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1.
Stefano Mariani Chloe Fernandez Charles Baillie Helene Magalon Sebastien Jaquemet 《Conservation Science and Practice》2021,3(6):e407
Sharks embody several major aspects of modern marine management: they are traditionally antagonized, exploited or by-caught by humans, typically vulnerable to extirpation, pursued as luxury food, yet valued as wildlife and essential as top-down regulators in marine food webs. Due to their generally large size, elusiveness, high mobility, and potentially dangerous nature, elasmobranchs pose substantial technical challenges to biodiversity monitoring, which prompted recent efforts to harness the power of environmental DNA (eDNA) as a noninvasive survey method for these taxa. Here we deployed an elasmobranch-specific metabarcoding assay to characterize shark and ray diversity around Reunion Island, during the austral summer, detecting at least 14 species and a strong overall correlation between frequency of species detection and read abundance. Over 90% of sequence reads belonged to three large predators: scalloped hammerhead (Sphyrna lewini), tiger shark (Galeocerdo cuvier) and bull shark (Carcharhinus leucas). While the importance of tiger and bull sharks is well established in Reunion Island, and a major focus of the local shark control program, the prevalence and abundance of scalloped hammerhead has so far been grossly neglected. We also confirm the absence of typical “tropical reef sharks” around the island and reveal an important temporal fluctuation in tiger shark during the study period. Collectively, results show how eDNA can help circumvent barriers, bias and drawbacks associated with monitoring shark populations using visual and capture-based techniques, and generate spatial and temporal biodiversity data on these species for rapid consideration by marine environmental managers. 相似文献
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Dominic McAfee Ian M. McLeod Lisa Bostrm‐Einarsson Chris L. Gillies 《Restoration Ecology》2020,28(2):304-314
Recognizing the historical loss of habitats and the value and opportunities for their recovery is essential for mobilizing habitat restoration as a solution for managing ecosystem function. Just 200 years ago, Sydney rock oysters (Saccostrea glomerata) formed extensive reef ecosystems along Australia's temperate east coast, but a century of intensive harvest and coastal change now confines S. glomerata to encrusting the hard‐intertidal surfaces of sheltered coastal waters. Despite the lack of natural reef recovery, there appears enormous potential for the restoration of intertidal S. glomerata ecosystems across Australia's east coast, with large anticipated benefits to water quality, shoreline protection, and coastal productivity. Yet, no subtidal reefs remain and the potential for subtidal restoration is a critical knowledge gap. Here, we synthesize historical, ecological, and aquaculture literature to describe a reference system for the traits of S. glomerata reefs to inform restoration targets, and outline the barriers to, and opportunities and methods for, their restoration. These reefs support extremely biodiverse and productive communities and can ameliorate the environmental stress experienced by associated communities. Rock oyster restoration, therefore, provides an ecosystem‐based strategy for assisting the adaptation of marine biodiversity to a changing climate and intensive human encroachment. Though an estimated 92% of S. glomerata ecosystems are lost, there remains great potential to restore these valuable and resilient ecosystems. 相似文献
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Hongye Su;Zhen Wang;Li Ma;Ruimin Qin;Tao Chang;Zhonghua Zhang;Junfei Yao;Xudong Li;Shan Li;Xue Hu;Jingjing Wei;Fang Yuan;Haze Adi;Zhengchen Shi;Honglin Li;Huakun Zhou; 《Ecology and evolution》2024,14(11):e70511
