Genetic diversity and population structure

Populations of the Australian saltmarsh mosquito Aedes vigilax vary between panmixia and temporally stable local genetic structure

This study uses genomic data to show that Aedes vigilax mosquito populations exhibit varying genetic structures between panmixia and localized stability, with implications for pest management.

Fine-Resolution Asymmetric Migration Estimation

The paper develops an algorithm to estimate asymmetric migration rates in population genetic models and applies it to datasets from poplar trees, gray wolves, and humans, revealing complex migration patterns.

The genomic legacy of selectively breeding rhesus macaques for HIV/AIDS-related research

The paper shows that targeted breeding strategies in rhesus macaques reduced SIV-refractory MHC haplotypes without decreasing genetic diversity.

Climate, population size, and dispersal influences mutational load across the landscape in Vitis arizonica

This study examines how climate, population size, and dispersal affect mutational load in Vitis arizonica, finding that load is highest at the range expansion edge and influenced by climate and dispersal.

Accounting for chimerism in demographic inference: reconstructing the history of common marmosets (Callithrix jacchus) from high-quality, whole-genome, population-level data

The paper develops a Bayesian inference method to account for twin births and chimerism in marmoset population genetics, revealing a population size reduction 7,000 years ago.

On the demographic history of chimpanzees and some consequences of integrating population structure in chimpanzees and other great apes

This paper investigates the demographic history of chimpanzees by integrating population structure into models, finding that spatial models improve predictions of genetic differentiation and IBD patterns.

The classical MHC class I and II genes of O. m. formosanus exhibit different polymorphism levels

The study characterizes MHC class I and II genes in O. m. formosanus, finding monomorphic DAA/DAB genes and polymorphic UBA genes with heterozygosity benefits.

Population genetic consequences of the seasonal migrations of birds

This study uses genome data from 35 bird species to show that long-distance migration promotes genetic diversity and spatial genetic structure due to philopatry, not dispersal.

Ancient DNA reveals historical demographic decline and genetic erosion in the Atlantic bluefin tuna

This study uses ancient DNA to show that Atlantic bluefin tuna experienced a demographic decline and genetic bottleneck starting in 1900, with lower genetic diversity in modern compared to historical populations.

Escaping inbreeding: the demographic path to genetic recovery

The paper analyzes koala genomes to show that population growth can increase effective population size, helping populations escape inbreeding risks despite past bottlenecks.

Genomic Insights into Derived Dwarfism and Exudivory in a Genus (Callithrix) of the World's Smallest Anthropoid Monkeys

This study uses low-coverage whole genome sequencing to investigate the genomic basis of derived dwarfism and exudivory in Callithrix marmosets, identifying candidate genes under positive selection.

Outside your shell: how temperature shapes genetic variation in two species of congeneric marine snails

This study examines how temperature influences genetic variation in two marine snail species along a temperature gradient, finding temperature explains 9-12% of genetic differentiation.

Efficient Estimation of Nucleotide Diversity and Divergence using Depth Information

The paper introduces clam, a tool that efficiently estimates nucleotide diversity and divergence using variant-only VCFs and callable loci, improving computational performance and storage.

Spatiotemporal dynamics of non-ecological speciation in rubyspot damselflies (Hetaerina spp.)

This study investigates the spatiotemporal dynamics of non-ecological speciation in two rubyspot damselfly lineages, finding that Hetaerina titia lineages split more recently than Hetaerina americana sensu lato lineages.

Genetic diversity and fine-scale structure of two populations of a subterranean rodent, Ellobius talpinus

This study examines genetic diversity and structure in two populations of Ellobius talpinus, revealing distinct patterns of nuclear and mitochondrial variation and spatial genetic structure influenced by social and environmental factors.

Elephants inhabiting two forested sites in western Uganda exhibit contrasting patterns of species identity, density, and history of hybridization

The paper examines elephant populations in two Ugandan forests, finding contrasting species composition and hybridization histories between Kibale and Bwindi parks.

Multiplex PCR reveals population structure in an inbred communal bird.

The paper uses microsatellite markers and multiplex PCR to analyze population structure in pukeko populations, finding genetic differentiation in the North Island but no population structure in the South Island, inconclusive about range expansion origins.

Temporal and spatial population genetic variation in Chilean jack mackerel, Trachurus murphyi

This study examines temporal and spatial genetic variation in Chilean jack mackerel across seasons, confirming a stable population structure and identifying genetic markers for monitoring variability.

Introgression across narrow contact zones shapes the genomic landscape of phylogenetic variation in an African bird clade

The paper investigates how introgression through narrow contact zones affects gene-tree heterogeneity in an African bird clade, finding introgression shapes phylogenetic signals even in allopatric populations.

Genome admixture among four hare species in Iberia: focus on the broom hare (Lepus castroviejoi)

This study investigates genome admixture among four hare species in Iberia, finding small introgression events from L. granatensis, L. timidus, and L. europaeus into L. castroviejoi.

Bayesian phylodynamic inference of population dynamics with dormancy

This paper develops a Bayesian framework to infer population dynamics with dormancy using molecular sequence data under the strong seedbank coalescent model.

Evolutionary Influences on Local Patterns of Genetic Relatedness

The paper introduces LODESTAR, a method to analyze local genetic relatedness patterns using Procrustes Analysis, to identify selection regions and inverted segments.

A multipurpose microhaplotype panel for genetic analysis of California Chinook salmon

The paper introduces a microhaplotype panel for genetic analysis of California Chinook salmon, enabling high-resolution population discrimination and relationship identification.

The Precision and Power of Population Branch Statistics in Identifying the Genomic Signatures of Local Adaptation

This study compares population branch statistics to FST in detecting local selective sweeps, finding branch statistics more accurate and specific under various evolutionary models.

Genetic, epigenetic and metabolite variation in peripheral European Yew (Taxus baccata L.) populations at an unexplored part of the species natural distribution

This study examines genetic, epigenetic, and metabolite variation in three Greek Taxus baccata populations to assess their potential for taxane production and conservation.

Differing drivers of range-wide genetic diversity across previously glaciated Northern hemisphere landscapes

The paper examines genetic diversity patterns across Europe, North America, and East Asia, finding support for the central-marginal hypothesis but mixed evidence for the latitudinal gradient hypothesis.

Leveraging whole genomes, mitochondrial DNA, and haploblocks to decipher complex demographic histories: an example from a broadly admixed arctic fish

This study uses whole-genome sequencing of Arctic Char to analyze demographic history, finding mito-nuclear discordance and recombination impacts on introgression in admixed populations.

The genomic outcomes of hybridization vary over time within a monkeyflower radiation

This study examines how hybridization impacts genomes at different stages of speciation in monkeyflowers, finding that selection against recent introgression is stronger than against ancient introgression.

BREADR: An R Package for the Bayesian Estimation of Genetic Relatedness from Low-coverage Genotype Data

BREADR estimates genetic relatedness from low-coverage genotype data using Bayesian methods and returns posterior probabilities for different degrees of relatedness.

Genetic differentiation and adaptive evolution of buff-tailed bumblebees in Asia

The paper analyzes genetic differentiation and adaptive evolution of buff-tailed bumblebees in Asia and Europe, identifying genetic markers associated with environmental adaptation.