Movement-Based Estimation and Visualization of Space Use in 3D for Wildlife Ecology and Conservation

Advances in digital biotelemetry technologies are enabling the collection of bigger and more accurate data on the movements of free-ranging wildlife in space and time. Although many biotelemetry devices record 3D location data with x, y, and z coordinates from tracked animals, the third z coordinate is typically not integrated into studies of animal spatial use. Disregarding the vertical component may seriously limit understanding of animal habitat use and niche separation. We present novel movement-based kernel density estimators and computer visualization tools for generating and exploring 3D home ranges based on location data. We use case studies of three wildlife species – giant panda, dugong, and California condor – to demonstrate the ecological insights and conservation management benefits provided by 3D home range estimation and visualization for terrestrial, aquatic, and avian wildlife research.     

A novel, fully implantable, multichannel biotelemetry system for measurement of blood flow, pressure, ECG, and temperature.

Biotelemetry provides high-quality data in awake, free-ranging animals without the effects of anesthesia and surgery. Although many biological parameters can be measured using biotelemetry, simultaneous telemetric measurements of pressure and flow have not been available. The objective of this study was to evaluate simultaneous measurements of blood flow, pressure, ECG, and temperature in a fully implantable system. This novel system allows the measurement of up to four channels of blood flow, up to three channels of pressure, and a single channel each of ECG and temperature. The system includes a bidirectional radio-frequency link that allows the implant to send data and accept commands to perform various tasks. The system is controlled by a base station decoder/controller that decodes the data stream sent by the implant into analog signals. The system also converts the data into a digital data stream that can be sent via ethernet to a remote computer for storage and/or analysis. The system was chronically implanted in swine and alligators for up to 5 wk. Both bench and in vivo animal tests were performed to evaluate system performance. Results show that this biotelemetry system is capable of long-term accurate monitoring of simultaneous blood flow and pressure. The system allows, within the room, recordings, since the implant transmission range is between 6 and 10 m, and, with a relay, backpack transmission distance of up to 500 m can be achieved. This system will have significant utility in chronic models of cardiovascular physiology and pathology.     

Nine decades of fish movement research in southern Africa: a synthesis of research and findings from 1928 to 2014

Unprecedented concern over the biological effects of over-exploitation, together with rapid technological advances in biotelemetry, have provided the impetus for much research, on a global scale, into the movement of marine animals. We reviewed 101 marine and estuarine fish movement studies from southern Africa, published from 1928 to 2014, with the aim of synthesising research trends and findings. Trends showed an increasing emphasis on fish movement research in publications in the sub-tropical and warm-temperate biogeographic regions along the south and east coasts of southern Africa. Although 63 % of publications featured only marine studies, research into fine-scale habitat use in estuaries has been on the increase, concomitant with increasing accessibility of biotelemetry. Overall, 26 families were identified in the surveyed literature with regionally endemic sparids featuring in 32 % of the publications. Ten movement themes were identified in the surveyed literature, including broad-scale movement patterns, which featured in 68 % of studies, followed by fine-scale habitat usage (33 %) and protected areas (26 %). The most prominent phenomenon, emerging from this research, is that of partial migration, which describes the occurrence of resident and migratory behaviour within a coexisting animal population. Substantial progress has also been made in unravelling the complexities of fine-scale habitat usage in marine reserves and in estuaries. While this knowledge has enabled more effective management of South Africa’s multi-user, multi-species fisheries, focus should now be directed at improving our understanding of the commonalities in movement behaviour, the associated driving forces behind this behaviour and the nature of movement across reserve boundaries.     

The Eye in the Sky: Combined Use of Unmanned Aerial Systems and GPS Data Loggers for Ecological Research and Conservation of Small Birds

Technological advances for wildlife monitoring have expanded our ability to study behavior and space use of many species. But biotelemetry is limited by size, weight, data memory and battery power of the attached devices, especially in animals with light body masses, such as the majority of bird species. In this study, we describe the combined use of GPS data logger information obtained from free-ranging birds, and environmental information recorded by unmanned aerial systems (UASs). As a case study, we studied habitat selection of a small raptorial bird, the lesser kestrel Falco naumanni, foraging in a highly dynamic landscape. After downloading spatio-temporal information from data loggers attached to the birds, we programmed the UASs to fly and take imagery by means of an onboard digital camera documenting the flight paths of those same birds shortly after their recorded flights. This methodology permitted us to extract environmental information at quasi-real time. We demonstrate that UASs are a useful tool for a wide variety of wildlife studies.     