Biodiversity and ecosystem multifunctionality are currently hot topics in ecological research. However, little is known about the role of multitrophic diversity in regulating various ecosystem functions, which limits our ability to predict the impact of biodiversity loss on human well-being and ecosystem multifunctionality. In this study, multitrophic diversity was divided into three categories: plant, animal, and microbial communities (i.e., plant diversity, rodent diversity, and bacterial and fungal diversity). Also, 15 ecosystem functions were divided into four categories—water conservation, soil fertility, nutrient cycling and transformation, and community production—to evaluate the significance of biotic and abiotic variables in maintaining ecosystem multifunctionality. Results indicated that species diversity at multiple trophic levels had a greater positive impact on ecosystem multifunctionality than species diversity at a single trophic level. Notably, the specific nature of this relationship depended on the niche breadths of plants, indicating that plants played a key role in linking above and belowground trophic levels. Abiotic factors such as altitude and pH directly acted on ecosystem multifunctionality and could explain changes in ecosystem functions. Overall, our study offers valuable insights into the critical role of multitrophic species diversity in preserving ecosystem multifunctionality within alpine grassland communities, as well as strong support for the importance of biodiversity protection. 相似文献
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珊瑚礁区生物多样性程度可以与陆地热带雨林相提并论,目前关于珊瑚礁物种多样性及其空间分布特征方面研究进展迅速,是生物多样性研究的重要基地。作为一种生态资源,珊瑚礁还具有重要的生态功能,近年来由于全球气候逐渐变暖、人类活动影响不断加剧,导致其生物多样性缩减、生态功能严重退化。珊瑚礁生态系统多样性、遗传多样性已成为珊瑚礁研究热点,珊瑚礁生态环境效应和保护管理方面的研究也越来越受到重视。我国珊瑚礁主要分布在广阔的南海海域和海南岛、台湾岛、香港和广东广西沿岸,礁区生物种类繁多,多样性程度较高,以往研究主要涉及地质、地貌、生物、环境等方面,现今和今后一段时间里迫切需要加强生物多样性和生态功能研究,以确保更有效地保护和管理珊瑚礁。 相似文献
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浮游动物是海洋生态系统的关键类群,其覆盖门类广泛,多样性高。传统形态鉴定技术需要检测人员具备专业的形态鉴定知识,且费时费力。宏条形码技术无需分离生物个体,而是提取拖网采集到的浮游动物混合样本的总DNA,或者水体中的环境DNA （eDNA）,依托高通量测序平台测序,能够实现对大规模样本快速、准确、经济的分析,在海洋浮游动物生态学研究中得到越来越广泛的应用。分析了DNA宏条形码技术常用的核糖体和线粒体分子标记,在浮游动物多样性和数量研究中的可靠性和不足,并给出在海洋浮游动物群落监测,食物关系分析及生物入侵早期预警等研究中的应用。未来,开发多基因片段组合条形码,发展完备的参考数据库及实现准确的量化研究是DNA宏条形码技术发展的重要方向。 相似文献
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两栖动物是我国受威胁程度最高的动物类群,加强两栖动物资源调查和多样性监测,是开展两栖动物保护和濒危物种拯救行动的关键性基础工作。传统的两栖动物监测主要以形态学和声学为基础,耗时费力,且难以发现一些隐蔽性较强的稀有物种。基于环境DNA(environmental DNA, eDNA)的调查方法以其快速、灵敏、高效、无创等独特优势,为两栖动物多样性监测及保护提供了新的工具。综述了eDNA在两栖动物多样性监测、外来入侵和珍稀濒危物种调查、物种丰度或生物量估测等研究领域的应用进展,分析了两栖动物eDNA产生、扩散、迁移和降解的动态变化特征及其关键影响因子,探讨了eDNA应用于两栖动物监测研究的局限性并提出了优化建议,同时对未来的研究方向进行了展望,以充分挖掘eDNA在两栖动物监测中的应用潜力,为两栖动物多样性保护和管理提供新的思路。 相似文献
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Malte Jochum Andrew D. Barnes Ulrich Brose Benoit Gauzens Marie Sünnemann Angelos Amyntas Nico Eisenhauer 《Ecology and evolution》2021,11(19):12948
Global change alters ecological communities with consequences for ecosystem processes. Such processes and functions are a central aspect of ecological research and vital to understanding and mitigating the consequences of global change, but also those of other drivers of change in organism communities. In this context, the concept of energy flux through trophic networks integrates food‐web theory and biodiversity‐ecosystem functioning theory and connects biodiversity to multitrophic ecosystem functioning. As such, the energy‐flux approach is a strikingly effective tool to answer central questions in ecology and global‐change research. This might seem straight forward, given that the theoretical background and software to efficiently calculate energy flux are readily available. However, the implementation of such calculations is not always straight forward, especially for those who are new to the topic and not familiar with concepts central to this line of research, such as food‐web theory or metabolic theory. To facilitate wider use of energy flux in ecological research, we thus provide a guide to adopting energy‐flux calculations for people new to the method, struggling with its implementation, or simply looking for background reading, important resources, and standard solutions to the problems everyone faces when starting to quantify energy fluxes for their community data. First, we introduce energy flux and its use in community and ecosystem ecology. Then, we provide a comprehensive explanation of the single steps towards calculating energy flux for community data. Finally, we discuss remaining challenges and exciting research frontiers for future energy‐flux research. 相似文献
