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1.
    
  1. DNA metabarcoding is an emerging tool used to quantify diet in environments and consumer groups where traditional approaches are unviable, including small‐bodied invertebrate taxa. However, metabarcoding of small taxa often requires DNA extraction from full body parts (without dissection), and it is unclear whether surface contamination from body parts alters presumed diet presence or diversity.
  2. We examined four different measures of diet (presence, rarefied read abundance, richness, and species composition) for a terrestrial invertebrate consumer (the spider Heteropoda venatoria) both collected in its natural environment and fed an offered diet item in contained feeding trials using DNA metabarcoding of full body parts (opisthosomas). We compared diet from consumer individuals surface sterilized to remove contaminants in 10% commercial bleach solution followed by deionized water with a set of unsterilized individuals.
  3. We found that surface sterilization did not significantly alter any measure of diet for consumers in either a natural environment or feeding trials. The best‐fitting model predicting diet detection in feeding trial consumers included surface sterilization, but this term was not statistically significant (β = −2.3, p‐value = .07).
  4. Our results suggest that surface contamination does not seem to be a significant concern in this DNA diet metabarcoding study for consumers in either a natural terrestrial environment or feeding trials. As the field of diet DNA metabarcoding continues to progress into new environmental contexts with various molecular approaches, we suggest ongoing context‐specific consideration of the possibility of surface contamination.
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2.
    
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   

3.
    
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   

4.
    
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   

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A chief structuring force in food webs is the hierarchy of trophic interactions, where bigger animals feed on smaller ones. The anatomic and physiological explanations of why body size determines this hierarchy are embodied within the concept of gape limitation. The relaxation of gape limitation and an increase in energetic demands due to predators' larger body size determine the size and diversity of prey species. However, these patterns may be related to further trends in trophic interactions with body size, which have been less considered. Specifically, the passive incorporation of prey should involve a nested distribution of prey among predator size classes. However, predators avoid smaller resources because of their low energy return, with a clumped distribution of prey potentially generating modular organization with qualitative changes in prey identity (e.g. zooplankton, macroinvertebrates and fishes). Finally, size‐mediated interactions (such as direct and indirect competition) may cause predators of similar body size to differentiate among prey organisms, resulting in a checkerboard distribution of prey identity. Consequently, nestedness, modularity and checkerboard distributions of prey among predators of different size classes should form emergent network structures that are directly related to clear ecological mechanisms. We analyse these predictions in a killifish guild, where trends in trophic positions, prey richness, evenness and the number of energy sources systematically scale with body size. We found significant nestedness and segregation in diet among different size classes, supporting the progressive incorporation of prey items coupled with prey differentiation among similar classes. However, we also detected an ‘anti‐modular’ trend, which contradicts theoretical expectations and previous results. We hypothesize that this anti‐modularity is determined by the high biodiversity of the system and the continuous representation of prey size classes. These results reinforce the concept of size‐mediated interactions and its connection with community biodiversity as a main structuring force of food webs.  相似文献   

7.
    
Metabarcoding diet analysis has become a valuable tool in animal ecology; however, co‐amplified predator sequences are not generally used for anything other than to validate predator identity. Exemplified by the common vampire bat, we demonstrate the use of metabarcoding to infer predator population structure alongside diet assessments. Growing populations of common vampire bats impact human, livestock and wildlife health in Latin America through transmission of pathogens, such as lethal rabies viruses. Techniques to determine large‐scale variation in vampire bat diet and bat population structure would empower locality‐ and species‐specific projections of disease transmission risks. However, previously used methods are not cost‐effective and efficient for large‐scale applications. Using bloodmeal and faecal samples from common vampire bats from coastal, Andean and Amazonian regions of Peru, we showcase metabarcoding as a scalable tool to assess vampire bat population structure and feeding preferences. Dietary metabarcoding was highly effective, detecting vertebrate prey in 93.2% of the samples. Bats predominantly preyed on domestic animals, but fed on tapirs at one Amazonian site. In addition, we identified arthropods in 9.3% of samples, likely reflecting consumption of ectoparasites. Using the same data, we document mitochondrial geographic population structure in the common vampire bat in Peru. Such simultaneous inference of vampire bat diet and population structure can enable new insights into the interplay between vampire bat ecology and disease transmission risks. Importantly, the methodology can be incorporated into metabarcoding diet studies of other animals to couple information on diet and population structure.  相似文献   

8.
    