家养动物多样性研究要素和成就

家养动物多样性的研究多年来侧重于经济性状和生态多样性及品种多样性。近几年来在遗传多样性方面取得重大进展 ,在品种聚类、系统保种、遗传多样性与经济性状和生态多态性的相关研究都取得了重要结果 ,有的已经做到数量性状基因定位、转基因和克隆动物检测等。家养动物与其野生近缘种的基因分析和利用野生种血液的育种也取得一定的效果。利用多样性鉴别技术已确认许多地方品种为中国特有种 ,引起了国际广泛关注     

Pacific salmon in hot water: applying aerobic scope models and biotelemetry to predict the success of spawning migrations

Concern over global climate change is widespread, but quantifying relationships between temperature change and animal fitness has been a challenge for scientists. Our approach to this challenge was to study migratory Pacific salmon (Oncorhynchus spp.), fish whose lifetime fitness hinges on a once-in-a-lifetime river migration to natal spawning grounds. Here, we suggest that their thermal optimum for aerobic scope is adaptive for river migration at the population level. We base this suggestion on several lines of evidence. The theoretical line of evidence comes from a direct association between the temperature optimum for aerobic metabolic scope and the temperatures historically experienced by three Fraser River salmon populations during their river migration. This close association was then used to predict that the occurrence of a period of anomalously high river temperatures in 2004 led to a complete collapse of aerobic scope during river migration for a portion of one of the sockeye salmon (Oncorhynchus nerka) populations. This prediction was corroborated with empirical data from our biotelemetry studies, which tracked the migration of individual sockeye salmon in the Fraser River and revealed that the success of river migration for the same sockeye population was temperature dependent. Therefore, we suggest that collapse of aerobic scope was an important mechanism to explain the high salmon mortality observed during their migration. Consequently, models based on thermal optima for aerobic scope for ectothermic animals should improve predictions of population fitness under future climate scenarios.     

Using contact logging devices to explore animal affiliations: Quantifying cow–calf interactions

Understanding animal affiliations has important implications for determining social interactions; an example is maternal interactions within beef production systems. The objective of this study was to test whether contact loggers could be used to identify cow–calf pairs. Fifty-two pairs of Belmont Red cows with calves that were between 1- and 14-days old, were fitted with contact logging devices for 1 week in groups ranging in size from five to nine pairs of cows and calves. The contact logging devices recorded the duration of contacts that were less than 7 m distance between individual animals in the group. There was a highly significant difference in both contact duration and contact frequency between cows and their own calves and cows and all other calves. It is concluded that contact logging devices have the potential to provide useful data on animal affiliations.     

Unmanned Aircraft Systems complement biologging in spatial ecology studies

The knowledge about the spatial ecology and distribution of organisms is important for both basic and applied science. Biologging is one of the most popular methods for obtaining information about spatial distribution of animals, but requires capturing the animals and is often limited by costs and data retrieval. Unmanned Aircraft Systems (UAS) have proven their efficacy for wildlife surveillance and habitat monitoring, but their potential contribution to the prediction of animal distribution patterns and abundance has not been thoroughly evaluated. In this study, we assess the usefulness of UAS overflights to (1) get data to model the distribution of free‐ranging cattle for a comparison with results obtained from biologged (GPS‐GSM collared) cattle and (2) predict species densities for a comparison with actual density in a protected area. UAS and biologging derived data models provided similar distribution patterns. Predictions from the UAS model overestimated cattle densities, which may be associated with higher aggregated distributions of this species. Overall, while the particular researcher interests and species characteristics will influence the method of choice for each study, we demonstrate here that UAS constitute a noninvasive methodology able to provide accurate spatial data useful for ecological research, wildlife management and rangeland planning.     

Principles of the design of an automated system for the quantitative analysis of the action of environmental factors on the body of laboratory animals

Complicated ecological conditions, caused by wide and active application of artificial chemicals, makes it necessary to reveal their effect on human and animal organism and take measures for protecting health. The possibility to use advanced computing and information devices in combination with specialized methodical approaches allowed to elaborate and build a model of a system for revealing fine and multi-aspect influence of various factors on organisms of experimental animals. The results obtained allow to consider creation of similar systems a necessary and feasible task.     

