IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-19 DOI: 10.1093/evolut/qpag185

Aurélien Tauzin, Antoine Frenoy

{"title":"Emergence of mutants in bacterial populations: a simulation-based approach for parameter inference in extended Luria & Delbrück scenarios.","authors":"Aurélien Tauzin, Antoine Frenoy","doi":"10.1093/evolut/qpag185","DOIUrl":"https://doi.org/10.1093/evolut/qpag185","url":null,"abstract":"Bacterial mutation rates are traditionally inferred from phenotypic data using fluctuation assays. Mutation rate computation from these assays relies on a mathematical model describing the emergence of mutants during population growth. However, this standard model relies on restrictive assumptions that are often transgressed in real biological setups. Key assumptions include equal growth rate of the wild-type and the mutant population, no cell death during the growth phase, and no post-growth sampling. Although several refined mathematical models have been proposed over the last decades to circumvent some of these assumptions, none can fully account for the complex ecological scenarios frequently observed in the lab or in the wild, such as the combination of cell death and an unknown fitness effect of the mutation, or non-constant death rates. In this work, we propose to replace these standard mathematical models by a stochastic simulation framework, which can circumvent all these assumptions. We provide a fast and accurate implementation of this stochastic model, and combine it with an Approximate Bayesian Computation scheme to perform simulation-based, likelihood-free parameter inference. Our approach can simultaneously infer mutation rate and fitness effect of the mutation while accounting for death and partial plating, and could be extended to arbitrary complex conditions that can be efficiently simulated.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149223608","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Ancestral introgression and dual mitochondrial capture shaped mito-nuclear discordance in sky-island skinks (Scincidae: Sphenomorphus). 天岛石龙子的祖先基因渗入和双线粒体捕获形核分裂不一致。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-19 DOI: 10.1093/evolut/qpag191

Tzong-Han Lin, Yu-Te Wang, Pei-Chun Liao, Hung Ngoc Nguyen, Hui-Yun Tseng, Si-Min Lin

{"title":"Ancestral introgression and dual mitochondrial capture shaped mito-nuclear discordance in sky-island skinks (Scincidae: Sphenomorphus).","authors":"Tzong-Han Lin, Yu-Te Wang, Pei-Chun Liao, Hung Ngoc Nguyen, Hui-Yun Tseng, Si-Min Lin","doi":"10.1093/evolut/qpag191","DOIUrl":"https://doi.org/10.1093/evolut/qpag191","url":null,"abstract":"Mito-nuclear discordance can obscure the interpretation of evolutionary history, particularly in fragmented systems where multiple processes can generate similar phylogenetic patterns. We investigated pronounced discordance between mitochondrial and nuclear genomes in two parapatric montane skinks, Sphenomorphus taiwanensis and S. luelaiorum, from Taiwan's sky islands. Using mitochondrial sequences and genome-wide ddRAD-seq SNPs, we evaluated incomplete lineage sorting, introgression, and ghost introgression as alternative explanations, while assessing sex-biased dispersal, selection, and demographic history. Model-based analyses supported historical introgression between extant lineages but provided little evidence for ghost introgression. An expanded coalescent analysis favored bidirectional over unidirectional introgression. Genomic indices showed no consistent sex-biased dispersal, whereas mitochondrial selection signals were restricted to particular lineages. Coalescent estimates and forward simulations indicated that small effective population sizes could increase the probability of mitochondrial capture. We interpret the discordance as the outcome of ancestral bidirectional introgression followed by genetic drift in isolated montane populations, with selection potentially facilitating fixation under high-altitude conditions. These findings illustrate how gene flow and demographic processes in fragmented landscapes can generate persistent mito-nuclear discordance, underscoring the importance of integrating genomic and ecological evidence when interpreting mitochondrial phylogenies.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149223606","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Full-likelihood genomic inference resolves intergroup hybrid speciation in the only known parthenogenetic pleurodont lizard (Liolaemus parthenos). 全似然基因组推断解决了唯一已知的孤雌生殖胸骨蜥（Liolaemus parthenos）的群间杂交物种形成。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-16 DOI: 10.1093/evolut/qpag189