Visual signalling can be affected by both the intensity and spectral distribution of environmental light. In shallow aquatic habitats, the spectral range available for visually mediated behaviour, such as foraging, can reach from ultraviolet (UV) to long wavelengths in the human visible range. However, the relative importance of different wavebands in foraging behaviour is generally unknown. Here, we test how the spectral composition of ambient light influences the behaviour of three‐spined sticklebacks (Gasterosteus aculeatus) when foraging for live cladoceran Daphnia magna. Although paying particular attention to the UV waveband, we measured the foraging preferences of sticklebacks for prey presented under four different spectral conditions. These conditions selectively removed UV (UV–), short‐wave (SW–), mid‐wave (MW–) or long‐wave (LW–) light from the entire spectrum. The absence of UV and long wavelengths strongly reduced prey attractiveness for G. aculeatus compared with conditions without short‐wave and mid‐wave light. To control for potential light habitat preferences in the main experiment, we conducted a further choice experiment without prey stimuli. Fish in these trials did not discriminate significantly between the different spectral conditions. When comparing both experiments, it was observed that, although filter preferences for MW– and LW– conditions were virtually consistent, they differed at shorter wavelengths, with a reduced preference for UV– conditions and, at the same time, an increased preference for SW– conditions in the presence of prey. Thus, prey choice seems to be strongly affected by visual information at the short‐wave end of the spectrum. The foraging preferences were also mirrored by the chromatic contrast values between prey and the experimental background, as calculated for each lighting condition using a series of physiological models on stickleback perception. © 2011 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 105 , 359–368.  相似文献   

9.
    
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   

10.
Understanding predator–prey interactions is a major challenge in ecological studies. In particular, the accurate identification of prey is a fundamental requirement in elucidating food‐web structure. This study took a molecular approach in determining the species identity of consumed prey items of a freshwater carnivorous fish (largemouth bass, Micropterus salmoides), according to their size class. Thirty randomly selected gut samples were categorized into three size classes, based on the total length of the bass. Using the universal primer for the mtDNA cytochrome oxidase I (COI) region, polymerase chain reaction (PCR) amplification was performed on unidentified gut contents and then sequenced after cloning. Two gut samples were completely empty, and DNA materials from 27 of 28 gut samples were successfully amplified by PCR (success rate: 96.4%). Sequence database navigation yielded a total of 308 clones, containing DNA from 26 prey items. They comprised four phyla, including seven classes, 12 orders, and 12 families based on BLAST and BOLD database searches. The results indicate that largemouth bass show selective preferences in prey item consumption as they mature. These results corroborate a hypothesis, presence of ontogenetic diet shift, derived through other methodological approaches. Despite the practical limitations inherent in DNA barcoding analysis, high‐resolution (i.e., species level) identification was possible, and the predation patterns of predators of different sizes were identifiable. The utilization of this method is strongly recommended for determining specific predator–prey relationships in complex freshwater ecosystems.  相似文献   

11.
    
