460 papers
Phylogenomic analyses using targeted capture data reveal that the New Zealand alpine conifer *Podocarpus nivalis* originated as a hybrid between the New Zealand species *P. laetus* and the Australian *P. lawrencei*, highlighting the significance of reticulate evolution in Southern Hemisphere conifers.
This study reveals that the convergent domestication of grain amaranth was driven by repeated mutations in a single gene that caused a pleiotropic loss of seed color and dormancy, providing a competitive advantage in human-modified agricultural environments independent of intentional human selection for visual traits.
By integrating genome skimming with network phylogenomics, this study reveals that pervasive incongruence between nuclear and plastid trees in the Morelloid clade is driven primarily by repeated chloroplast capture and reticulate evolution rather than incomplete lineage sorting.
By analyzing genome assemblies and re-sequenced individuals of *Leptidea* butterflies, this study reveals that chromosomal rearrangements are primarily driven by large clusters of satellite DNA, ribosomal DNA, and segmental duplications rather than transposable elements, while also linking fission-dominated lineages to genome expansion and fusion-dominated lineages to genome reduction.
This study demonstrates that the invasive fly *Drosophila suzukii* exhibits seasonal adaptive tracking of thermal tolerance through polygenic mechanisms that lag behind environmental changes and leave weak genomic signals, contrasting with the strong genomic signatures observed for oligogenic traits like pesticide resistance.
This study on *Tribolium castaneum* reveals that evolving immunity against single or coinfecting pathogens does not incur broad fitness trade-offs, but instead involves condition-dependent costs such as reduced quinone production and resource-limited reproductive declines.
This study demonstrates that in the New Zealand mudsnail, variation in genome size (ploidy) reshapes the organism's overall chemical composition by driving a coordinated redistribution of multiple elements across tissues, rather than altering single-element requirements in isolation.
This study demonstrates that the density landscape of coding DNA sequences (CDS) serves as a universal and deeply conserved predictor of chromatin compartmentalization across 247 species, explaining the presence or absence of plaid patterns in contact maps more consistently than other genomic features like GC content or repeat elements.
By comparing single-cell transcriptomes of the calcareous sponge *Sycon capricorn* with those of demosponges and cnidarians, this study validates Haeckel's hypothesis that sponge body layers (choanoderm and pinacoderm) are homologous to eumetazoan germ layers (endoderm and ectoderm), positioning sponges as an intermediate evolutionary step between protists and complex animals.
This paper presents a new dynamical model demonstrating that phage life-history traits, specifically the trade-off between lysis time and burst size, evolve predictably in response to environmental factors such as adsorption-limiting interventions and primary productivity gradients.
This study demonstrates that in {Phi}X174 bacteriophages, single-point mutations in the major capsid protein can drive evolutionary trajectories by modulating adsorption rates and environmental persistence in response to transfer interval conditions, revealing a trade-off between early infection efficiency and late-stage particle loss that shapes adaptation to different environments.
By applying a domain-adaptive neural network to over 800 ancient and modern Eurasian genomes, researchers demonstrated that hard selective sweeps predominated in human history and that numerous beneficial adaptations involving traits like pigmentation and neuronal function persisted despite strong eroding forces such as admixture and genetic drift.
This study reveals that while the striped Venus clam (*Chamelea gallina*) exhibits high gene flow across the Mediterranean and Northeast Atlantic, local adaptation to environmental gradients drives significant genetic differentiation, highlighting the necessity of incorporating adaptive genomic data to define robust management units for sustainable fisheries.
This study of Indigenous populations in Kenya and Malaysia reveals that while APOE ε4 consistently elevates cholesterol levels, its biological consequences regarding immunity and reproduction are context-dependent and not universally beneficial in non-industrial environments, highlighting how industrialized settings modify the costs and benefits of this ancestral allele.
This study demonstrates that the *ivory:mir-193* locus acts as a master regulator of melanic scale fate in *Heliconius* butterflies, where *ivory* drives wing pattern variation and *mir-193* functions as a co-transcriptional terminator to mediate downstream diversity in scale cell differentiation.
This study reveals that transposable element diversity in polychaetes is significantly lower in thermally unstable environments like hydrothermal vents, suggesting that natural selection balances thermal stress-induced transposition against the accumulation of deleterious mutations to maintain sustainable genome-wide mutation rates.
Using non-destructive microcomputed tomography on three Neanderthal juveniles, researchers determined that their fetal bone growth patterns were broadly equivalent to modern humans with some areas of advanced development, while abnormal dentine mineralization suggests a possible systemic disorder.
This paper presents a new mathematical framework called "evo-devo dynamics" that integrates sexual, multilocus genetics with complex developmental processes to provide exact and approximated equations describing evolutionary trajectories, thereby offering a unified explanation for long-standing paradoxes such as the maintenance of genetic variation and the rarity of stabilizing selection.
This in silico study leverages high-quality elephant genomes to reveal that the TP53 retrogene repertoire underwent extensive, lineage-specific expansion driven by large-scale segmental duplications and a unique chromosomal inversion, establishing a critical genomic foundation for understanding the molecular basis of elephant cancer resistance.
This study establishes the most comprehensive phylogenetic framework for Macromiidae dragonflies using Anchored Hybrid Enrichment data to resolve their evolutionary relationships, divergence times, and biogeographic history, revealing a late Oligocene Afrotropical origin with subsequent Miocene diversification across multiple continents driven by trait-independent factors rather than habitat shifts.