Macroevolution

宏观进化
  • 文章类型: Journal Article
    营养孔是长骨中轴区域的骨膜表面的小开口,穿过皮质层并到达髓腔。它们对于将营养物质和氧气输送到骨组织很重要,并且随着时间的推移对于骨骼的修复和重塑至关重要。股骨骨干中的营养孔与股骨的能量需求有关,并且已被证明与分类群的最大代谢率(MMR)有关。这里,我们研究了营养孔大小和体重之间的关系,作为生活和灭绝的异种动物中类群的有氧能力的代理,包括活树懒,食蚁兽,和Armadillos,以及已灭绝的异种动物,如字形,Pampatheres,和地面树懒。对70只股骨进行了采样,包括现存分类群的20个和灭绝分类群的50个。我们基于孔面积获得了血液流速(Q),并进行了PGLS和系统发育ANCOVA,以探索哺乳动物群体之间的差异。我们的研究结果表明,在哺乳动物中,类群通常与较低的代谢相关,如活的异种动物表现出相对较小的孔眼,而巨大的已灭绝的异种动物的孔穴,如地面树懒和字形,与非异种动物的胎盘重叠。因此,Q估计表明有氧能力可与其他胎盘巨大类群如大象或一些有蹄类动物相媲美。此外,化石巨型分类群的MMR估计显示出类似的结果,几乎所有分类单元都显示出较高的价值,除了那些已经提出了强烈的半树栖或杂居习惯的分类单元。此外,结果与预测的灭绝类群的饮食一致,这表明大量食用类似于有蹄类动物的草,并且与现存的异种动物的食叶或食虫饮食相反。MMR值的祖先重建表明所有异种动物缺乏共同的模式,由于其特定的饮食偏好和树栖或植物性习惯,强烈支持现有形式的低代谢率的发生。我们的结果强调了考虑灭绝类群的系统发育位置之外的不同证据的重要性,特别是当灭绝的形式与它们现存的亲属异常不同时。未来的研究评估巨型已灭绝的异种动物的能量需求,不应仅根据其系统发育位置和对其现有亲属的观察结果来假设这些已灭绝动物的代谢率较低。
    Nutrient foramina are small openings in the periosteal surface of the mid-shaft region of long bones that traverse the cortical layer and reach the medullary cavity. They are important for the delivery of nutrients and oxygen to bone tissue and are crucial for the repair and remodeling of bones over time. The nutrient foramina in the femur\'s diaphysis are related to the energetic needs of the femur and have been shown to be related to the maximum metabolic rate (MMR) of taxa. Here, we investigate the relationship between nutrient foramen size and body mass as a proxy to the aerobic capacity of taxa in living and extinct xenarthrans, including living sloths, anteaters, and armadillos, as well as extinct xenarthrans such as glyptodonts, pampatheres, and ground sloths. Seventy femora were sampled, including 20 from extant taxa and 50 from extinct taxa. We obtained the blood flow rate (Q̇) based on foramina area and performed PGLS and phylogenetic ANCOVA in order to explore differences among mammalian groups. Our results show that, among mammals, taxa commonly associated with lower metabolism like living xenarthrans showed relatively smaller foramina, while the foramina of giant extinct xenarthrans like ground sloths and glyptodonts overlapped with non-xenarthran placentals. Consequently, Q̇ estimations indicated aerobic capacities comparable to other placental giant taxa like elephants or some ungulates. Furthermore, the estimation of the MMR for fossil giant taxa showed similar results, with almost all taxa showing high values except for those for which strong semi-arboreal or fossorial habits have been proposed. Moreover, the results are compatible with the diets predicted for extinct taxa, which indicate a strong consumption of grass similar to ungulates and in contrast to the folivorous or insectivorous diets of extant xenarthrans. The ancestral reconstruction of the MMR values indicated a lack of a common pattern for all xenarthrans, strongly supporting the occurrence of low metabolic rates in extant forms due to their particular dietary preferences and arboreal or fossorial habits. Our results highlight the importance of considering different evidence beyond the phylogenetic position of extinct taxa, especially when extinct forms are exceptionally different from their extant relatives. Future studies evaluating the energetic needs of giant extinct xenarthrans should not assume lower metabolic rates for these extinct animals based solely on their phylogenetic position and the observations on their extant relatives.
