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A Critical Evaluation of Network Approaches for Studying Species Interactions 对研究物种相互作用的网络方法的严格评估
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2024-07-26 DOI: 10.1146/annurev-ecolsys-102722-021904
Nico Blüthgen, Michael Staab
Ecological networks of species interactions are popular and provide powerful analytical tools for understanding variation in community structure and ecosystem functioning. However, network analyses and commonly used metrics such as nestedness and connectance have also attracted criticism. One major concern is that observed patterns are misinterpreted as niche properties such as specialization, whereas they may instead merely reflect variation in sampling, abundance, and/or diversity. As a result, studies potentially draw flawed conclusions about ecological function, stability, or coextinction risks. We highlight potential biases in analyzing and interpreting species-interaction networks and review the solutions available to overcome them, among which we particularly recommend the use of null models that account for species abundances. We show why considering variation across species and networks is important for understanding species interactions and their consequences. Network analyses can advance knowledge on the principles of species interactions but only when judiciously applied.
物种相互作用的生态网络很受欢迎,为了解群落结构和生态系统功能的变化提供了强大的分析工具。然而,网络分析和常用指标(如嵌套度和连接度)也招致了批评。一个主要的担忧是,观察到的模式会被误解为特化等生态位属性,而它们可能仅仅反映了取样、丰度和/或多样性的变化。因此,研究可能会对生态功能、稳定性或共灭绝风险得出错误的结论。我们强调了在分析和解释物种相互作用网络时可能出现的偏差,并回顾了克服这些偏差的解决方案,其中我们特别推荐使用考虑物种丰度的空模型。我们说明了为什么考虑物种和网络间的差异对于理解物种相互作用及其后果非常重要。网络分析可以促进对物种相互作用原理的了解,但前提是必须谨慎应用。
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引用次数: 0
Observed and Potential Range Shifts of Native and Nonnative Species with Climate Change 观测到的和潜在的本地和外来物种随气候变化而发生的分布范围变化
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2024-06-17 DOI: 10.1146/annurev-ecolsys-102722-013135
Bethany A. Bradley, Evelyn M. Beaury, Belinda Gallardo, Inés Ibáñez, Catherine Jarnevich, Toni Lyn Morelli, Helen R. Sofaer, Cascade J.B. Sorte, Montserrat Vilà
There is broad concern that the range shifts of global flora and fauna will not keep up with climate change, increasing the likelihood of population declines and extinctions. Many populations of nonnative species already have advantages over native species, including widespread human-aided dispersal and release from natural enemies. But do nonnative species also have an advantage with climate change? Here, we review observed and potential range shifts for native and nonnative species globally. We show that nonnative species are expanding their ranges 100 times faster than native species, reflecting both traits that enable rapid spread and ongoing human-mediated introduction. We further show that nonnative species have large potential ranges and range expansions with climate change, likely due to a combination of widespread introduction and broader climatic tolerances. With faster spread rates and larger potential to persist or expand, nonnative populations have a decided advantage in a changing climate.
人们普遍担心,全球动植物的分布范围变化跟不上气候变化的步伐,从而增加了种群减少和灭绝的可能性。与本地物种相比,许多非本地物种种群已经拥有优势,包括广泛的人类辅助传播和天敌释放。但是,非本地物种在气候变化中也有优势吗?在这里,我们回顾了在全球范围内观察到的和潜在的本地和非本地物种的分布范围变化。我们发现,非本地物种的分布范围扩大速度是本地物种的 100 倍,这既反映了能够快速传播的特性,也反映了以人类为媒介的不断引入。我们进一步表明,非本地物种的潜在分布范围和分布范围随着气候变化而扩大,这可能是由于广泛引入和更广泛的气候耐受性共同作用的结果。凭借更快的传播速度和更大的持续或扩展潜力,非本地种群在不断变化的气候中具有决定性的优势。
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引用次数: 0
Phylogenetic Insights into Diversification 系统发育对多样化的启示
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2024-06-17 DOI: 10.1146/annurev-ecolsys-102722-020508
Hélène Morlon, Jérémy Andréoletti, Joëlle Barido-Sottani, Sophia Lambert, Benoît Perez-Lamarque, Ignacio Quintero, Viktor Senderov, Pierre Veron
Species diversification—the balance between speciation and extinction—is fundamental to our understanding of how species richness varies in space and time and throughout the Tree of Life. Phylogenetic approaches provide insights into species diversification by enabling support for alternative diversification scenarios to be compared and speciation and extinction rates to be estimated. Here, we review the current toolkit available for conducting such analyses. We first highlight how modeling efforts over the past decade have fostered a notable transition from overly simplistic evolutionary scenarios to a more nuanced understanding of how and why diversification rates vary through time and across lineages. Using the latitudinal diversity gradient as a case study, we then illustrate the impact that modeling choices can have on the results obtained. Finally, we review recent progress in two areas that are still lagging behind: phylogenetic insights into microbial diversification and the speciation process.
