Characterization of energy flow in ecosystems is one of the primary goals of ecology, and the analysis of trophic interactions and food web dynamics is key to quantifying energy flow. Predator‐prey interactions define the majority of trophic interactions and food web dynamics, and visual analysis of stomach, gut or fecal content composition is the technique traditionally used to quantify predator‐prey interactions. Unfortunately such techniques may be biased and inaccurate due to variation in digestion rates ( Sheppard & Hardwood 2005 ); however, those limitations can be largely overcome with new technology. In the last 20 years, the use of molecular genetic techniques in ecology has exploded ( King et al. 2008 ). The growing availability of molecular genetic methods and data has fostered the use of PCR‐based techniques to accurately distinguish and identify prey items in stomach, gut and fecal samples. In this month’s issue of Molecular Ecology Resources, Corse et al. (2010) describe and apply a new approach to quantifying predator‐prey relationships using an ecosystem‐level genetic characterization of available and consumed prey in European freshwater habitats ( Fig. 1a ). In this issue of Molecular Ecology, Hardy et al. (2010) marry the molecular genetic analysis of prey with a stable isotope (SI) analysis of trophic interactions in an Australian reservoir community ( Fig. 1b ). Both papers demonstrate novel and innovative approaches to an old problem – how do we effectively explore food webs and energy movement in ecosystems? Figure 1 Open in figure viewer PowerPoint The aquatic habitats used for two studies of diet and trophic interactions that employed molecular genetic and stable isotope analyses. Panel a: Example of Rhone basin habitat (France) where fish diet was determined using PCR to classify prey to a series of ecological clades (photo by Emmanuel Corse). Panel b: A weir pool on the lower Murray River (Australia) where food web and prey use was evaluated using a combination of advanced molecular genetic and stable isotope analyses (photo credit: CSIRO). 相似文献
The effect of predation on native fish by introduced species in the San Francisco Estuary–Delta (SFE) has not been thoroughly studied despite its potential to impact species abundances. Species‐specific quantitative PCR (qPCR) is an accurate method for identifying species from exogenous DNA samples. Quantitative PCR assays can be used for detecting prey in gut contents or faeces, discriminating between cryptic species, or detecting rare aquatic species. We designed ten TaqMan qPCR assays for fish species from the SFE watershed most likely to be affected by non‐native piscivores. The assays designed are highly specific, producing no signal from co‐occurring or related species, and sensitive, with a limit of detection between 3.2 and 0.013 pg/μL of target DNA. These assays will be used in conjunction with a high‐throughput qPCR platform to compare predation rates between native and non‐native piscivores and assess the impacts of predation in the system. 相似文献
In mammals, lactation can be the most energetically expensive part of the reproductive cycle. Thus, when energy needs are compromised due to predation risk, environmental disturbance, or resource scarcity, future reproductive success can be impacted. In marine and terrestrial environments, foraging behavior is inextricably linked to predation risk. But quantification of foraging energetics for lactating animals under predation risk is less understood. In this study, we used a spatially explicit individual‐based model to study how changes in physiology (lactating or not) and the environment (predation risk) affect optimal behavior in dolphins. Specifically, we predicted that an adult dolphin without calf would incur lower relative energetic costs compared to a lactating dolphin with calf regardless of predation risk severity, antipredator behavior, or prey quality consumed. Under this state‐dependent analysis of risk approach, we found predation risk to be a stronger driver in affecting total energetic costs (foraging plus locomotor costs) than food quality for both dolphin types. Further, contrary to our hypothesis, after accounting for raised energy demands, a lactating dolphin with calf does not necessarily have higher relative‐to‐baseline costs than a dolphin without calf. Our results indicate that both a lactating (with calf) and non‐lactating dolphin incur lowered energetic costs under a risk‐averse behavioral scheme, but consequently suffer from lost foraging calories. A lactating dolphin with calf could be particularly worse off in lost foraging calories under elevated predation risk, heightened vigilance, and increased hiding time relative to an adult dolphin without calf. Further, hiding time in refuge could be more consequential than detection distance for both dolphin types in estimated costs and losses incurred. In conclusion, our study found that reproductive status is an important consideration in analyzing risk effects in mammals, especially in animals with lengthy lactation periods and those exposed to both biological and nonbiological stressors. 相似文献
In New Zealand and Australia, rural landowners believe that local predator control to protect indigenous biota exacerbates European rabbit Oryctolagus cuniculus problems on their land. We assess the validity of their concerns by reviewing the published literature on effects of predators on rabbit abundance.
