460 papers
TaxonMatch is a tool designed to integrate heterogeneous taxonomic data from diverse biological databases by resolving nomenclatural inconsistencies and synonymy, thereby enabling the construction of unified taxonomic backbones for applications such as linking molecular data to fossils and identifying endangered species.
This study reveals that the rapid, sex-specific evolution of the mouse salivary gland secretome is driven by lineage-specific gene expansions and regulatory rewiring, particularly within the submandibular gland where testosterone-associated motifs and chromatin domain expansions amplify sexual dimorphism.
This study demonstrates that the evolutionary history of symbiosis with specific *Paraburkholderia* bacteria creates path dependence in *Dictyostelium discoideum* hosts, influencing their subsequent evolutionary trajectories even after the symbionts are removed.
This study on nine-spined sticklebacks confirms that linked selection significantly reduces nucleotide diversity in low-recombination regions of large populations and reveals that at least one small freshwater population has evolved a higher recombination rate than its marine ancestors, likely as an adaptive response to facilitate selection and purge deleterious mutations.
This study demonstrates that while intrinsic information sources like mechanical stress and cell age can facilitate the evolution of early multicellular life cycles, they face inherent trade-offs between flexibility and regularity that significantly limit the ability of nascent organisms to evolve tightly regulated and diverse reproductive strategies without further evolutionary innovations.
This study utilizes an age-specific R0 model to demonstrate that global population aging will differentially alter optimal pathogen virulence and mortality rates by 2050, driving increases in specific regions for diseases like Ebola and Measles while decreasing them in others due to changes in host recovery and infection duration.
By integrating phylogenetic estimates with deep mutational scanning data, this study reveals that SARS-CoV-2 evolution is driven by a continuous selection for enhanced ACE2 binding alongside a dynamic, shifting arms race where natural selection increasingly targets specific antibody classes (particularly class 3 and 2) as population immunity changes.
By analyzing multi-tissue transcriptomic data from lungfish and four other vertebrates, this study demonstrates that conserved gene co-expression networks and retained ohnologs from ancient whole-genome duplications were co-opted and shaped by selection to facilitate the physiological adaptations required for terrestrial life, such as estivation.
This study reveals that in the self-fertilizing *Arabidopsis thaliana*, local environmental constraints and resource allocation trade-offs drive divergent evolutionary trajectories in flower size, with strong purifying selection favoring smaller flowers at climatic margins while relaxed constraints in suitable habitats maintain diverse floral phenotypes.
This study demonstrates that parallel reductions in petal size during the evolution of self-fertilization in *Brassicaceae* are driven by dosage changes in the pleiotropic regulator *JAGGED*, facilitated by a developmental architecture that minimizes pleiotropic side effects and the long-term maintenance of standing genetic variation.
This paper presents an evolutionary epidemiology model demonstrating that pathogens can adapt their epidemic timing to seasonal environments through a balance between priority effects and stabilizing selection, leading to outcomes ranging from phenological drift and stable adaptation to the coexistence of multiple seasonal morphs.
This study demonstrates that swapping dependent and independent variables in phylogenetic generalized least squares (PGLS) regression can yield inconsistent conclusions and proposes using Pagel's lambda or Blomberg's K as superior criteria for selecting the dependent variable when causal relationships between traits are unclear.
This study identifies a novel, naturally occurring unlinked toxin-antidote system in *C. elegans* where a divergent, active toxin allele in the standard N2 strain is suppressed by endogenous piRNA and 22G siRNA pathways, contrasting with the canonical linked systems found in Hawaiian isolates.
This study investigates the evolutionary dynamics of imprinted genes in *Arabidopsis lyrata* and the Brassicaceae family, revealing that while these genes show signatures of purifying selection and coevolution, their population-level patterns of balancing selection align with kinship theory predictions regarding mating systems but exhibit limited concordance with specific coding-sequence selection models, suggesting that selection may act more strongly on gene expression than on protein sequences.
Despite sharing highly conserved structures and functions, influenza hemagglutinin subtypes exhibit significantly divergent sequence constraints, with approximately half of their sites showing distinct amino acid preferences driven by differences in buried residues and rewired local interactions.
This study reveals that among 29 drosophilid fly species, egg size exhibits negative allometry relative to adult body size and evolves through gradual, stochastic divergence, a pattern that contrasts with evolutionary dynamics observed in birds, cephalopods, and reptiles.
By combining ancestral sequence reconstruction with structural and biochemical analyses, this study reveals how the RNA exosome core evolved from an active RNase into a regulatory hub that coordinates sequential RNA processing through an ancient, conserved allosteric mechanism.
This study reveals that the diversity of the Wolbachia male-killing gene *wmk* is shaped not only by sequence variation but also by a distinct lineage characterized by pronounced structural reorganization and unique genomic context, whose distribution is constrained by symbiont supergroup and host taxonomic order.
Using an eco-evolutionary simulation of tripartite networks, this study demonstrates that the diversification patterns of mutualistic and antagonistic guilds are interdependent and determined by whether their interactions are mediated by uncorrelated traits or a single shared trait (ecological pleiotropy).
By applying a test based on the ratio of non-synonymous to synonymous diversity ({pi}_n/{pi}_s), this study demonstrates that at least 75% of accessory genes in *Escherichia coli* and *Staphylococcus aureus* are adaptive, significantly revising previous estimates of their prevalence.