Mandatory " enriched" housing of laboratory animals: the need for evidence-based evaluation

Environmental enrichment for laboratory animals has come to be viewed as a potential method for improving animal well-being in addition to its original sense as a paradigm for learning how experience molds the brain. It is suggested that the term housing supplementation better describes the wide range of alterations to laboratory animal housing that has been proposed or investigated. Changes in the environments of animals have important effects on brain structure, physiology, and behavior--including recovery from illness and injury--and on which genes are expressed in various organs. Studies are reviewed that show how the brain and other organs respond to environmental change. These data warrant caution that minor cage supplementation intended for improvement of animal well-being may alter important aspects of an animal's physiology and development in a manner not easily predicted from available research. Thus, various forms of housing supplementation, although utilized or even preferred by the animals, may not enhance laboratory animal well-being and may be detrimental to the research for which the laboratory animals are used.     

Reflecting on ethical and legal issues in wildlife disease

Disease in wildlife raises a number of issues that have not been widely considered in the bioethical literature. However, wildlife disease has major implications for human welfare. The majority of emerging human infectious diseases are zoonotic: that is, they occur in humans by cross‐species transmission from animal hosts. Managing these diseases often involves balancing concerns with human health against animal welfare and conservation concerns. Many infectious diseases of domestic animals are shared with wild animals, although it is often unclear whether the infection spills over from wild animals to domestic animals or vice versa. Culling is the standard means of managing such diseases, bringing economic considerations, animal welfare and conservation into conflict. Infectious diseases are also major threatening processes in conservation biology and their appropriate management by culling, vaccination or treatment raises substantial animal ethics issues. One particular issue of great significance in Australia is an ongoing research program to develop genetically modified pathogens to control vertebrate pests including rabbits, foxes and house mice. Release of any self‐replicating GMO vertebrate pathogen gives rise to a whole series of ethical questions. We briefly review current Australian legal responses to these problems. Finally, we present two unresolved problems of general importance that are exemplified by wildlife disease. First, to what extent can or should ‘bioethics’ be broadened beyond direct concerns with human welfare to animal welfare and environmental welfare? Second, how should the irreducible uncertainty of ecological systems be accounted for in ethical decision making?     

Feedback loops between 3D vegetation structure and ecological functions of animals

Ecosystems function in a series of feedback loops that can change or maintain vegetation structure. Vegetation structure influences the ecological niche space available to animals, shaping many aspects of behaviour and reproduction. In turn, animals perform ecological functions that shape vegetation structure. However, most studies concerning three-dimensional vegetation structure and animal ecology consider only a single direction of this relationship. Here, we review these separate lines of research and integrate them into a unified concept that describes a feedback mechanism. We also show how remote sensing and animal tracking technologies are now available at the global scale to describe feedback loops and their consequences for ecosystem functioning. An improved understanding of how animals interact with vegetation structure in feedback loops is needed to conserve ecosystems that face major disruptions in response to climate and land-use change.     

Distinguishing technology from biology: a critical review of the use of GPS telemetry data in ecology

In the past decade, ecologists have witnessed vast improvements in our ability to collect animal movement data through animal-borne technology, such as through GPS or ARGOS systems. However, more data does not necessarily yield greater knowledge in understanding animal ecology and conservation. In this paper, we provide a review of the major benefits, problems and potential misuses of GPS/Argos technology to animal ecology and conservation. Benefits are obvious, and include the ability to collect fine-scale spatio-temporal location data on many previously impossible to study animals, such as ocean-going fish, migratory songbirds and long-distance migratory mammals. These benefits come with significant problems, however, imposed by frequent collar failures and high cost, which often results in weaker study design, reduced sample sizes and poorer statistical inference. In addition, we see the divorcing of biologists from a field-based understanding of animal ecology to be a growing problem. Despite these difficulties, GPS devices have provided significant benefits, particularly in the conservation and ecology of wide-ranging species. We conclude by offering suggestions for ecologists on which kinds of ecological questions would currently benefit the most from GPS/Argos technology, and where the technology has been potentially misused. Significant conceptual challenges remain, however, including the links between movement and behaviour, and movement and population dynamics.     