物种多样化--物种分化与灭绝之间的平衡--是我们了解物种丰富度在空间和时间上以及在整个生命之树上如何变化的基础。通过系统发育方法,我们可以比较不同的物种多样化方案,并估算物种的分化和灭绝率,从而深入了解物种多样化。在此,我们回顾了目前可用于进行此类分析的工具包。我们首先强调了过去十年间的建模工作如何促进了从过于简单的进化情景到更加细致地理解多样化率如何以及为何随时间和不同品系而变化的显著转变。然后,我们以纬度多样性梯度为例,说明了建模选择对结果的影响。最后,我们回顾了在两个仍然落后的领域取得的最新进展:对微生物多样化和物种形成过程的系统发育研究。
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引用次数: 0
Patterns and Evolutionary Consequences of Pleiotropy 多效性的模式和进化结果
1区 生物学 Q1 ECOLOGY Pub Date : 2023-11-02 DOI: 10.1146/annurev-ecolsys-022323-083451
Jianzhi Zhang
Pleiotropy refers to the phenomenon of one gene or one mutation affecting multiple phenotypic traits. While the concept of pleiotropy is as old as Mendelian genetics, functional genomics has finally allowed the first glimpses of the extent of pleiotropy for a large fraction of genes in a genome. After describing conceptual and operational difficulties in quantifying pleiotropy and the pros and cons of various methods for measuring pleiotropy, I review empirical data on pleiotropy, which generally show an L-shaped distribution of the degree of pleiotropy (i.e., the number of traits affected), with most genes having low pleiotropy. I then review the current understanding of the molecular basis of pleiotropy. In the rest of the review, I discuss evolutionary consequences of pleiotropy, focusing on advances in topics including the cost of complexity, regulatory versus coding evolution, environmental pleiotropy and adaptation, evolution of ageing and other seemingly harmful traits, and evolutionary resolution of pleiotropy.
多效性是指一个基因或一个突变影响多个表型性状的现象。虽然多效性的概念与孟德尔遗传学一样古老,但功能基因组学终于让人们第一次看到了基因组中大部分基因的多效性程度。在描述了量化多效性的概念和操作困难以及各种测量多效性方法的优缺点之后,我回顾了多效性的经验数据,这些数据通常显示多效性程度(即受影响性状的数量)呈l形分布,大多数基因具有低多效性。然后回顾了目前对多效性分子基础的理解。在接下来的评论中,我将讨论多效性的进化后果,重点关注以下主题的进展:复杂性的代价、调控与编码进化、环境多效性和适应、衰老和其他看似有害的特征的进化,以及多效性的进化解决方案。
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引用次数: 2
How Whales Dive, Feast, and Fast: The Ecophysiological Drivers and Limits of Foraging in the Evolution of Cetaceans 鲸鱼如何潜水,盛宴和快速:鲸类动物进化中觅食的生态生理驱动因素和限制
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2023-08-29 DOI: 10.1146/annurev-ecolsys-102220-025458
J. Goldbogen, N. Pyenson, P. Madsen
Whales are an extraordinary study group for questions about ecology and evolution because their combinations of extreme body sizes and unique foraging strategies are unparalleled among animals. From a terrestrial ancestry, whales evolved specialized oceanic foraging mechanisms that characterize the two main groups of living cetaceans: echolocation by toothed whales and bulk filter feeding by baleen whales. In toothed whales, lineage-specific increases in body size, enhanced diving capacity, and echolocation enable them to hunt the most abundant prey on the planet: deep-sea fish and cephalopods. Even greater body size increases, along with filter feeding and fasting capacity, permit large baleen whales to migrate long distances and exploit epipelagic patches of schooling prey, such as krill or fish, which are highly abundant but ephemeral. For both groups, prey abundance and distribution limits foraging performance, yielding divergent energetic niches that have shaped their convergent evolution to gigantism. Expected final online publication date for the Annual Review of Ecology, Evolution, and Systematics, Volume 54 is November 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