In New Zealand, where rabbits and their predators are introduced, predators appear to have relatively little effect on rabbit numbers compared with other factors leading to mortality, such as disease, flooding of burrows and burrow collapse. Similarly, in Australia, rabbit numbers are driven primarily by climate and its effects on food abundance and quality, and by disease. However, where rabbit numbers are low following drought or major epizootics, predation can limit population recovery. In the Iberian Peninsula, where rabbits and their predators are indigenous, the effects of predators are unknown, as they are often confounded by other factors. Rabbit numbers are influenced mostly by habitat, food, disease and rainfall. Elsewhere in Europe, predators have their strongest effect when rabbit numbers have been reduced by other factors, but have little effect on high‐density rabbit populations.
In Australasia, abundance of predators (especially rabbit specialists) can usually be predicted from rabbit abundance, not vice versa. Although predation effects can be limiting under certain conditions, they are minor compared to the roles of climate, food, disease and habitat.
A key unresolved question is whether those circumstances where predator control might lead to increases in rabbit populations can be identified with enough certainty to allow reliable predictions to be generated. One approach is to implement robust rabbit, predator and disease monitoring programmes at sites with predator control operations. Data on changes in rabbits, predators, and disease prevalence could be combined with local data on other key factors to facilitate reasonable inference about effects of predators on rabbits. The inclusion of carefully matched non‐treatment areas is crucial if such programmes are to succeed.
Knowledge of zooplankton in situ diet is critical for accurate assessment of marine ecosystem function and structure, but due to methodological constraints, there is still a limited understanding of ecological networks in marine ecosystems. Here, we used DNA‐metabarcoding to study trophic interactions, with the aim to unveil the natural diet of zooplankton species under temporal variation of food resources. Several target consumers, including copepods and cladocerans, were investigated by sequencing 16S rRNA and 18S rRNA genes to identify prokaryote and eukaryote potential prey present in their guts. During the spring phytoplankton bloom, we found a dominance of diatom and dinoflagellate trophic links to copepods. During the summer period, zooplankton including cladocerans showed a more diverse diet dominated by cyanobacteria and heterotrophic prey. Our study suggests that copepods present trophic plasticity, changing their natural diet over seasons, and adapting their feeding strategies to the available prey spectrum, with some species being more selective. We did not find a large overlap of prey consumed by copepods and cladocerans, based on prey diversity found in their guts, suggesting that they occupy different roles in the trophic web. This study represents the first molecular approach to investigate several zooplankton–prey associations under seasonal variation, and highlights how, unlike other techniques, the diversity coverage is high when using DNA, allowing the possibility to detect a wide range of trophic interactions in plankton communities. 相似文献
In Europe, lowland wet grasslands have become increasingly fragmented, and populations of waders in these fragments are subject to unsustainably high levels of nest predation. Patches of taller vegetation in these landscapes can support small mammals, which are the main source of prey for many predators. Providing such patches of habitat could potentially reduce levels of nest predation if predators preferentially target small mammals. However, predator attraction to patches of taller vegetation for foraging, shelter, perching and/or nesting could also result in local increases in predation rates, as a consequence of increased predator densities or spill‐over foraging into the surrounding area. Here we assess the influence of taller vegetation on wader nest predation rates, and the feasibility of managing vegetation structure to alter predator impacts. Between 2005 and 2011, the nest distribution and hatching success of Northern Lapwings Vanellus vanellus, which nest in the open, and Common Redshanks Tringa totanus, which conceal their nests in vegetation, were measured on a 487‐ha area of wet grassland in eastern England that is primarily managed for breeding waders. Predation rates of Lapwing nests increased significantly with distance from patches of taller vegetation, and decreased with increasing area of taller vegetation within 1 km of the nest, whereas neither variable influenced Redshank nest predation probability. These findings suggest that the distribution and activity of nest predators in lowland wet grassland landscapes may be influenced by the presence and distribution of areas of taller vegetation. For Lapwings at least, there may therefore be scope for landscape‐scale management of vegetation structure to influence levels of predation in these habitats. 相似文献
