460 papers
By applying the newly introduced marginal Akaike information criterion (mAIC) to diverse empirical datasets, this study demonstrates that mixture models universally outperform partitioned models for phylogenetic analyses of amino acid data, highlighting the importance of further developing mixture models for accurate evolutionary inference.
This study demonstrates that in bedbugs, the novel mesospermalege organ assumes key reproductive functions typically found in the female tract, while the delayed postmating transcriptional response in the reproductive tract confirms it is triggered specifically by sperm arrival rather than the mating act itself.
This study demonstrates that interallelic cis-regulatory dominance, mediated by transcriptional hubs and transvection, masks deleterious expression-reducing mutations in heterozygotes to preserve essential gene function while simultaneously enabling evolutionary innovation by allowing the exploration of novel mutational paths.
Analyzing 60,000 generations of the Lenski long-term evolution experiment reveals that gene adaptation follows a predictable sequence from growth to survival traits, with evolutionary rates declining over time as diminishing fitness returns from beneficial mutations drive populations toward stasis and neutral evolution.
This two-year mesocosm study demonstrates that while global change pressures like warming and predation drove rapid evolution in the ecosystem function of decomposition, they did not cause divergent evolution in classic functional traits, with genetic drift and non-neutral processes influencing these outcomes differently.
This study employs a data-driven microbial model to demonstrate that population genetics and adaptive dynamics often yield divergent eco-evolutionary predictions for species interactions, particularly regarding coexistence, due to the critical influence of finite timescales, mutation supply, effect sizes, and species asymmetries.
This study demonstrates that local variation in group size significantly modulates age-specific kinship dynamics and the timing of age-linked social behaviors, such as the shift from harming to helping and the onset of menopause, by showing that smaller groups accelerate these evolutionary transitions compared to larger ones.
This study demonstrates that threespine sticklebacks have rapidly and repeatedly evolved adaptive expansions of the *MYH3C* gene family on their sex chromosome through tandem duplications, resulting in increased muscle gene expression and distinct ecological divergence between freshwater and marine populations.
This study characterizes the divergent early transcriptional signatures of the wheat pathogen *Gaeumannomyces tritici* and its protective endophyte relative *G. hyphopodioides*, revealing that the endophyte undergoes significant reprogramming and stress responses linked to vesicle formation and effector upregulation, while the pathogen employs a stealthy strategy of gene downregulation and lignin degradation to evade host defenses.
This study reveals that while three boreal tree species in Sweden share a common north-south genetic contact zone aligned with environmental gradients, they exhibit distinct patterns of gene flow and local adaptation architectures, ranging from broad genomic distribution to specific chromosomal inversions, illustrating how migration and selection jointly shape genomic landscapes in shared environments.
This study presents a continental-scale analysis of genomic diversity across 46 frog species in eastern North America, revealing consistent latitudinal gradients, a lack of association with human disturbance, and a new framework for identifying priority conservation areas based on multi-species diversity patterns.
This study demonstrates that horizontal plasmid transfer accelerates the segregation of intracellular allele diversity (heteroplasmy) into homoplasmic states, revealing conjugation as a previously unrecognized mechanism shaping the evolution of multicopy plasmids.
This study demonstrates that ancient transposable element polymorphisms, rather than single nucleotide polymorphisms, drive global ecological adaptation to cold-season temperatures in *Spirodela polyrhiza*, thereby resolving the paradox of how this species sustains adaptive potential despite chronically low nucleotide diversity.
By applying a novel polymorphism-based method to Drosophila melanogaster, this study demonstrates that weak natural selection acts on synonymous codon changes to optimize codon usage, mRNA stability, and expression levels, a conclusion validated by the convergence of multiple independent lines of evidence.
This paper presents a theoretical model extending the Stag Hunt game to demonstrate how endogenous population growth and scale-dependent cooperative thresholds create a "cooperation ladder" that drives historical surges in social complexity while explaining why societies often stall or revert due to intermediate incentives for free-riding.
This paper presents a novel likelihood-free inference method using Approximate Bayesian Computation to simultaneously estimate the number of selected single nucleotide polymorphisms and their selection coefficients in evolving populations, effectively addressing challenges posed by genomic linkage and providing robust uncertainty quantification.
This study identifies a conserved class of phospholipid transporters (StarAsg1) in Asgard archaea that structurally and functionally resemble eukaryotic lipid transfer proteins, suggesting that inter-membrane lipid transport machinery predated the evolution of eukaryotic organelles and facilitated their development.
This study utilizes bioinformatics and structural modeling to demonstrate that thyroglobulin's complex multidomain architecture, originating from a nidogen-like precursor through successive duplications and module integrations, was fully established in jawless vertebrates and has remained remarkably conserved across all vertebrate lineages.
This study reveals that genus-wide homologous recombination of tail fiber genes drives the diversity and evolutionary dynamics of the conserved carotovoricin tailocin in *Pectobacterium*, thereby shaping bacterial community interactions and host range specificity.
The paper introduces pylifemap, a Python package that enables researchers to visualize diverse biological datasets on an interactive, full-scale NCBI taxonomy tree to overcome current limitations in data representation and facilitate unbiased exploration.