鲸鱼是研究生态学和进化问题的一个非凡群体,因为它们的极端体型和独特的觅食策略在动物中是无与伦比的。从陆地祖先开始,鲸鱼进化出了专门的海洋觅食机制,这是两种主要的鲸类动物的特征:齿鲸的回声定位和须鲸的大量过滤进食。在齿鲸中,特定血统的体型增加,潜水能力增强,回声定位使它们能够捕食地球上最丰富的猎物:深海鱼类和头足类动物。更大的体型增加,以及滤食和禁食能力,使大型须鲸能够长距离迁徙,并利用浮游猎物,如磷虾或鱼类,这些猎物非常丰富,但转瞬即逝。对于这两个种群来说,猎物的丰度和分布限制了它们的觅食表现,产生了不同的能量生态位,这些生态位塑造了它们向巨型动物的趋同进化。预计《生态、进化和分类学年度评论》第54卷的最终在线出版日期是2023年11月。修订后的估计数请参阅http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 1
Terrestrial Phosphorus Cycling: Responses to Climatic Change 陆地磷循环:对气候变化的响应
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2023-08-24 DOI: 10.1146/annurev-ecolsys-110421-102458
D. Menge, S. Kou‐Giesbrecht, B. Taylor, P. Akana, Ayanna Butler, K. A. Carreras Pereira, S. Cooley, Vanessa M. Lau, Emma L. Lauterbach
Phosphorus (P) limits productivity in many ecosystems and has the potential to constrain the global carbon sink. The magnitude of these effects depends on how climate change and rising CO2 affect P cycling. Some effects are well established. First, P limitation often constrains CO2 fertilization, and rising CO2 often exacerbates P limitation. Second, P limitation and P constraints to CO2 fertilization are more common in warmer and wetter sites. Models that couple P cycling to vegetation generally capture these outcomes. However, due largely to differences between short-term and long-term dynamics, the patterns observed across climatic gradients do not necessarily indicate how climate change over years to decades will modify P limitation. These annual-to-decadal effects are not well understood. Furthermore, even for the well-understood patterns, much remains to be learned about the quantitative details, mechanisms, and drivers of variability. The interface between empirical and modeling work is particularly ripe for development. Expected final online publication date for the Annual Review of Ecology, Evolution, and Systematics, Volume 54 is November 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
磷(P)限制了许多生态系统的生产力,并有可能限制全球碳汇。这些影响的大小取决于气候变化和二氧化碳上升如何影响磷循环。有些影响是公认的。首先,磷限制通常会限制CO2施肥,而CO2的增加通常会加剧磷限制。第二,磷限制和磷限制对CO2施肥的影响在温暖湿润的地点更为常见。将磷循环与植被耦合的模型通常能捕捉到这些结果。然而,主要由于短期和长期动态之间的差异,在气候梯度上观测到的模式并不一定表明数年至数十年的气候变化将如何改变磷限制。这些年到十年的影响还没有得到很好的理解。此外,即使对于已被很好地理解的模式,关于定量细节、机制和可变性的驱动因素仍有许多有待学习的地方。经验和建模工作之间的接口特别成熟。预计《生态、进化和分类学年度评论》第54卷的最终在线出版日期是2023年11月。修订后的估计数请参阅http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 1
The Causes and Consequences of Seed Dispersal 种子传播的原因和后果
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2023-08-22 DOI: 10.1146/annurev-ecolsys-102320-104739
Noelle G. Beckman, Lauren L. Sullivan
Seed dispersal, or the movement of diaspores away from the parent location, is a multiscale, multipartner process that depends on the interaction of plant life history with vector movement and the environment. Seed dispersal underpins many important plant ecological and evolutionary processes such as gene flow, population dynamics, range expansion, and diversity. We review exciting new directions that the field of seed dispersal ecology and evolution has taken over the past 40 years. We provide an overview of the ultimate causes of dispersal and the consequences of this important process for plant population and community dynamics. We also discuss several emergent unifying frameworks that are being used to study dispersal and describe how they can be integrated to provide a more mechanistic understanding of dispersal. Expected final online publication date for the Annual Review of Ecology, Evolution, and Systematics, Volume 54 is November 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