Size structure of organisms at logarithmic scale (i.e. size spectrum) can often be described by a linear function with a negative slope; however, substantial deviations from linearity have often been found in natural systems. Theoretical studies suggest that greater nonlinearity in community size spectrum is associated with high predator–prey size ratios but low predator–prey abundance ratios; however, empirical evaluation of the effects of predator–prey interactions on nonlinear structures remains scarce. Here, we aim to empirically explore the pattern of the size‐specific residuals (i.e. deviations from the linear regression between the logarithmic fish abundance and the logarithmic mean fish size) by using size spectra of fish communities in 74 German lakes. We found that nonlinearity was strong in lakes with high predator–prey abundance ratios but at low predator–prey size ratios. More specifically, our results suggest that only large predators, even if occurring in low abundances, can control the density of prey fishes in a broad range of size classes in a community and thus promote linearity in the size spectrum. In turn, the lack of large predator fishes may cause high abundances of fish in intermediate size classes, resulting in nonlinear size spectra in these lakes. Moreover, these lakes were characterized by a more intense human use including high fishing pressure and high total phosphorus concentrations, which have negative impacts on the abundance of large, predatory fish. Our findings indicate that nonlinear size spectra may reflect dynamical processes potentially caused by predator–prey interactions. This opens a new perspective in the research on size spectrum, and can be relevant to further quantify the efficiency of energy transfer in aquatic food webs. 相似文献
Complex coevolutionary relationships among competitors, predators, and prey have shaped taxa diversity, life history strategies, and even the avian migratory patterns we see today. Consequently, accurate documentation of prey selection is often critical for understanding these ecological and evolutionary processes. Conventional diet study methods lack the ability to document the diet of inconspicuous or difficult‐to‐study predators, such as those with large home ranges and those that move vast distances over short amounts of time, leaving gaps in our knowledge of trophic interactions in many systems. Migratory raptors represent one such group of predators where detailed diet studies have been logistically challenging. To address knowledge gaps in the foraging ecology of migrant raptors and provide a broadly applicable tool for the study of enigmatic predators, we developed a minimally invasive method to collect dietary information by swabbing beaks and talons of raptors to collect trace prey DNA. Using previously published COI primers, we were able to isolate and reference gene sequences in an open‐access barcode database to identify prey to species. This method creates a novel avenue to use trace molecular evidence to study prey selection of migrating raptors and will ultimately lead to a better understanding of raptor migration ecology. In addition, this technique has broad applicability and can be used with any wildlife species where even trace amounts of prey debris remain on the exterior of the predator after feeding. 相似文献
Predators affect benthic communities and ecological processes through consuming and scaring prey as well as through engineering effects on the habitat. Experimental evidence of top–down predatory effects in leaf packs comes from studies assessing how large predators affect shredders and therefore the litter decomposition rate. In this study, we investigated the effects of smaller invertebrate predators on micro‐ and meiobenthic communities.
In outdoor, flow‐through stream channels, we created a gradient in the density of predacious Chloroperlidae stonefly larvae in enclosures containing alder leaf litter and exposed to natural colonisation by invertebrates and decomposers. We expected that: (i) predators would reduce the biomass and density of invertebrate colonisers, (ii) the strength of predator effects on invertebrates would vary with prey body size; and (iii) increasing predator numbers in enclosures would diminish the per capita strength of predator–prey interactions due to intraguild interference. We also anticipated that litter decomposition would be slower in the presence of predators providing that microbial decomposers did not compensate for the reduction in shredders by an increase in their biomass.
Chloroperlidae had negative effects on the biomass of most major invertebrate taxa, including rotifers, nematodes and larvae of the Chironomidae Corynoneura and Brillia (the dominant shredder in leaf packs). The predatory effect on nematode biomass was strongest for dominant small‐bodied species. Fungal biomass in leaf litter was reduced in the presence of predators, whereas bacterial biomass was not affected.