Acoustic accelerometry reveals diel activity patterns in premigratory Port Jackson sharks

Distinguishing the factors that influence activity within a species advances understanding of their behavior and ecology. Continuous observation in the marine environment is not feasible but biotelemetry devices provide an opportunity for detailed analysis of movements and activity patterns. This study investigated the detail that calibration of accelerometers measuring root mean square (RMS) acceleration with video footage can add to understanding the activity patterns of male and female Port Jackson sharks (Heterodontus portusjacksoni) in a captive environment. Linear regression was used to relate RMS acceleration output to time‐matched behavior captured on video to quantify diel activity patterns. To validate captive data, diel patterns from captive sharks were compared with diel movement data from free‐ranging sharks using passive acoustic tracking. The RMS acceleration data showed captive sharks exhibited nocturnal diel patterns peaking during the late evening before midnight and decreasing before sunrise. Correlation analysis revealed that captive animals displayed similar activity patterns to free‐ranging sharks. The timing of wild shark departures for migration in the late breeding season corresponded with elevated diel activity at night within the captive individuals, suggesting a form of migratory restlessness in captivity. By directly relating RMS acceleration output to activity level, we show that sex, time of day, and sex‐specific seasonal behavior all influenced activity levels. This study contributes to a growing body of evidence that RMS acceleration data are a promising method to determine activity patterns of cryptic marine animals and can provide more detailed information when validated in captivity.     

基于声学标记追踪法的湖泊鱼类时空分布研究

为构建完整的声学标记追踪体系并评估其在浅水草型湖泊的应用效果, 于2019年7月—2019年12月在河北省白洋淀生态修复示范区鲥鯸淀内,使用Vemco定位系统进行鱼类声学标记追踪实验。实验以MS-222为麻醉剂, 采用手术缝合法将声学标记植入鱼体腹腔内。对比乌鳢和鲫的术后结果, 发现: (1)鲫的死亡率和感染率均为75%, 乌鳢的死亡率和感染率为41.67%和13.33%; (2)乌鳢腹腔狭小, 在植入标记后需进行舒缓按压, 以保证探头不会压迫肠道而对生理活动造成影响。声学标记信号的接收量分析表明: (1)日间接收机接收量显著高于夜间(P<0.05); (2)方差分析结果表明晴天和雨天的接收量存在显著差异(P<0.05); (3)秩相关检验显示接收量与温度之间相关性不显著(P>0.05); (4)路径追踪结果显示乌鳢喜好活动于水草覆盖度较高的边缘区域。通过构建适宜浅水草型湖泊的声学标记追踪方法, 可促进野外环境下鱼类分布和行为生态学的定量研究, 为湖泊生态修复的效果评估提供技术手段。     

Assessing the root of bilaterian animals with scalable phylogenomic methods

A clear picture of animal relationships is a prerequisite to understand how the morphological and ecological diversity of animals evolved over time. Among others, the placement of the acoelomorph flatworms, Acoela and Nemertodermatida, has fundamental implications for the origin and evolution of various animal organ systems. Their position, however, has been inconsistent in phylogenetic studies using one or several genes. Furthermore, Acoela has been among the least stable taxa in recent animal phylogenomic analyses, which simultaneously examine many genes from many species, while Nemertodermatida has not been sampled in any phylogenomic study. New sequence data are presented here from organisms targeted for their instability or lack of representation in prior analyses, and are analysed in combination with other publicly available data. We also designed new automated explicit methods for identifying and selecting common genes across different species, and developed highly optimized supercomputing tools to reconstruct relationships from gene sequences. The results of the work corroborate several recently established findings about animal relationships and provide new support for the placement of other groups. These new data and methods strongly uphold previous suggestions that Acoelomorpha is sister clade to all other bilaterian animals, find diminishing evidence for the placement of the enigmatic Xenoturbella within Deuterostomia, and place Cycliophora with Entoprocta and Ectoprocta. The work highlights the implications that these arrangements have for metazoan evolution and permits a clearer picture of ancestral morphologies and life histories in the deep past.     

Calibration of remotely collected acceleration data with behavioral observations of roe deer (<Emphasis Type="Italic">Capreolus capreolus</Emphasis> L.)

Long-term, remote monitoring of animals under natural conditions is essential for obtaining information on animal activity. Advances in biotelemetry have led to the construction of low-power accelerometers placed on Global Positioning System (GPS) collars. Such acceleration data from roe deer have not yet been classified to the various behavioral categories. Here, we determined the threshold values of such data for different behavioral categories. We equipped captive roe deer with Global Positioning System–Global System for Mobile Communications/dual-axis acceleration sensor neck collars and simultaneously measured their movement and observed their behavior. The difference between feeding and slow locomotion was significant on the x- but not the y-axis, and both of these two behavioral categories differed significantly from resting and fast locomotion. Specific thresholds for the behavioral categories—resting, feeding, and slow and fast locomotion—were established by recursive partitioning. We compared the behavior determined by these threshold values with observed behavior and found that 92% of the behavioral categories were correctly assigned. A comparison of our results with those of earlier studies showed that thresholds derived for one species cannot be directly applied to another species. We provide recommendations for the further development of acceleration sensors based on the results obtained in this study.     