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  • 文章类型: Journal Article
    在巨大的进化距离上,许多非凡的创新反复发生。当融合的特征出现在生命树上时,它们有时由相同的潜在基因家族驱动,而其他时候涉及许多不同的基因家族。相反,一个基因家族可以重复招募单个性状或许多不同的性状。要了解在基因组和表型水平上控制趋同的一般规则,我们系统地测试了来自993种酵母菌的14,710个基因家族的56个二元代谢性状与基因计数之间的关联。使用最近开发的系统发育方法,减少虚假相关性,我们发现,在45/56(80%)性状中,基因家族的扩展和收缩与性状的得失显着相关。尽管601/746(81%)的显著基因家族仅与一个性状相关,我们还确定了几个与所有性状中13/56(23%)显著相关的基因家族。这些结果表明,酵母的代谢创新受一系列主要遗传元件和机制的支配。
    Many remarkable innovations have repeatedly occurred across vast evolutionary distances. When convergent traits emerge on the tree of life, they are sometimes driven by the same underlying gene families, while other times many different gene families are involved. Conversely, a gene family may be repeatedly recruited for a single trait or many different traits. To understand the general rules governing convergence at both genomic and phenotypic levels, we systematically tested associations between 56 binary metabolic traits and gene count in 14,710 gene families from 993 species of Saccharomycotina yeasts. Using a recently developed phylogenetic approach that reduces spurious correlations, we discovered that gene family expansion and contraction was significantly linked to trait gain and loss in 45/56 (80%) of traits. While 601/746 (81%) of significant gene families were associated with only one trait, we also identified several \'keystone\' gene families that were significantly associated with up to 13/56 (23%) of all traits. These results indicate that metabolic innovations in yeasts are governed by a narrow set of major genetic elements and mechanisms.
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  • 文章类型: Journal Article
    蝙蝠是唯一能够进行动力飞行的哺乳动物,并且具有相应的专门身体计划,特别是在他们的肢体形态。由于缺乏信息的化石记录,蝙蝠飞行的起源仍未完全了解,但是,从功能转变的角度来看,人们普遍认为蝙蝠是从滑翔的祖先进化而来的。这里,我们通过使用系统发育比较方法对前肢和后肢特征的进化进行建模,在涵盖4种已灭绝的蝙蝠和231种具有不同运动模式的现存哺乳动物的数据集上,测试了滑翔到飞行假设对蝙蝠飞行起源的预测。我们的结果表明,滑翔机对相对细长的前肢表现出最佳的适应性特征(1),介于蝙蝠和非滑翔的树形动物之间,(2)朝向相对较窄但不较长的后肢,介于非滑翔机和蝙蝠之间。我们根据建模分析得出的肢体长度和宽度最佳趋势,提出了一种自适应景观。我们的结果支持一种假设的进化途径,其中滑翔机状颅后形态先于适应动力飞行的蝙蝠状形态,为未来的发展奠定基础,生物力学,和进化研究来检验这个想法。
    Bats are the only mammals capable of powered flight and have correspondingly specialized body plans, particularly in their limb morphology. The origin of bat flight is still not fully understood due to an uninformative fossil record but, from the perspective of a functional transition, it is widely hypothesized that bats evolved from gliding ancestors. Here, we test predictions of the gliding-to-flying hypothesis of the origin of bat flight by using phylogenetic comparative methods to model the evolution of forelimb and hindlimb traits on a dataset spanning four extinct bats and 231 extant mammals with diverse locomotor modes. Our results reveal that gliders exhibit adaptive trait optima (1) toward relatively elongate forelimbs that are intermediate between those of bats and non-gliding arborealists, and (2) toward relatively narrower but not longer hindlimbs that are intermediate between those of non-gliders and bats. We propose an adaptive landscape based on limb length and width optimal trends derived from our modeling analyses. Our results support a hypothetical evolutionary pathway wherein glider-like postcranial morphology precedes a bat-like morphology adapted to powered-flight, setting a foundation for future developmental, biomechanical, and evolutionary research to test this idea.