Kevin I Sánchez, Edward A Myers, Luciano J Avila, Mariana Morando

{"title":"Full-likelihood genomic inference resolves intergroup hybrid speciation in the only known parthenogenetic pleurodont lizard (Liolaemus parthenos).","authors":"Kevin I Sánchez, Edward A Myers, Luciano J Avila, Mariana Morando","doi":"10.1093/evolut/qpag189","DOIUrl":"https://doi.org/10.1093/evolut/qpag189","url":null,"abstract":"Hybridization is increasingly recognized as an important evolutionary process that can reshape genomes and generate novel lineages. One striking outcome is the origin of obligately parthenogenetic populations, often through interspecific hybridization. Here, we use genome-wide data and coalescent models to reconstruct the evolutionary history of Liolaemus parthenos, the only known parthenogenetic pleurodont lizard. We sampled the darwinii complex (L. darwinii, L. grosseorum, L. laurenti, and L. parthenos) and L. josei from the donosobarrosi group, selected as a candidate paternal lineage based on phylogenetic and biogeographic evidence. Mitochondrial data place L. parthenos within northern L. darwinii, consistent with a maternal origin, whereas nuclear genomic summaries position it between L. darwinii and L. josei. Bayesian model comparison supports a hybrid speciation model involving northern L. darwinii and L. josei, rejecting alternative parental combinations and models without introgression. Triangle plots further support a stabilized hybrid lineage. Climatic niche analyses reveal strong divergence from northern L. darwinii but substantial overlap with L. josei, partially supporting geographical parthenogenesis. More broadly, our study demonstrates the utility of model-based genomic approaches for resolving hybrid origins in non-model systems and expands the comparative framework for understanding the emergence and persistence of asexual vertebrate lineages.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149192272","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Digest: Light environments poorly explain hummingbird plumage colour. 摘要：光环境很难解释蜂鸟羽毛的颜色。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-16 DOI: 10.1093/evolut/qpag188

Catherine Nistha

引用次数: 0

Evolution towards monomorphy leads to a loss of morph plasticity in wing polymorphic crickets. 向单一性的进化导致翅膀多态蟋蟀形态可塑性的丧失。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-16 DOI: 10.1093/evolut/qpag190

Lourenço M A Martins, Lily J Donzeiser, O M Ruffins, Jacqueline E Lebenzon, Lisa A Treidel, Abigail G Keller, Kristi L Montooth, Colin D Meiklejohn, Caroline M Williams

{"title":"Evolution towards monomorphy leads to a loss of morph plasticity in wing polymorphic crickets.","authors":"Lourenço M A Martins, Lily J Donzeiser, O M Ruffins, Jacqueline E Lebenzon, Lisa A Treidel, Abigail G Keller, Kristi L Montooth, Colin D Meiklejohn, Caroline M Williams","doi":"10.1093/evolut/qpag190","DOIUrl":"https://doi.org/10.1093/evolut/qpag190","url":null,"abstract":"Threshold traits are widespread forms of dimorphism in which an underlying continuous liability produces discrete phenotypes once a threshold is crossed. The threshold trait model predicts that phenotypic variation will be observed only when the distribution of liability spans the threshold, and may otherwise remain latent, complicating predictions of how genetic and environmental variation shape responses to selection. We tested this prediction in the wing-polymorphic cricket Gryllus lineaticeps, in which wing length is a heritable, plastic threshold trait with an endocrine basis. We confirmed the final juvenile instar as the sensitive period for wing-morph determination and validated general esterase activity as a predictor of adult wing morph. We manipulated genetic variation in liability through directional selection on wing morph and then measured plasticity in wing morph and esterase activity. Selected populations, predicted to have extreme liability distributions not spanning the threshold, were non-plastic for wing-morph frequency despite maintaining plasticity in esterase activity. Thus, physiological plasticity persisted but became cryptic at the morphological level. These results support predictions of the threshold trait model and demonstrate that shifts in the liability distribution can mask environmental sensitivity, providing a framework for understanding the dynamic evolution and role of phenotypic plasticity in threshold traits.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149192243","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Increasing absolute prey density within a mimicry complex protects aposematic models and their Batesian mimics. 在模仿复合体中增加绝对猎物密度可以保护警告模型和它们的贝叶斯模仿者。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-14 DOI: 10.1093/evolut/qpag186

Abigail E Robinson, Alejandra Camargo-Cely, Julia B Meyersiek, Colleen Fetherston, Sarah Speroff, Musfika Mishi, Kaela Sanborn, Maria Osipovich, Rachel Borzymowski, Jessica Herrmann, Susan Finkbeiner, Peter Buston, Sean P Mullen

