Sam Yeaman

This paper introduces SimGEA, a simulation-based method for genotype-environment association analysis that controls false discovery rates while maintaining statistical power.

This study examines how recombination and structural variants contribute to local adaptation in three-spined sticklebacks, finding population-specific recombination shifts and associations between structural variants, reduced recombination, and genomic differentiation.

The paper compares genomic patterns of adaptation and introgression in two replicated hybrid zones of spruce, finding similar differentiation and directional introgression despite different environmental gradients.

The paper investigates the genetic architecture of climate-adaptive traits in Douglas-fir, finding polygenic and redundant patterns that complicate genomic predictions of maladaptation to future climates.

The paper develops a theoretical method to analyze complex spatially heterogeneous population models and shows that high environmental spatial autocorrelation promotes the maintenance of locally adaptive alleles.

This study identifies genetic factors underlying resistance to Dothistroma septosporum in lodgepole pine, jack pine, and their hybrids using genome-wide association analysis.

This study identifies gene families involved in repeated global adaptation across 17 plant species, showing reduced pleiotropy and increased gene duplication compared to local adaptation.

This paper develops a mathematical model to analyze how mutation swamping affects genetic architecture under varying mutation rates and selection pressures, finding a threshold mutation rate range of 10^-3 to 10^-2.

This study uses simulations to show that migration increases repeated genetic adaptation despite pleiotropy, suggesting repeatability is more common in local adaptation than global adaptation.

This study identifies genomic signatures of benzimidazole drug resistance in Haemonchus contortus using field populations with defined treatment histories, showing the isotype-1 β-tubulin gene as the primary resistance locus.

The paper uses pool-seq and exome capture to identify SNPs in two conifer species, showing high correlation between pooled and individual sequencing with improved accuracy using haploid tissue.

The paper reports a partial genome assembly of Ephedra sinica using Illumina short-read sequencing at low coverage.

rearrvisr detects, classifies, and visualizes genome rearrangements by projecting them onto a reference genome, achieving high precision and recall on simulated data.

The paper tests for index switching in Illumina HiSeq sequencing data and finds no evidence of increased switching on HiSeq X.