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  • 文章类型: Journal Article
    确定多元化率发生的谱系变化是比较系统发育学的中心目标;这些变化可能与关键的进化事件相吻合,例如新的形态特征的发展,适应性性状的获得,多倍体化或其他结构基因组变化,或扩散到新的栖息地,并随后增加环境生态位空间。然而,虽然现在存在多种方法来估计多样化率并使用系统发育拓扑来识别变化,这些方法的适当使用和准确性引起了激烈的争论。在这里,我们测试了五种贝叶斯方法-宏观进化混合物的贝叶斯分析(BAMM),血统特定的出生-死亡-转移模型(LSBDS和PESTO)的两种实现,近似多类型出生-死亡模型(MTBD;在BEAST2中实现),和Cladogenetic多元化利率偏移模型(ClaDS2)-产生可比的结果。我们将这些方法中的每一种应用于一组65个经验时间校准的系统发育,并比较了物种形成率的推论,灭绝率,和净多元化率。我们发现这五种方法经常推断不同的物种形成,灭绝,和净多元化率。因此,这些不同的估计可能导致对宏观进化动力学的不同解释。不同的估计可以归因于比较模型之间的基本差异。因此,多元化率变化的推断与方法密切相关。我们建议生物学家应用多种方法来检验结论的稳健性,或者根据基础模型假设对其特定经验系统的有效性来仔细选择方法。
    Identifying along which lineages shifts in diversification rates occur is a central goal of comparative phylogenetics; these shifts may coincide with key evolutionary events such as the development of novel morphological characters, the acquisition of adaptive traits, polyploidization or other structural genomic changes, or dispersal to a new habitat and subsequent increase in environmental niche space. However, while multiple methods now exist to estimate diversification rates and identify shifts using phylogenetic topologies, the appropriate use and accuracy of these methods are hotly debated. Here we test whether five Bayesian methods-Bayesian Analysis of Macroevolutionary Mixtures (BAMM), two implementations of the Lineage-Specific Birth-Death-Shift model (LSBDS and PESTO), the approximate Multi-Type Birth-Death model (MTBD; implemented in BEAST2), and the Cladogenetic Diversification Rate Shift model (ClaDS2)-produce comparable results. We apply each of these methods to a set of 65 empirical time-calibrated phylogenies and compare inferences of speciation rate, extinction rate, and net diversification rate. We find that the five methods often infer different speciation, extinction, and net-diversification rates. Consequently, these different estimates may lead to different interpretations of the macroevolutionary dynamics. The different estimates can be attributed to fundamental differences among the compared models. Therefore, the inference of shifts in diversification rates is strongly method dependent. We advise biologists to apply multiple methods to test the robustness of the conclusions or to carefully select the method based on the validity of the underlying model assumptions to their particular empirical system.
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  • 文章类型: Journal Article
    目标:在授粉者的限制下,专门的授粉综合征可能会朝着相反的反应发展:一种具有授粉媒介吸引力增加的广义综合征,传粉者奖励,和花粉转移能力;或自交综合征,自交花粉沉积增加,但降低了传粉者的吸引力和花粉转移能力。蜂鸣授粉综合征专门用于探索雌性振动蜜蜂作为传粉者。然而,在大西洋森林(AF)领域的山地地区,振动蜜蜂变得不那么活跃的传粉者。这项研究调查了在AF领域的山地地区,专门的嗡嗡声授粉综合征是否会向替代花卉综合征发展。将广义和自交综合征视为替代反应。
    方法:我们利用蜂鸣授粉的米孔尼亚中的一个谱系作为研究系统,山地AF特有物种和非特有物种之间的花卉性状对比。我们测量并验证了作为传粉媒介吸引代理的花卉性状,奖励访问,花粉传递能力,和自花粉沉积。我们通过系统发育比较方法推断了花卉性状的进化。
    结果:AF特有物种选择性地进化出了更大的奖励途径,并且更频繁地进行了通才授粉。尽管如此,AF特有物种也选择性地向较低的花粉转移能力和较大的自花授粉进化。这些模式表明了一个复杂的进化过程,该过程共同有利于广义和自交综合征。
    结论:蜂鸣授粉综合征可在AF域的山地区域发生进化破坏。这种花综合征可能比通常认为的更不稳定,允许蜂鸣授粉的植物在振动蜜蜂不太可靠的传粉者的环境中繁殖。
    OBJECTIVE: Under pollinator limitations, specialized pollination syndromes may evolve toward contrasting responses: a generalized syndrome with increased pollinator attraction, pollinator reward, and pollen transfer capacity; or the selfing syndrome with increased self-pollen deposition, but reduced pollinator attraction and pollen transfer capacity. The buzz-pollination syndrome is specialized to explore female vibrating bees as pollinators. However, vibrating bees become less-active pollinators at montane areas of the Atlantic Forest (AF) domain. This study investigated whether the specialized buzz-pollination syndrome would evolve toward an alternative floral syndrome in montane areas of the AF domain, considering a generalized and the selfing syndromes as alternative responses.
