesting using ancient and modern genomes, showing reduced genetic diversity and altered allele frequencies.

This paper develops a SNP panel for high-resolution genetic assessment of European bison, enabling accurate genotyping from non-invasive samples and supporting conservation efforts.

The paper compares epigenetic and genetic spatial structures in Mediterranean mountain plants, finding that narrow endemics show lower epigenetic differentiation than widespread congeners.

FSTest 1.3 estimates four Fst statistics from VCF files and compares performance with VCFtools and PLINK on 1000 Genomes data.

The paper uses genetic analysis to show Foskett Spring dace have a large effective population size and a recent origin from Coleman Creek, resolving a long-standing persistence mystery.

The paper presents the genome assembly of the common myna, along with genomic features and demographic analysis, to study invasion genetics and population dynamics.

The paper presents genomic evidence of early radiation stages in Galapagos prickly pear cacti, highlighting geographic structure and candidate loci associated with adaptation.

The paper introduces slendr, an R package for simulating spatio-temporal population genomic data, and demonstrates its features through example workflows.

This study uses genomic data to identify historic population declines in European forest bats, finding significant declines linked to habitat loss and human activity.

This paper introduces a multistage GSI method that integrates regional baselines to improve broad-scale stock identification without requiring overlapping markers or populations.

The paper develops a method to identify and quantify the effects of multiple linked selected sites in admixed populations, finding that linkage impacts selection estimates.

This paper describes methods to collect and extract DNA from unhatched bird eggs to study early embryo mortality and its genetic factors.

This study identifies environmental drivers of genetic differentiation in mountain chickadees using ddRAD data and environmental variables.

GGoutlieR identifies and visualizes geo-genetic outliers in biological samples to improve landscape genomics analyses.

The paper develops genomic resources for Typha, a wetland plant genus, by sequencing 140 samples and identifying SNPs and plastome sequences to study genetic diversity and hybridization.

This study compares genetic diversity between wild Japanese and cultured Canadian Yesso scallops using ddRAD-sequencing, finding reduced polymorphism and genetic differentiation in cultured populations.

The paper analyzes the genetic structure and demographic history of green peafowls using whole-genome sequencing data to identify distinct populations and inform conservation strategies.

disperseNN2 estimates dispersal distance from georeferenced polymorphism data, outperforming existing methods by 33-48% in error reduction.