种子的传播,或多孢子体远离亲本位置的运动,是一个多尺度、多伙伴的过程,它取决于植物生活史与媒介运动和环境的相互作用。种子传播是许多重要的植物生态和进化过程的基础,如基因流动、种群动态、范围扩展和多样性。本文综述了近40年来种子传播生态学和进化研究的新进展。我们概述了扩散的最终原因以及这一重要过程对植物种群和群落动态的影响。我们还讨论了几个新兴的用于研究扩散的统一框架,并描述了如何将它们整合起来,以提供对扩散的更机械的理解。预计《生态、进化和分类学年度评论》第54卷的最终在线出版日期是2023年11月。修订后的估计数请参阅http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
Evolution of a Model System: New Insights from the Study of Anolis Lizards 模式系统的进化:来自蜥蜴研究的新见解
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2023-08-22 DOI: 10.1146/annurev-ecolsys-110421-103306
M. Muñoz, L. Frishkoff, Jenna E. Pruett, D. Mahler
With decades of intensive study, Anolis lizards have emerged as a biological model system. We review how new research on anoles has advanced our understanding of ecology and evolution, challenging long-standing paradigms and opening new areas of inquiry. Recent anole research reveals how changes in behavior can restructure ecological communities and can both stimulate and stymie evolution, sometimes simultaneously. Likewise, investigation of anoles as spatial or phylogenetic evolutionary experiments has documented evolutionary repeatability across spatiotemporal scales, while also illuminating its limits. Current research places anoles as an emerging model for Anthropocene biology, with recent work illustrating how species respond as humans reconfigure natural habitats, alter the climate, and create novel environments and communities through urbanization and species introduction. Combined with ongoing methodological developments in genomics, phylogenetics, and ecology, the growing foundational knowledge of Anolis positions them as a powerful model system in ecology and evolution for years to come. Expected final online publication date for the Annual Review of Ecology, Evolution, and Systematics, Volume 54 is November 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
经过几十年的深入研究,蜥蜴已经成为一种生物模型系统。我们回顾了新的研究如何推进我们对生态学和进化的理解,挑战长期存在的范式并开辟新的研究领域。最近的一项研究揭示了行为的变化是如何重构生态群落的,并且有时会同时刺激和阻碍进化。同样,对异类的空间或系统进化实验的研究也记录了跨时空尺度的进化可重复性,同时也阐明了其局限性。最近的研究表明,当人类重新配置自然栖息地、改变气候、通过城市化和物种引入创造新的环境和社区时,物种是如何做出反应的。结合基因组学、系统发育学和生态学正在进行的方法学发展,Anolis的基础知识不断增长,使其成为未来几年生态学和进化中强大的模型系统。预计《生态、进化和分类学年度评论》第54卷的最终在线出版日期是2023年11月。修订后的估计数请参阅http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
The Deep Soil Organic Carbon Response to Global Change 深层土壤有机碳对全球变化的响应
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2023-08-22 DOI: 10.1146/annurev-ecolsys-102320-085332
Caitlin E. Hicks Pries, R. Ryals, B. Zhu, K. Min, Alexia Cooper, S. Goldsmith, J. Pett‐Ridge, M. Torn, Asmeret Asefaw Berhe