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David B. Lindenmayer Emma L. Burns Philip Tennant Chris R. Dickman Peter T. Green David A. Keith Daniel J. Metcalfe Jeremy Russell‐Smith Glenda M. Wardle Dick Williams Karl Bossard Claire deLacey Ivan Hanigan C. Michael Bull Graeme Gillespie Richard J. Hobbs Charles J. Krebs Gene E. Likens John Porter Michael Vardon 《Austral ecology》2015,40(3):213-224
In 2050, which aspects of ecosystem change will we regret not having measured? Long‐term monitoring plays a crucial part in managing Australia's natural environment because time is a key factor underpinning changes in ecosystems. It is critical to start measuring key attributes of ecosystems – and the human and natural process affecting them – now, so that we can track the trajectory of change over time. This will facilitate informed choices about how to manage ecological changes (including interventions where they are required) and promote better understanding by 2050 of how particular ecosystems have been shaped over time. There will be considerable value in building on existing long‐term monitoring programmes because this can add significantly to the temporal depth of information. The economic and social processes driving change in ecosystems are not identical in all ecosystems, so much of what is monitored (and the means by which it is monitored) will most likely target specific ecosystems or groups of ecosystems. To best understand the effects of ecosystem‐specific threats and drivers, monitoring also will need to address the economic and social factors underpinning ecosystem‐specific change. Therefore, robust assessments of the state of Australia's environment will be best achieved by reporting on the ecological performance of a representative sample of ecosystems over time. Political, policy and financial support to implement appropriate ecosystem‐specific monitoring is a perennial problem. We suggest that the value of ecological monitoring will be demonstrable, when plot‐based monitoring data make a unique and crucial contribution to Australia's ability to produce environmental accounts, environmental reports (e.g. the State of the Environment, State of the Forests) and to fulfilling reporting obligations under international agreements, such as the Convention on Biological Diversity. This paper suggests what must be done to meet Australia's ecological information needs by 2050. 相似文献
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Kristine Bohmann Siavash Mirarab Vineet Bafna M. Thomas P. Gilbert 《Molecular ecology》2020,29(14):2521-2534
Genetic tools are increasingly used to identify and discriminate between species. One key transition in this process was the recognition of the potential of the ca 658bp fragment of the organelle cytochrome c oxidase I (COI) as a barcode region, which revolutionized animal bioidentification and lead, among others, to the instigation of the Barcode of Life Database (BOLD), containing currently barcodes from >7.9 million specimens. Following this discovery, suggestions for other organellar regions and markers, and the primers with which to amplify them, have been continuously proposed. Most recently, the field has taken the leap from PCR‐based generation of DNA references into shotgun sequencing‐based “genome skimming” alternatives, with the ultimate goal of assembling organellar reference genomes. Unfortunately, in genome skimming approaches, much of the nuclear genome (as much as 99% of the sequence data) is discarded, which is not only wasteful, but can also limit the power of discrimination at, or below, the species level. Here, we advocate that the full shotgun sequence data can be used to assign an identity (that we term for convenience its “DNA‐mark”) for both voucher and query samples, without requiring any computationally intensive pretreatment (e.g. assembly) of reads. We argue that if reference databases are populated with such “DNA‐marks,” it will enable future DNA‐based taxonomic identification to complement, or even replace PCR of barcodes with genome skimming, and we discuss how such methodology ultimately could enable identification to population, or even individual, level. 相似文献