    METHODS: We utilized a lineage within the buzz-pollinated Miconia as study system, contrasting floral traits between montane AF-endemic and non-endemic species. We measured and validated floral traits that were proxies for pollinator attraction, reward access, pollen transfer capacity, and self-pollen deposition. We inferred the evolution of floral trait via phylogenetic comparative methods.
    RESULTS: AF-endemic species have selectively evolved greater reward access and more frequently had generalist pollination. Nonetheless, AF-endemic species also have selectively evolved toward lower pollen transfer capacity and greater self pollination. These patterns indicated a complex evolutionary process that has jointly favored a generalized and the selfing syndromes.
    CONCLUSIONS: The buzz pollination syndrome can undergo an evolutionary disruption in montane areas of the AF domain. This floral syndrome is likely more labile than often assumed, allowing buzz-pollinated plants to reproduce in environments where vibrating bees are less-reliable pollinators.
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  • 文章类型: Journal Article
    在所有主要的脊椎动物谱系中都有人工进化,并且通常与形态适应和增加的多样化相关,同时伴随着进入新的生态位空间。在鳞片爬行动物中,脚,爪子,和尾巴形态是经过充分研究的适应,被证明与向人工现实的过渡有关。这里,我们研究了一个不太容易理解的特征——龙骨尺度——与微生境的关系,气候,以及跨不同蜥蜴辐射的多样化动态,阿伽玛科.我们发现祖先的加甲虫背部有龙骨,但腹侧没有。进一步,背龙骨和腹龙骨在进化上解耦。腹侧龙骨鳞片与人造物体一起反复演变,可能有利于减少磨损或在攀爬时促进互锁。我们没有发现龙骨秤和多样化之间的联系,表明龙骨不允许在其他树栖相关性状中观察到更精细的微生境划分。我们还发现了龙骨腹侧鳞片与陆地物种降水之间的关系,我们认为龙骨可能起到减少鳞片降解的作用。我们的结果表明,龙骨腹侧鳞片促进了跨agamid蜥蜴向树体的过渡,并强调需要进行未来的研究,以探索其与微生境和气候相关的生物力学功能。
    Arboreality has evolved in all major vertebrate lineages and is often associated with morphological adaptations and increased diversification concomitant with accessing novel niche space. In squamate reptiles, foot, claw, and tail morphology are well-studied adaptations shown to be associated with transitions to arboreality. Here, we examined a less well understood trait-the keeled scale-in relation to microhabitat, climate, and diversification dynamics across a diverse lizard radiation, Agamidae. We found that the ancestral agamid had keeled dorsal but not ventral scales; further, dorsal and ventral keels are evolutionarily decoupled. Ventral keeled scales evolved repeatedly in association with arboreality and may be advantageous in reducing wear or by promoting interlocking when climbing. We did not find an association between keeled scales and diversification, suggesting keels do not allow finer-scale microhabitat partitioning observed in other arboreal-associated traits. We additionally found a relationship between keeled ventral scales and precipitation in terrestrial species where we posit that the keels may function to reduce scale degradation. Our results suggest that keeled ventral scales facilitated transitions to arboreality across agamid lizards, and highlight a need for future studies that explore their biomechanical function in relation to microhabitat and climate.
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  • 文章类型: Letter
    暂无摘要。
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  • 文章类型: Journal Article
    扩散是生态学和进化的关键过程。虽然分散对多样性的影响得到了广泛认可,我们对多样性对扩散的影响的理解仍然有限。这源于动态,上下文相关,分散的非线性和普遍存在的性质。多样性成果,比如竞争,互利,寄生和营养相互作用可以反馈扩散,从而在几个时空尺度上影响生物多样性模式。这里,我们通过讨论分散多样性生态和进化反馈如何影响宏观生态模式来阐明分散多样性因果关系。我们强调了分散多样性反馈对于提高我们对宏观生态进化模式及其挑战的理解的重要性,例如建立一个统一的框架,用于在各种学科和规模之间传播术语和方法。本文是主题问题“扩散的多样性依赖性:种间相互作用决定空间动力学”的一部分。
    Dispersal is a key process in ecology and evolution. While the effects of dispersal on diversity are broadly acknowledged, our understanding of the influence of diversity on dispersal remains limited. This arises from the dynamic, context-dependent, nonlinear and ubiquitous nature of dispersal. Diversity outcomes, such as competition, mutualism, parasitism and trophic interactions can feed back on dispersal, thereby influencing biodiversity patterns at several spatio-temporal scales. Here, we shed light on the dispersal-diversity causal links by discussing how dispersal-diversity ecological and evolutionary feedbacks can impact macroecological patterns. We highlight the importance of dispersal-diversity feedbacks for advancing our understanding of macro-eco-evolutionary patterns and their challenges, such as establishing a unified framework for dispersal terminology and methodologies across various disciplines and scales. This article is part of the theme issue \'Diversity-dependence of dispersal: interspecific interactions determine spatial dynamics\'.