In addition to feasible direct predation on Chironomidae, Chloroperlidae apparently inhibited meiofauna colonisation of leaf litter, probably through the bioturbation of fine sediment trapped on leaf surfaces.
At the end of the experiment, the mortality of Chloroperlidae in enclosures was considerable at the highest predator density treatment. This observation, along with evidence of the reduced per capita strength of predator–prey interactions with increasing predator density, suggested that intraguild interference moderates the effect of predators in leaf packs.
Our findings are consistent with a key role of small predators in determining the abundance of invertebrates and microbial decomposers in leaf packs. However, in our study, there was no cascade down to the standing stock of leaf litter.
Ecological networks such as food webs are extremely complex and can provide important information about the robustness and productivity of an ecosystem. In most cases, it is not feasible to observe trophic interactions between predators and prey directly and with the available methods, it is difficult to quantify the connections between them. Here, we show that submicron‐sized silica particles (100–150 nm) with encapsulated DNA (SPED) enable accurate food and organism labelling and quantification of specific animal‐to‐animal transfer over more than one trophic level. We found that SPED were readily transferable and quantifiable from the bottom to the top of a two‐level food chain of arthropods. SPED were taken up in the gut system and remained persistent in an animal over several days. When uniquely labelled SPED were applied at predefined ratios, we found that information about their relative abundance was reliably conserved after trophic level transfer and over time. SPED were also applied to investigate the flower preference of fly pollinators and proved to be a fast and accurate analysis method. SPED combine attributes of DNA barcoding and stable isotope analysis such as unique labelling, quantification via real‐time PCR and exact backtracking to the tracer source. This improves and simplifies the analysis and monitoring of ecological networks. 相似文献
The genes of the major histocompatibility complex (MHC) have become the target of choice for studies wishing to examine adaptively important genetic diversity in natural populations. Within Molecular Ecology alone, there have been 71 papers on aspects of MHC evolution over the past few years, with an increasing year on year trend. This focus on the MHC is partly driven by the hypothesized links between MHC gene dynamics and ecologically interesting and relevant traits, such as mate choice and host–parasite interactions. However, an ability to pin down the evolutionary causes and ecological consequences of MHC variation in natural populations has proven challenging and has been hampered by the very issue that is attractive about MHC genes – their high levels of diversity. Linking high levels of MHC diversity to ecological factors in inherently complex natural populations requires a level of experimental design and analytical rigour that is extremely difficult to achieve owing to a plethora of potentially confounding and interacting variables. In this issue of Molecular Ecology, Smith et al. (2010) elegantly overcome the challenge of detecting complex interactions in complex systems by using an intricate analytical approach to demonstrate a role for MHC in the reproductive ability of a natural population of the European hare Lepus europaeus ( Fig. 1 ). Also in this issue, Oppelt et al. (2010) demonstrate a role for MHC variation in determining levels of hepatic coccidian infection in the European rabbit Oryctolagus cuniculus ( Fig. 2 ). Figure 1 Open in figure viewer PowerPoint The European hare (Lepus europaeus). 相似文献
Most predators eat only a subset of possible prey. However, studies evaluating diet selection rarely measure prey availability in a manner that accounts for temporal–spatial overlap with predators, the sensory mechanisms employed to detect prey, and constraints on prey capture.
We evaluated the diet selection of cutthroat trout (Oncorhynchus clarkii) feeding on a diverse planktivore assemblage in Lake Washington to test the hypothesis that the diet selection of piscivores would reflect random (opportunistic) as opposed to non‐random (targeted) feeding, after accounting for predator–prey overlap, visual detection and capture constraints.
Diets of cutthroat trout were sampled in autumn 2005, when the abundance of transparent, age‐0 longfin smelt (Spirinchus thaleichthys) was low, and 2006, when the abundance of smelt was nearly seven times higher. Diet selection was evaluated separately using depth‐integrated and depth‐specific (accounted for predator–prey overlap) prey abundance. The abundance of different prey was then adjusted for differences in detectability and vulnerability to predation to see whether these factors could explain diet selection.
