T. K. Chafin

Riverscape community genomics: A comparative analytical approach to identify common drivers of spatial structure

This paper identifies common drivers of genetic structure in riverine fish communities using a comparative approach to genetic beta-diversity across multiple species.

Trait-based predictors of genomic diversity within freshwater fish communities of the Ozarks

The paper uses phenotypic traits to predict genetic diversity in freshwater fish species across the Ozarks, finding that traits explain 31-68% of genetic variability.

A community genomics approach to natural hybridization

The paper examines hybridization across 75 freshwater fish communities using SNP genotyping, finding widespread hybridization and environmental predictors.

Relictual Hybridization and Biogeography of Massasauga Rattlesnakes (Sistrurus spp.)

This study examines hybridization and biogeography in Massasauga rattlesnakes using ddRAD sequencing, revealing population structure and historical range dynamics shaped by climate change.

Parallel introgression, not recurrent emergence, explains apparent elevational ecotypes of polyploid Himalayan snowtrout

The study investigates elevational ecotypes in polyploid snowtrout, finding that parallel introgression, not recurrent emergence, explains morphological convergence across drainage systems.

Quantifying isolation-by-resistance and connectivity in dendritic ecological networks

The paper introduces ResistNet, a framework for analyzing dendritic ecological networks by aligning genetic distances with environmental covariates, and evaluates it using ddRAD data from Speckled Dace.

The Himalayan Uplift and the Evolution of Aquatic Biodiversity Across Asia: Snowtrout (Cyprininae: Schizothorax) as a Test Case

This paper tests the hypothesis that Himalayan uplift dispersed aquatic biodiversity by analyzing the phylogeography of Snowtrout fish across Asia.

Taxonomic hypotheses and the biogeography of speciation in the Tiger Whiptail complex (Aspidoscelis tigris: Squamata, Teiidae)

This paper investigates the biogeography and speciation patterns in the Tiger Whiptail complex using mitochondrial DNA sequences to test taxonomic hypotheses and identify genetic divergence drivers.

Spatial population genetics in heavily managed species: Separating patterns of historical translocation from contemporary gene flow in white-tailed deer

The paper disentangles historical translocation effects from contemporary gene flow in white-tailed deer using SNP data and spatial analysis.

Contrasting signatures of introgression in North American box turtle (Terrapene spp.) contact zones

The paper examines introgression patterns in North American box turtles, identifying genomic regions associated with thermal adaptation and species boundaries.

Taxonomic Uncertainty and the Anomaly Zone: Phylogenomics Disentangle a Rapid Radiation to Resolve Contentious Species (Gila robusta complex) in the Colorado River

The paper uses genomic and spatial data to resolve taxonomic uncertainty in the Gila robusta complex, finding three distinct species despite phylogenetic discordance caused by rapid radiation.

Are populations of economically important bonefish and queen conch 'open' or 'closed' in the northern Caribbean Basin?

The paper uses population genomic analyses to determine if bonefish and queen conch populations in the northern Caribbean Basin are open or closed, finding genetic structure in conch and asymmetrical gene flow in bonefish.

The choices we make and the impacts they have: Machine learning and species delimitation in North American box turtles (Terrapene spp.)

The paper evaluates machine learning-based species delimitation in North American box turtles using ddRAD SNP data with varying filtering strategies, finding that phylogenetic discordance affects classification.

Genome-wide local ancestries discriminate homoploid hybrid speciation from secondary introgression in the red wolf (Canidae: Canis rufus)

The paper uses genome-wide local ancestries to distinguish homoploid hybrid speciation from secondary introgression in red wolves, revealing ancient divergence masked by recent gene flow.

Gene flow and species delimitation in fishes of Western North America: Flannelmouth (Catostomus latipinnis) and Bluehead sucker (C. Pantosteus discobolus)

This study uses ddRAD sequencing to analyze gene flow and species boundaries in two fish species, identifying new lineages and introgression patterns in the Colorado River system.

Hybridization drives genetic erosion in sympatric desert fishes of western North America

This study examines hybridization between two sympatric desert fish species in the Colorado River Basin, finding genetic erosion and hybrid swarms linked to anthropogenic habitat modifications.