J. L. Kelley

Phylogenetic signal in primate tooth enamel proteins and its relevance for paleoproteomics

The paper evaluates the reliability of phylogenetic inference using primate enamel proteins by simulating sequence fragmentation and comparing results to a reference species tree.

Gene expression signatures of salinity transitions in Limia perugiae (Poeciliidae), with comparisons to other teleosts

This study uses RNA-seq to compare gene expression between freshwater and hypersaline populations of Limia perugiae, finding limited convergence in differentially expressed genes across teleosts.

Whole genomes of the amazonian Cacajao reveal complex connectivity and fast differentiation driven by high environmental dynamism

The paper presents whole genome data from 48 uakari monkeys, revealing genetic differentiation between bald and black uakaris due to environmental factors.

Ghost admixture in eastern gorillas

The paper identifies archaic admixture in eastern gorillas using whole genome sequences and ABC with neural networks, finding introgression from a ghost lineage into their common ancestor.

Hibernation shows no apparent effect on germline mutation rates in grizzly bears

This study finds no difference in male mutation bias or per-generation mutation rates between hibernating grizzly bears and non-hibernating species.

Ecology drives the degree of convergence in the gene expression of extremophile fishes

This study shows that convergence in gene expression among extremophile fishes is strongly influenced by ecological similarity rather than phylogenetic relatedness.

Integrative analyses of convergent adaptation in sympatric extremophile fishes

The paper examines convergent adaptation in three sympatric fish species exposed to H2S, finding convergence in traits and gene expression but not in genomic divergence patterns.

Can offsetting the energetic cost of hibernation restore an active season phenotype in grizzly bears (Ursus arctos horribilis)?

Feeding hibernating grizzly bears glucose partially restores metabolic parameters but not body temperature, suggesting metabolic suppression is an active process.

The biogeographic history of eelpouts and related fishes: linking phylogeny, environmental change, and patterns of dispersal in a globally distributed fish group

This study reconstructs the biogeographic history of eelpouts and related fishes using phylogenetic analysis and biogeographic modeling to link evolutionary patterns with ocean cooling events.

Cold tolerance of mountain stoneflies (Plecoptera: Nemouridae) from the high Rocky Mountains

This study examines cold tolerance in high-elevation stoneflies from the Rocky Mountains, finding species-specific variations in supercooling points and ice enclosure survival.

Convergent evolution of conserved mitochondrial pathways underlies repeated adaptation to extreme environments

This study identifies convergent genetic and physiological adaptations in multiple fish lineages that enable tolerance to hydrogen sulfide, showing that conserved mitochondrial pathways are repeatedly modified for H2S resistance.

Mountain stoneflies may tolerate warming streams: evidence from organismal physiology and gene expression

This study assesses thermal tolerance in mountain stoneflies using physiological and gene expression data, finding their critical thermal maxima exceed natural stream temperatures.

Disease swamps molecular signatures of genetic-environmental associations to abiotic factors in Tasmanian devil (Sarcophilus harrisii) populations

The paper examines how disease impacts genetic-environmental associations in Tasmanian devils, finding that disease swamps abiotic environmental signals.

Long-distance dispersal, ice sheet dynamics, and mountaintop isolation underlie the genetic structure of glacier ice worms

This study uses genome-scale data to show that ice worm populations are genetically distinct due to ice sheet dynamics and long-distance dispersal mediated by birds.

Inferring local movement of pathogen vectors among hosts

The paper uses NextRAD sequencing to infer movement of potato psyllids between host plants, identifying genetic similarities and differences that suggest potential new host species.