In 2005, cutthroat trout fed non‐randomly by selecting against the smaller, transparent age‐0 longfin smelt, but for the larger age‐1 longfin smelt. After adjusting prey abundance for visual detection and capture, cutthroat trout fed randomly. In 2006, depth‐integrated and depth‐specific abundance explained the diets of cutthroat trout well, indicating random feeding. Feeding became non‐random after adjusting for visual detection and capture. Cutthroat trout selected strongly for age‐0 longfin smelt, but against similar sized threespine stickleback (Gasterosteus aculeatus) and larger age‐1 longfin smelt in 2006. Overlap with juvenile sockeye salmon (O. nerka) was minimal in both years, and sockeye salmon were rare in the diets of cutthroat trout.
The direction of the shift between random and non‐random selection depended on the presence of a weak versus a strong year class of age‐0 longfin smelt. These fish were easy to catch, but hard to see. When their density was low, poor detection could explain their rarity in the diet. When their density was high, poor detection was compensated by higher encounter rates with cutthroat trout, sufficient to elicit a targeted feeding response. The nature of the feeding selectivity of a predator can be highly dependent on fluctuations in the abundance and suitability of key prey.
DNA metabarcoding is a powerful new tool allowing characterization of species assemblages using high‐throughput amplicon sequencing. The utility of DNA metabarcoding for quantifying relative species abundances is currently limited by both biological and technical biases which influence sequence read counts. We tested the idea of sequencing 50/50 mixtures of target species and a control species in order to generate relative correction factors (RCFs) that account for multiple sources of bias and are applicable to field studies. RCFs will be most effective if they are not affected by input mass ratio or co‐occurring species. In a model experiment involving three target fish species and a fixed control, we found RCFs did vary with input ratio but in a consistent fashion, and that 50/50 RCFs applied to DNA sequence counts from various mixtures of the target species still greatly improved relative abundance estimates (e.g. average per species error of 19 ± 8% for uncorrected vs. 3 ± 1% for corrected estimates). To demonstrate the use of correction factors in a field setting, we calculated 50/50 RCFs for 18 harbour seal (Phoca vitulina) prey species (RCFs ranging from 0.68 to 3.68). Applying these corrections to field‐collected seal scats affected species percentages from individual samples (Δ 6.7 ± 6.6%) more than population‐level species estimates (Δ 1.7 ± 1.2%). Our results indicate that the 50/50 RCF approach is an effective tool for evaluating and correcting biases in DNA metabarcoding studies. The decision to apply correction factors will be influenced by the feasibility of creating tissue mixtures for the target species, and the level of accuracy needed to meet research objectives. 相似文献
Ruff Philomachus pugnax staging in the Netherlands forage in agricultural grasslands, where they mainly eat earthworms (Lumbricidae). Food intake and the surface availability of earthworms were studied in dairy farmland of southwest Friesland in March–April 2011. Daily changes in earthworm availability were quantified by counting visible earthworms. No earthworms were seen on the surface during daytime, but their numbers sharply increased after sunset and remained high during the night. Nevertheless, intake rates of individual Ruff in different grasslands measured during daytime showed the typical Holling type II functional response relationship with the surfacing earthworm densities measured at night. Radiotagging of Ruff in spring 2007 revealed that most, if not all, feeding occurs during the day, with the Ruff assembling at shoreline roosts at night. This raises the question of why Ruff do not feed at night, if prey can be caught more easily than during daytime. In March–May 2013 we experimentally examined the visual and auditory sensory modalities used by Ruff to find and capture earthworms. Five males were kept in an indoor aviary and we recorded them individually foraging on trays with 10 earthworms mixed with soil under various standardized light and white noise conditions. The number of earthworms discovered and eaten by Ruff increased with light level, but only when white noise was played, suggesting that although they can detect earthworms by sight, Ruff also use auditory cues. We suggest that although surfacing numbers of earthworms are highest during the night, diurnal intake rates are probably sufficient to avoid nocturnal foraging on a resource that is more available but perhaps less detectable at that time. 相似文献