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  • 文章类型: Journal Article
    背景:开花植物的进化成功与其繁殖结构的巨大多样性有关。尽管最近在了解花结构和进化的被子植物全趋势方面取得了进展,缺乏关于被子植物种子形式和功能多样性的综合观点。
    方法:在这里,我们提出了一个路线图,以综合现有被子植物中种子形式的多样性,依靠形态空间的概念,即涉及多个性状并描述实现形态的数学表示。我们就如何扩大质量以外的可测量特征的范围提供建议,通过使用代表胚胎的关键形态特征,胚乳,和种皮,还有水果属性(例如,开裂,肉质)。这些关键性状用于构建和分析形态空间,以检测进化趋势并深入了解形态性状与种子功能的关系。最后,我们概述了挑战和未来的研究方向,将形态空间与宏观进化比较方法相结合,以强调引起观察到的种子形式多样性的驱动因素。
    结论:我们得出结论,这种多维方法具有潜力,虽然仍未开发,为了提高我们对生殖特征之间共变的理解,并从整体上进一步阐明被子植物的生殖生物学。
    BACKGROUND: The evolutionary success of flowering plants is associated with the vast diversity of their reproductive structures. Despite recent progress in understanding angiosperm-wide trends of floral structure and evolution, a synthetic view of the diversity in seed form and function across angiosperms is lacking.
    METHODS: Here we present a roadmap to synthesise the diversity of seed forms in extant angiosperms, relying on the morphospace concept, i.e. a mathematical representation which relates multiple traits and describes the realised morphologies. We provide recommendations on how to broaden the range of measurable traits beyond mass, by using key morphological traits representative of the embryo, endosperm, and seed coat but also fruit attributes (e.g., dehiscence, fleshiness). These key traits were used to construct and analyse a morphospace to detect evolutionary trends and gain insight into how morphological traits relate to seed functions. Finally, we outline challenges and future research directions, combining the morphospace with macroevolutionary comparative methods to underline the drivers that gave rise to the diversity of observed seed forms.
    CONCLUSIONS: We conclude that this multidimensional approach has the potential, although still untapped, to improve our understanding of covariation among reproductive traits, and further elucidate angiosperm reproductive biology as a whole.
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  • 文章类型: Journal Article
    花卉长寿,花保持开放和功能的时间长度,是一种系统发育保守的性状,可以平衡花的成本与花的授粉率。长期以来,花卉对称性一直被认为是花卉进化的关键特征。尽管同形(双侧对称)花通常比同形(径向对称)花接收更少的花访客,还没有确定这是否与更长的花卉寿命有关。使用新收集的野外数据结合文献中168科1452种物种的数据,我们在系统发育框架中评估花卉长寿是否与花卉对称性共变。我们发现合子花的寿命平均比变形花长1.1天,寿命增加26.5%,两组之间差异很大。我们的结果为讨论植物合子形态的生态和进化成本提供了基础。尽管付出了这些代价,在被子植物的整个历史中,zygomorphy已经进化了无数次,我们讨论了在同花果中,哪些奖励可能会超过较慢授粉的成本。
    Floral longevity, the length of time a flower remains open and functional, is a phylogenetically conserved trait that balances floral costs against the rate at which flowers are pollinated. Floral symmetry has long been considered a key trait in floral evolution. Although zygomorphic (bilaterally symmetric) flowers typically receive fewer floral visitors than actinomorphic (radially symmetric) flowers, it is yet to be determined whether this could be associated with longer floral longevity. Using newly collected field data combined with data from the literature on 1452 species in 168 families, we assess whether floral longevity covaries with floral symmetry in a phylogenetic framework. We find that zygomorphic flowers last on average 1.1 days longer than actinomorphic flowers, a 26.5% increase in longevity, with considerable variation across both groups. Our results provide a basis to discuss the ecological and evolutionary costs of zygomorphy for plants. Despite these costs, zygomorphy has evolved numerous times throughout angiosperm history, and we discuss which rewards may outweigh the costs of slower pollination in zygomorphic flowers.
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