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Abstract There is strong demand for information about the status of, and trends in, Australia's biodiversity. Almost inevitably, this demand for information has led to demand for a broad‐scale monitoring system. However, the decision to embark on a monitoring system should only be made once it has been established that a monitoring system is the optimal way to inform management. We stress the need to invest resources in assessing whether a monitoring system is necessary before committing resources to the design and implementation of the system. Current debate associated with the design of a biodiversity monitoring system has similarities to the debate within the range management profession in the early 1970s. The experience with range monitoring shows that large‐scale monitoring systems such as those being proposed will require considerable resources, recurrently expended into the distant future, but with only a limited ability to adapt to new demands. Those involved in any biodiversity monitoring system will need to understand the implications of investing in a long‐term monitoring programme. Monitoring sustainability will only be possible if the monitoring system is itself sustainable. We discuss a number of issues that need to be addressed before the system is at all sustainable. These attributes are a mix of biophysical, social and institutional attributes and highlight the view that monitoring systems of the type being suggested comprise an unusual mixture of attributes not found in typical scientific activity. The present paper is not a technical manual, but rather considers some of the design issues associated with designing and implementing large‐scale monitoring systems. 相似文献
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The present study aims to establish a long‐term intercontinental collaboration based on a sampling protocol using standardized repeated measures at permanent sites to document macromoth species richness and abundance through time and across the landscape. We pooled the data from two continental regions providing a total of 12 trap sites: Mt. Jirisan National Park in South Korea (2005–2007) and HJ Andrews Experimental Forest in Oregon, USA. (2004–2006). A synthesis of our data indicated that: (i) noctuids (43–52%) and geometrids (33–39%) dominated the measures of species richness; (ii) using our sampling protocols more than three years would be needed to obtain a value of 90% of empirical species richness relative to Chao‐1 estimated species richness; (iii) temperature alone could not explain the peak pattern in moth abundance and species richness; (iv) the highest/lowest proportion of species richness and abundance were present in similar elevation and forest sites. These observations established a foundation for developing a network‐oriented database for assessing biotic impact of environmental and contributed to identifying species at high risk to environmental change based on empirical measures of temporal and spatial breadth. 相似文献
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David R. Bellwood Christopher H. R. Goatley Orpha Bellwood 《Biological reviews of the Cambridge Philosophical Society》2017,92(2):878-901
Coral reefs are renowned for their spectacular biodiversity and the close links between fishes and corals. Despite extensive fossil records and common biogeographic histories, the evolution of these two key groups has rarely been considered together. We therefore examine recent advances in molecular phylogenetics and palaeoecology, and place the evolution of fishes and corals in a functional context. In critically reviewing the available fossil and phylogenetic evidence, we reveal a marked congruence in the evolution of the two groups. Despite one group consisting of swimming vertebrates and the other colonial symbiotic invertebrates, fishes and corals have remarkably similar evolutionary histories. In the Paleocene and Eocene [66–34 million years ago (Ma)] most modern fish and coral families were present, and both were represented by a wide range of functional morphotypes. However, there is little evidence of diversification at this time. By contrast, in the Oligocene and Miocene (34–5.3 Ma), both groups exhibited rapid lineage diversification. There is also evidence of