Aim We compiled data on prey utilization of spiders at a global scale to better understand the relationship between current climate or net primary production (NPP) and diet breadth, evenness and composition in spiders. We test whether the productivity and the diversity–climatic‐stability (DCS) hypotheses focusing on diversity patterns may also explain global patterns in prey utilization by web‐building and cursorial spiders. Location A global dataset of 95 data points from semi‐natural and natural terrestrial habitats spanning 41.3° S to 56.1° N. Methods We collected data on spider prey (29 groups, mostly order‐level invertebrate taxa) through extensive literature research to identify the relationship between climatic conditions and NPP and spider diets based on 66 studies of prey composition in 82 spider species. Results The number of prey groups in spider diets was positively related to NPP, after accounting for differences in sampling effort in the original studies. In general, diet breadth was significantly higher for spider species in tropical environments. Prey individuals in spider diets were more evenly distributed among different prey groups in warmer environments with lower fluctuations in precipitation. Collembola and other spiders were more common prey for spiders with a cursorial hunting mode. Myriapoda and Collembola were more common prey in cooler climates with more stable precipitation, whereas Isoptera, Lepidoptera, Psocoptera and Coleoptera showed the opposite pattern. Main conclusions The positive relationship between diet breadth and NPP and the negative relationship between prey evenness and seasonality in precipitation support the productivity and the DCS hypotheses, respectively. This effect on global patterns of invertebrate predator–prey interactions suggests that trophic interactions between spiders and their prey are sensitive to climatic conditions. Climatic conditions may not only affect spider community composition, but also considerably alter the functional role of these abundant invertebrate predators in terrestrial ecosystems. 相似文献
Assessing diet variability is of main importance to better understand the biology of bats and design conservation strategies. Although the advent of metabarcoding has facilitated such analyses, this approach does not come without challenges. Biases may occur throughout the whole experiment, from fieldwork to biostatistics, resulting in the detection of false negatives, false positives or low taxonomic resolution. We detail a rigorous metabarcoding approach based on a short COI minibarcode and two‐step PCR protocol enabling the “all at once” taxonomic identification of bats and their arthropod prey for several hundreds of samples. Our study includes faecal pellets collected in France from 357 bats representing 16 species, as well as insect mock communities that mimic bat meals of known composition, negative and positive controls. All samples were analysed using three replicates. We compare the efficiency of DNA extraction methods, and we evaluate the effectiveness of our protocol using identification success, taxonomic resolution, sensitivity and amplification biases. Our parallel identification strategy of predators and prey reduces the risk of mis‐assigning prey to wrong predators and decreases the number of molecular steps. Controls and replicates enable to filter the data and limit the risk of false positives, hence guaranteeing high confidence results for both prey occurrence and bat species identification. We validate 551 COI variants from arthropod including 18 orders, 117 family, 282 genus and 290 species. Our method therefore provides a rapid, resolutive and cost‐effective screening tool for addressing evolutionary ecological issues or developing “chirosurveillance” and conservation strategies. 相似文献
When attacked by a predator, aphids of many species secrete cornicle droplets, containing an alarm pheromone, that results in the dispersal of nearby conspecifics. As females are parthenogenetic, alarm signaling functions to enhance the survival of clone-mates. Enigmatically, however, aphids are physically able to, but usually do not emit alarm pheromone when initially detecting a predator, but rather signal only when captured by a predator. We hypothesized that cornicle droplets may be attractive to natural enemies and result in an increased risk of predation for the signaler, thereby selecting for prudent alarm signalers. We tested this hypothesis by investigating the olfactory cues that the multicolored Asian ladybird beetle, Harmonia axyridis Pallas, uses to locate pea aphids, Acyrthosiphon pisum. In choice tests, H. axyridis were attracted to odors from pea aphid colonies, whether feeding or not feeding on a host plant leaf, but were not attracted to cornicle droplets containing alarm pheromone. Further, individual pea aphids emitting cornicle droplets were not located more often or in a shorter period of time by beetles than aphids not emitting cornicle droplets. Thus, the cost of emitting early alarm signals is not prohibitively high in regards to the attraction of predators such as H. axyridis.相似文献
