F. Racimo

A 20+ Ma old enamel proteome from Canada's High Arctic reveals diversification of Rhinocerotidae in the middle Eocene-Oligocene

This paper retrieves ancient enamel protein sequences from a 21-24 Ma rhinocerotid, providing new phylogenetic insights into Rhinocerotidae diversification during the middle Eocene-Oligocene.

Four centuries of commercial whaling eroded 11,000 years of population stability in bowhead whales

This study uses fossil data and modeling to show that commercial whaling caused genetic diversity loss in bowhead whales, threatening their resilience to future climate change.

Imputation of ancient canid genomes reveals inbreeding history over the past 10,000 years

This study imputes ancient dog and wolf genomes to analyze inbreeding history over 10,000 years, finding lower inbreeding in ancient populations and associations between low ROH regions and olfaction/immune genes.

The spatiotemporal distribution of human pathogens in ancient Eurasia and the emergence of zoonotic diseases

The paper maps ancient pathogens in Eurasia, showing zoonotic diseases emerged with livestock domestication and spread with pastoralist migrations.

Enamel proteins reveal biological sex and genetic variability within southern African Paranthropus

This study uses enamel proteomics to determine biological sex and assess intraspecific variation in Paranthropus robustus from South Africa, supporting the idea that morphological variation may reflect taxonomic diversity.

Inference of population genetics parameters using discriminator neural networks: an adversarial Monte Carlo approach

The paper introduces a discriminator neural network approach for inferring population genetics parameters using an adversarial Monte Carlo method, showing high accuracy on simulated data.

Exploring the effects of ecological parameters on the spatial structure of genealogies

This study investigates how spatial ecological parameters affect genealogical structure through simulations and maximum likelihood estimation.

Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters

This study uses ancient dolphin genomes to show rapid adaptation to coastal habitats through standing genetic variation and gene flow from coastal to pelagic populations.

The Selection Landscape and Genetic Legacy of Ancient Eurasians

This study models ancient Eurasian selection landscapes and shows ancestry-specific genetic risk associations with modern phenotypes.

Population genomics of the island thrush elucidates one of earth's great archipelagic radiations

This study uses genome-wide SNP data to reconstruct the phylogeny and population history of the island thrush, revealing its explosive radiation across the Indo-Pacific from migratory ancestors.

Modelling the spatiotemporal spread of beneficial alleles using ancient genomes

This paper introduces a method to model the spatiotemporal spread of beneficial alleles using ancient genomes and applies it to West Eurasian data to estimate selection strength and diffusion rates.

Detecting adaptive introgression in human evolution using convolutional neural networks

This paper develops a convolutional neural network to detect adaptive introgression in human genomes using simulated and real data, achieving 95% accuracy on simulated datasets.

A community-maintained standard library of population genetic models

The paper introduces stdpopsim, a community-maintained library for population genetic models, to standardize simulations and facilitate benchmarking of inference tools.

A geostatistical approach to modelling human Holocene migrations in Europe using ancient DNA

This study models Holocene human migrations in Europe using ancient DNA and geostatistical methods, finding links between population movements and changes in vegetation and climate.

Reduced signal for polygenic adaptation of height in UK Biobank

The paper analyzes polygenic height scores from UK Biobank and finds reduced signals of selection compared to previous studies, suggesting potential issues with population stratification correction.

Identifying loci under positive selection in complex population histories

This paper introduces a method to detect positive selection in complex population histories using admixture graphs and applies it to bovine, codfish, and human data to identify adaptive loci.

Ancient Genomics Reveals Four Prehistoric Migration Waves into Southeast Asia

The paper analyzes ancient genomes from Southeast Asia to test migration models, finding support for two major dispersal waves and genetic continuity with Andamanese populations.

Detecting polygenic adaptation in admixture graphs

This paper introduces PolyGraph, a method to detect polygenic adaptation in admixture graphs, showing its effectiveness through simulations and application to human genomic data.

Joint estimation of relatedness coefficients and allele frequencies from ancient samples

The paper develops a method to estimate contamination, sequencing error, and relatedness coefficients in ancient DNA samples without a reference panel.

Archaic adaptive introgression in TBX15/WARS2

The paper identifies an archaic adaptive introgression in the TBX15/WARS2 region in Greenlandic Inuit, showing its association with gene expression and DNA methylation changes.