increasing reef area, occupation of new habitats, increasing coral cover, and potentially, increasing fish abundance. Functionally, the Oligocene–Miocene is marked by the appearance of new fish and coral taxa associated with high‐turnover fast‐growth ecosystems and the colonization of reef flats. It is in this period that the functional characteristics of modern coral reefs were established. Most species, however, only arose in the last 5.3 million years (Myr; Plio–Pleistocene), with the average age of fish species being 5.3 Myr, and corals just 1.9 Myr. While these species are genetically distinct, phenotypic differences are often limited to variation in colour or minor morphological features. This suggests that the rapid increase in biodiversity during the last 5.3 Myr was not matched by changes in ecosystem function. For reef fishes, colour appears to be central to recent diversification. However, the presence of pigment patterns in the Eocene suggests that colour may not have driven recent diversification. Furthermore, the lack of functional changes in fishes or corals over the last 5 Myr raises questions over the role and importance of biodiversity in shaping the future of coral reefs. 相似文献
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Stefan Trogisch Andreas Schuldt Jürgen Bauhus Juliet A. Blum Sabine Both François Buscot Nadia Castro‐Izaguirre Douglas Chesters Walter Durka David Eichenberg Alexandra Erfmeier Markus Fischer Christian Geißler Markus S. Germany Philipp Goebes Jessica Gutknecht Christoph Zacharias Hahn Sylvia Haider Werner Härdtle Jin‐Sheng He Andy Hector Lydia Hönig Yuanyuan Huang Alexandra‐Maria Klein Peter Kühn Matthias Kunz Katrin N. Leppert Ying Li Xiaojuan Liu Pascal A. Niklaus Zhiqin Pei Katherina A. Pietsch Ricarda Prinz Tobias Proß Michael Scherer‐Lorenzen Karsten Schmidt Thomas Scholten Steffen Seitz Zhengshan Song Michael Staab Goddert von Oheimb Christina Weißbecker Erik Welk Christian Wirth Tesfaye Wubet Bo Yang Xuefei Yang Chao‐Dong Zhu Bernhard Schmid Keping Ma Helge Bruelheide 《Ecology and evolution》2017,7(24):10652-10674
Biodiversity–ecosystem functioning (BEF) research has extended its scope from communities that are short‐lived or reshape their structure annually to structurally complex forest ecosystems. The establishment of tree diversity experiments poses specific methodological challenges for assessing the multiple functions provided by forest ecosystems. In particular, methodological inconsistencies and nonstandardized protocols impede the analysis of multifunctionality within, and comparability across the increasing number of tree diversity experiments. By providing an overview on key methods currently applied in one of the largest forest biodiversity experiments, we show how methods differing in scale and simplicity can be combined to retrieve consistent data allowing novel insights into forest ecosystem functioning. Furthermore, we discuss and develop recommendations for the integration and transferability of diverse methodical approaches to present and future forest biodiversity experiments. We identified four principles that should guide basic decisions concerning method selection for tree diversity experiments and forest BEF research: (1) method selection should be directed toward maximizing data density to increase the number of measured variables in each plot. (2) Methods should cover all relevant scales of the experiment to consider scale dependencies of biodiversity effects. (3) The same variable should be evaluated with the same method across space and time for adequate larger‐scale and longer‐time data analysis and to reduce errors due to changing measurement protocols. (4) Standardized, practical and rapid methods for assessing biodiversity and ecosystem functions should be promoted to increase comparability among forest BEF experiments. We demonstrate that currently available methods provide us with a sophisticated toolbox to improve a synergistic understanding of forest multifunctionality. However, these methods require further adjustment to the specific requirements of structurally complex and long‐lived forest ecosystems. By applying methods connecting relevant scales, trophic levels, and above‐ and belowground ecosystem compartments, knowledge gain from large tree diversity experiments can be optimized. 相似文献