{"title":"Increasing absolute prey density within a mimicry complex protects aposematic models and their Batesian mimics.","authors":"Abigail E Robinson, Alejandra Camargo-Cely, Julia B Meyersiek, Colleen Fetherston, Sarah Speroff, Musfika Mishi, Kaela Sanborn, Maria Osipovich, Rachel Borzymowski, Jessica Herrmann, Susan Finkbeiner, Peter Buston, Sean P Mullen","doi":"10.1093/evolut/qpag186","DOIUrl":"https://doi.org/10.1093/evolut/qpag186","url":null,"abstract":"Batesian mimicry is a defensive adaptation where predators learn to avoid aposematic prey and generalize their warning signals to phenotypically similar mimics. The phenotypic accuracy needed for mimics to benefit from this adaptation depends on the relative densities of models and mimics and the model's unpalatability. As aposematic models become more unpalatable or more common relative to their mimics, warning signals become stronger, allowing even poor mimics to benefit. However, few studies have disentangled the importance of relative frequencies of models and mimics from absolute density of the prey community (both models and mimics) in driving relaxed selection on mimicry. Here, we test the hypothesis that increasing model unpalatability and absolute prey community density accelerates predator avoidance learning and enhances protection for mimics. Using replicas of the model Adelpha iphiclus (Linnaeus, 1758), its mimic Adelpha serpa (Boisduval, 1836), and the palatable control Junonia evarete (Cramer, 1779), we conducted field experiments that enhanced model unpalatability and doubled absolute prey density while maintaining a constant ratio of model, mimic, and control phenotypes. We found that enhanced model unpalatability and increased absolute density significantly reduced predation on all species, highlighting absolute community density as an underappreciated mechanism shaping selection on Batesian mimics.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149180318","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Morphological Constraint Shapes Diversification in a Hyperdiverse Lineage of Neotropical Tetras: A Geometric Morphometric Analysis of Three Subfamilies of Acestrorhamphidae (Teleostei: Characiformes). 形态约束决定了新热带四目鲤的高度多样化谱系的多样化：三亚科的几何形态计量学分析。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-13 DOI: 10.1093/evolut/qpag187

Volnys K Bernal, Bruno A S Coelho, Lais Reia, Michael D Burns, Ricardo C Benine

{"title":"Morphological Constraint Shapes Diversification in a Hyperdiverse Lineage of Neotropical Tetras: A Geometric Morphometric Analysis of Three Subfamilies of Acestrorhamphidae (Teleostei: Characiformes).","authors":"Volnys K Bernal, Bruno A S Coelho, Lais Reia, Michael D Burns, Ricardo C Benine","doi":"10.1093/evolut/qpag187","DOIUrl":"https://doi.org/10.1093/evolut/qpag187","url":null,"abstract":"The order Characiformes (Teleostei: Ostariophysi) represents one of the most diverse groups within the Neotropical freshwater ichthyofauna. Recently, a phylogeny with unprecedented resolution redefined its internal relationships and delimited Acestrorhamphidae as the most species-rich family within the group. Despite this high diversity, its members exhibit a notably homogeneous body morphology, raising questions about the evolutionary process governing phenotypic evolution in a group known for its ecological and morphological diversity. The present study investigates three subfamilies of Acestrorhamphidae, Pristellinae, Stethaprioninae, and an unnamed subfamily, using geometric morphometrics, phylogenetic comparative methods, and multivariate statistical approaches within a time-calibrated phylogenetic framework. The results revealed weak modularity and a strong integration signal among three recovered anatomical partitions (cranial, postcranial, and caudal), with morphological variation concentrated along a single dominant axis (74.93%) and significant anisotropy (p < 0.05). Morphological variation was largely organized around two contrasting phenotypes: elongated forms, with low body depth and long standard length, and robust forms, with greater body depth and shorter body length. The results suggest that phenotypic diversification in this acestrorhamphid clade has occurred within a restricted region of morphospace, consistent with a scenario in which strong integration channels morphological evolution along a limited set of viable body-shape trajectories.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149180336","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Correction to: The futility of attempts to rehabilitate Fisher's Fundamental Theorem of Natural Selection. 更正：试图恢复费雪的自然选择基本定理是徒劳的。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-12 DOI: 10.1093/evolut/qpag170

引用次数: 0

Ecological Filtering Shapes Morphological Diversity Across Flow Regimes in Neotropical Characiforms. 生态过滤在新热带特征中塑造了不同流态的形态多样性。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-08 DOI: 10.1093/evolut/qpag184