羌塘地区草食性野生动物的生态服务价值评估——以藏羚羊为例

随着羌塘草原野生动物种群规模的扩大,草食性野生动物与家畜争夺草场的矛盾愈来愈突出.生态补偿无疑是解决这一矛盾的重要途径之一,而进行野生动物的生态服务价值评估是建立生态补偿标准的基础.通过羌塘地区社会经济资源环境现状调查和人群支付意愿调查,并采用直接市场法和虚拟市场法,对西藏自治区羌塘地区草食性野生动物藏羚羊的生态经济价值进行了评估.把藏羚羊的生态经济价值分为利用价值包括商业价值、游憩娱乐价值、维持生物多样性的价值、教育美学价值和科学研究价值,以及非利用价值包括存在价值、遗产价值、选择价值两大类.对野生动物生态价值的评估结果表明,羌塘地区藏羚羊的生态服务价值高达7.51亿元/a.其中,藏羚羊的利用价值为6.35亿元/a,非利用价值为1.16亿元/a.也就是说,羌塘地区15万只藏羚羊每年产生的生态服务价值远高于羌塘自然保护区涉及的6个县域2007年的总产值4.79亿元.     

Ultrasonic Telemetry, Tracking and Automated Monitoring Technology for Sharks

Sharks were among the first marine animals to carry telemetry systems because of their size and the need to understand their interactions with humans. Modern telemetry systems can gather many kinds of data (limited only by imagination, funding and sensor types), indicating which animals are near telemetry receivers and what they are doing. Receivers now range from simple autonomous detector units for deployment in mid-water in large-scale grids, to sophisticated automated benthic recorders, to triangulating radio-linked buoy systems (RAP), to ship-borne transponders. In addition, archival tags can now gather and store data even while the shark is away, to be downloaded later. Older types had to be recovered, but popup tags release from sharks automatically, surface and transfer data to satellites, while CHAT tags download whenever queried by a nearby transponding acoustic receiver. Sophisticated animal-borne tags dramatically increase the information gathered about sharks and their environment. The examples provided show the parallel progression of shark biology and acoustic biotelemetry illustrating that telemetry systems are tools for gathering data, which can often be honed to facilitate biological experiments. Future visions include sensors that directly measure shark swimming power and cardiac output, compressing the data so that it can be delivered to RAP systems tracking multiple animals with meter resolution in near real time. CHAT tags as small as 22mm diameter should be able to return similar data from trips of hundreds of kilometers. Continued communication between biologists and engineers is essential to develop these technologies.     

Quantifying Migration Behaviour Using Net Squared Displacement Approach: Clarifications and Caveats

Estimating migration parameters of individuals and populations is vital for their conservation and management. Studies on animal movements and migration often depend upon location data from tracked animals and it is important that such data are appropriately analyzed for reliable estimates of migration and effective management of moving animals. The Net Squared Displacement (NSD) approach for modelling animal movement is being increasingly used as it can objectively quantify migration characteristics and separate different types of movements from migration. However, the ability of NSD to properly classify the movement patterns of individuals has been criticized and issues related to study design arise with respect to starting locations of the data/animals, data sampling regime and extent of movement of species. We address the issues raised over NSD using tracking data from 319 moose (Alces alces) in Sweden. Moose is an ideal species to test this approach, as it can be sedentary, nomadic, dispersing or migratory and individuals vary in their extent, timing and duration of migration. We propose a two-step process of using the NSD approach by first classifying movement modes using mean squared displacement (MSD) instead of NSD and then estimating the extent, duration and timing of migration using NSD. We show that the NSD approach is robust to the choice of starting dates except when the start date occurs during the migratory phase. We also show that the starting location of the animal has a marginal influence on the correct quantification of migration characteristics. The number of locations per day (1–48) did not significantly affect the performance of non-linear mixed effects models, which correctly distinguished migration from other movement types, however, high-resolution data had a significant negative influence on estimates for the timing of migrations. The extent of movement, however, had an effect on the classification of movements, and individuals undertaking short- distance migrations can be misclassified as other movements such as sedentary or nomadic. Our study raises important considerations for designing, analysing and interpreting movement ecology studies, and how these should be determined by the biology of the species and the ecological and conservation questions in focus.