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Because of the urgent need for robust, long‐term information on biodiversity loss and environmental change, we have proposed a Long‐Term (>10 years) Environmental Monitoring (LTEM) Network for Australia. The LTEM Network would comprise 25 Nodes distributed throughout Australia, be focused on terrestrial, inland aquatic and coastal estuarine ecosystems, and be established to monitor long‐term biodiversity loss and ecological change (patterns and trends). The LTEM Network would be question‐problem‐process‐driven and not infrastructure‐driven. Thus, the different Nodes in the LTEM Network would explicitly recognize different biota, different environmental problems, different environmental threats and different kinds of management interventions in different ecosystems. We provide a governance structure for the proposed LTEM Network and envisage that it would be characterized by being: (i) lean, yet powerful, agile and adaptive; (ii) both centralized (through a coordinating role by a Federal Government agency), yet decentralized in terms of where the Nodes are located and how they are operated and managed; and (iii) not overly bureaucratic. We also argue that it would be highly cost‐effective; our estimated cost for the establishment of an LTEM Network is $28 million per year or less than 0.25% of the total annual governmental expenditure of $12 billion on environmental management in 2003/2004. The LTEM Network would be a critical part of Australia's environmental infrastructure and provide the Nation, for the first time, with a formal, coordinated, long‐term Network to gauge status and change of biodiversity and environmental condition. We argue that this would allow the Nation to begin to address seriously many of the major data‐related deficiencies that currently exist in the environment and biodiversity conservation sectors in Australia. 相似文献
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Christopher L. Jerde Emily A. Wilson Terra L. Dressler 《Molecular ecology resources》2019,19(1):19-22
Despite mounting threats to global freshwater and marine biodiversity, including climate change, habitat alteration, overharvesting and pollution, we struggle to know which species are present below the water's surface that are suffering from these stressors. However, the idea that a water sample containing environmental DNA (eDNA) can be screened using high‐throughput sequencing and bioinformatics to reveal the identity of aquatic species is a revolutionary advance for studying the patterns of species extirpation, invasive species establishment and the dynamics of species richness. To date, many of the critical tests of fisheries diversity using this metabarcoding approach have been conducted in lower diversity systems (<40 fish species), but in this issue of Molecular Ecology Resources, Cilleros et al. (2018) described their eDNA application in the species‐rich French Guiana fishery (>200 fish species) and showed the greater potential and some limitations of using eDNA in species‐rich environments. 相似文献
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全球渔业衰退是21世纪人类面临的重要挑战之一。为了有效地遏制鱼类资源的衰退,精确的鱼类生态调查是其首要任务。传统的鱼类监测以渔获物采集与形态学鉴定为主,往往耗时耗力且效果不佳,已无法满足现阶段大尺度上的精确调查。环境DNA （eDNA）技术作为一种近年来新兴的鱼类生态调查方法,其与传统方法相比具有灵敏度高、经济高效、采样受限小且对生态系统无干扰的优势,目前其已被广泛地应用于鱼类物种监测、多样性调查、生物量评估以及繁殖活动监测等方面的研究。然而,eDNA技术在鱼类生态学研究的具体应用中暴露出的一些问题将会影响其监测结果的精确性,诸如操作流程的不规范、基因数据库的不完善以及eDNA在环境中生态学过程的不明确等。鉴于上述原因,首先对eDNA技术的发展历程、分析流程以及eDNA技术在鱼类生态学研究领域中的研究进展进行了综述,而后着重分析了eDNA技术的发展当前所面临的困难与挑战,并提出了相应的解决方案,最后对eDNA技术未来在鱼类生态学研究领域中的发展趋势做出了展望。通过本研究,以期能够为eDNA技术在鱼类生态学领域中的准确应用提供理论基础。 相似文献
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秦淮河是南京的母亲河,其生物多样性受城市化进程影响面临严重威胁,而物种资源调研是生物多样性保护的基础。环境DNA宏条形码技术较形态学监测是一种简单高效、灵敏度高的新型监测技术。为探究秦淮河浮游生物、底栖动物及鱼类的生物多样性,于2019年7月,采用环境DNA宏条形码技术对其进行了探究,并分析了秦淮河上下游间的差异及环境因子对其群落结构的影响。结果表明:秦淮河共监测到浮游动物13属22种407个操作分类单元(Operational Taxonomic Units, OTUs),浮游植物85属60种4445个OTUs,底栖动物16属17种212个OTUs,鱼类53属44种1663个OTUs。其中浮游动物以游泳轮虫目(Ploima)和双甲目(Diplostraca)为主,共占浮游动物63.37%,浮游植物以隐藻门(Cryptomonas)和褐藻门(Ochrophyta)为主,共占浮游植物88.11%,底栖动物中节肢动物门(Arthropoda)占比最高,达91.67%,鱼类中鲤形目(Cypriniformes)占比最高,达69.99%。与秦淮河历史形态学监测数据相比,环境DNA宏条形码技术在... 相似文献