Over 70% of soil organic carbon (SOC) is stored at a depth greater than 20 cm belowground. A portion of this deep SOC actively cycles on annual to decadal timescales and is sensitive to global change. However, deep SOC responses to global change likely differ from surface SOC responses because biotic controls on SOC cycling become weaker as mineral controls predominate with depth. Here, we synthesize the current information on deep SOC responses to the global change drivers of warming, shifting precipitation, elevated CO2, and land use and land cover change. Most deep SOC responses can only be hypothesized because few global change studies measure deep soils, and even fewer global change experiments manipulate deep soils. We call on scientists to incorporate deep soils into their manipulations, measurements, and models so that the response of deep SOC can be accounted for in projections of nature-based climate solutions and terrestrial feedbacks to climate change. Expected final online publication date for the Annual Review of Ecology, Evolution, and Systematics, Volume 54 is November 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
超过70%的土壤有机碳(SOC)储存在地下20厘米以上的深度。深层有机碳的一部分在年至年代际时间尺度上活跃循环,对全球变化敏感。然而,深层有机碳对全球变化的响应可能不同于表层有机碳响应,因为生物对有机碳循环的控制变得较弱,而矿物控制在深度上占主导地位。在此基础上,我们综合了深层有机碳对全球变暖、降水转移、CO2升高以及土地利用和土地覆盖变化驱动因素的响应信息。大多数深层有机碳响应只能假设,因为很少有全球变化研究测量深层土壤,更少的全球变化实验操纵深层土壤。我们呼吁科学家将深层土壤纳入他们的操作、测量和模型中,以便在基于自然的气候解决方案和陆地对气候变化的反馈的预测中考虑深层土壤有机碳的响应。预计《生态、进化和分类学年度评论》第54卷的最终在线出版日期是2023年11月。修订后的估计数请参阅http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 3
Background Acoustics in Terrestrial Ecology 陆地生态学中的背景声学
IF 11.8 1区 生物学 Q1 ECOLOGY Pub Date : 2023-08-22 DOI: 10.1146/annurev-ecolsys-102220-030316
C. D. Francis, J. N. Phillips, J. Barber
The way in which terrestrial organisms use the acoustic realm is fundamentally important and shapes behavior, populations, and communities, but how background acoustics, or noise, influence the patterns and processes in ecology is still relatively understudied. In this review, we summarize how background acoustics have traditionally been studied from the signaling perspective, discuss what is known from a receiver's perspective, and explore what is known about population- and community-level responses to noise. We suggest that there are major gaps linking animal physiology and behavior to fitness; that there is a limited understanding of variation in hearing within and across species, especially in the context of real-world acoustic conditions; and that many puzzling responses to noise could be clarified with a community-level lens that considers indirect effects. Failing to consider variation in acoustic conditions, and the many ways organisms use and interact via this environmental dimension, risks a limited understanding of natural systems. Expected final online publication date for the Annual Review of Ecology, Evolution, and Systematics, Volume 54 is November 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
陆地生物利用声学领域的方式是至关重要的,它塑造了行为、种群和群落,但背景声学或噪音如何影响生态学的模式和过程,这方面的研究仍然相对不足。在这篇综述中,我们总结了背景声学传统上是如何从信号的角度来研究的,讨论了从接受者的角度所知道的,并探讨了人口和社区对噪音的反应。我们认为,动物生理和行为与适应性之间存在重大差距;人们对物种内部和物种间听力变化的理解有限,尤其是在现实世界的声学条件下;对噪音的许多令人困惑的反应可以通过考虑间接影响的社区层面的镜头来澄清。如果不考虑声学条件的变化,以及生物通过这种环境维度使用和相互作用的许多方式,就有可能对自然系统的理解有限。预计《生态、进化和分类学年度评论》第54卷的最终在线出版日期是2023年11月。修订后的估计数请参阅http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
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Annual Review of Ecology, Evolution, and Systematics
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