Michael D Burns, Shih-Na Liu, Peter C Wainwright

{"title":"Ecological Filtering Shapes Morphological Diversity Across Flow Regimes in Neotropical Characiforms.","authors":"Michael D Burns, Shih-Na Liu, Peter C Wainwright","doi":"10.1093/evolut/qpag184","DOIUrl":"https://doi.org/10.1093/evolut/qpag184","url":null,"abstract":"Colonizing novel habitats can increase ecological opportunity, promoting rapid phenotypic evolution as species adapt to new niches. However, colonization of a novel habitat can limit phenotypic diversity without changing the rate of evolution if the transition is recent and ecological filtering favors only a few highly adaptive phenotypes. We examine body shape diversity in Neotropical characiforms across flow regimes using linear morphometrics integrated with phylogenetic comparative methods, including disparity metrics, ancestral state reconstructions, and evolutionary model fitting, to explore the role of time, evolutionary rate, and functional constraints in explaining patterns of morphological diversity. Among sampled extant lineages, reconstructed high-flow habitat colonization was rare until the last 60 million years, after which it steadily increased. Low-flow fishes exhibit greater body shape disparity than high-flow species, though evolutionary rates are similar. Low body shape diversity in high-flow habitats results from a combination of two factors. First, characiforms have occupied high-flow habitats for less time, having recently transitioned from low-flow environments. Second, the body shapes of high-flow lineages are not a random subset of low-flow lineages. Instead, they are restricted to intermediate body shapes and some unusually dorsally flattened and elongated forms, likely reflecting the mechanical demands imposed by fast-flowing water. Consistent with this interpretation, phylogenetic comparative analyses supported a multiple-optima Ornstein-Uhlenbeck model (OUM), indicating distinct adaptive body shape optima for high- versus low-flow regimes. Higher body shape diversity in low-flow habitats appears to reflect longer occupation, fewer flow-related constraints, and environmental stability over 100 million years. Our study highlights how patterns of phenotypic diversity emerge on broad landscapes through the interplay between habitat-specific environmental factors and evolutionary time.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149135416","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Tempo and mode of morphological evolution in Australian and New Guinea diving beetles from underground waters to high-elevation peat swamps. 澳大利亚和新几内亚潜水甲虫从地下水到高海拔泥炭沼泽的形态演化速度和模式。

IF 3 2区环境科学与生态学

Evolution Pub Date : 2026-10-06 DOI: 10.1093/evolut/qpag183

Yuxuan Zhao, Adrián Villastrigo, William F Humphreys, Michael Balke, Lars Hendrich, Steven J B Cooper, Emma Sherratt

{"title":"Tempo and mode of morphological evolution in Australian and New Guinea diving beetles from underground waters to high-elevation peat swamps.","authors":"Yuxuan Zhao, Adrián Villastrigo, William F Humphreys, Michael Balke, Lars Hendrich, Steven J B Cooper, Emma Sherratt","doi":"10.1093/evolut/qpag183","DOIUrl":"https://doi.org/10.1093/evolut/qpag183","url":null,"abstract":"Transitions into novel environments expose species to altered biotic and abiotic selection pressures, promoting phenotypic diversification and the emergence of distinct ecological niches. While phenotypic change is often attributed to adaptive selection, non-adaptive processes, including relaxed selection and genetic drift, may also contribute to morphological evolution. Over the past c.10 million years, Australian and New Guinea diving beetles (Limbodessus, Dytiscidae) have repeatedly diversified across three contrasting environments: above-ground in lowland-montane waters and high-elevation habitats, and below-ground in groundwater aquifers. The recurrent habitat transitions serve as natural \"evolutionary experiments\" to investigate different selection pressures. Using a phylogenetic comparative approach, we examined the tempo and mode of Limbodessus body-shape evolution to distinguish between adaptive and relaxed selection across ecotypes. Lowland-montane dytiscids exhibit convergent evolution and slow morphological rates of evolution, consistent with stabilising selection maintaining streamlined forms. Subterranean species present high morphological disparity and diffuse morphospace occupation, suggesting relaxed or neutral evolution. High-elevation species show rapid morphological evolution into novel morphospace regions, suggesting strong selection pressures distinct from those in lowland environments. Together, our findings emphasise the importance of relaxed selection and neutral processes in shaping phenotypic variability during ecological transitions.","PeriodicalId":12082,"journal":{"name":"Evolution","volume":" ","pages":""},"PeriodicalIF":3.0,"publicationDate":"2026-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149106274","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

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