  1. Inter‐specific interactions are key factors in the structuring and functioning of ecological communities. Therefore, it is necessary to assess species interactions, such as predator–prey dynamics and competitive exclusion, within the context of continuing global species introductions. The aim of the present study was to assess ecological impacts and competitive exclusion dynamics involving co‐occurring introduced and native fish species, using the multiple predator functional response (FR) approach.
  2. We use comparative FR analysis (resource uptake as a function of resource density) to assess inter‐specific interactions between the invasive western mosquitofish Gambusia affinis and the native freshwater river goby Glossogobius callidus towards chironomid larvae. The FR was derived for each fish species as individuals and when in heterospecific pairings. Data from single individuals were used to predict the expected FR of individuals when in heterospecific multiple predator combinations. Expected FRs were then compared to the observed FRs of each predator in combination trials, enumerated using prey items in their gut contents.
  3. Both fish species displayed Type II FRs, however, in single fish trials, invasive mosquitofish had significantly higher FRs (curve asymptotes; i.e. shorter handling times and higher maximum feeding rates) than native river gobies. Heterospecific mosquitofish‐river goby combinations revealed that the FR of the river goby was reduced (i.e. longer handling times and lower maximum feeding rates) by the presence of mosquitofish, whereas this combination greatly enhanced mosquitofish FR magnitudes (i.e. shorter handling times and higher maximum feeding rates). The heterospecific treatments resulted in neutral impacts on prey and there were clear inter‐species interference in favour of the non‐native mosquitofish.
  4. This study demonstrates how multiple predators can alter the shape of individual FRs, with neutral effects on prey but superior invader competitive ability. This has implications for predicting the naturalisation success of invasive predators, as predatory and competitive interactions with native predators and prey may facilitate rather than impede establishment.
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12.
    
Few studies have attempted to determine how physical injury affects predators. One of the ways that physical injury can be expressed is by autotomy or the voluntary loss of a body part. Here, we examined whether the loss of specific legs affects the foraging success of the wolf spider Rabidosa santrita (predator) on another species, Pardosa valens (prey). We also wanted to identify whether the loss of legs in both the predator and prey would impact the outcome of a predation event. Both predator and prey were collected from a creek bed at Portal, AZ, in 2012. Predators were randomly assigned groups where all prey items were intact or all prey had one randomly chosen leg IV removed. Within these groups, predators were organized into a control, leg I autotomy, or leg IV autotomy treatment. All predators had their pre‐ and post‐foraging running speed determined. Predators were introduced into chambers with five prey items and allowed to forage for 1 h. The leg position autotomized or the comparison of pre‐ and post‐foraging trials had no effect on predator running speed. Additionally, there was no significant effect of either predator or prey leg treatment on the total proportion of prey items captured by the end of the foraging trials. Survival analyses indicated that intact prey items tended to have a higher survival rate when predators were missing a leg IV than when predators were intact. When both the predator and prey were missing legs, no significant difference in prey survival rates was detected. We suggest that for predators that inhabit complex, heterogeneous habitats and are classified as ambush predators, the loss of a limb may affect prey capture success, especially when the prey is intact, but that increased sample size is necessary to determine whether this trend is significant.  相似文献   

13.
    
Aquatic and terrestrial ecosystems are linked by fluxes of carbon and nutrients in riparian areas. Processes that alter these fluxes may therefore change the diet and composition of consumer communities. We used stable carbon isotope (δ13C) analyses to test whether the increased abundance of aquatic prey observed in a previous study led to a dietary shift in riparian consumers in areas illuminated by artificial light at night (ALAN). We measured the contribution of aquatic‐derived carbon to diets in riparian arthropods in experimentally lit and unlit sites along an agricultural drainage ditch in northern Germany. The δ13C signature of the spider Pachygnatha clercki (Tetragnathidae) was 0.7‰ lower in the ALAN‐illuminated site in summer, indicating a greater assimilation of aquatic prey. Bayesian mixing models also supported higher intake of aquatic prey under ALAN in spring (34% versus 21%). In contrast, isotopic signatures for P. clercki (0.3‰) and Pardosa prativaga (0.7‰) indicated a preference for terrestrial prey in the illuminated site in spring. Terrestrial prey intake increased in spring for P. clercki under ALAN (from 70% to 74%) and in spring and autumn for P. prativaga (from 68% to 77% and from 67% to 72%) and Opiliones (from 68% to 72%; 68% to 75%). This was despite most of the available prey (up to 80%) being aquatic in origin. We conclude that ALAN changed the diet of riparian secondary consumers by increasing the density of both aquatic and terrestrial prey. Dietary changes were species‐ and season‐specific, indicating that the effects of ALAN may interact with phenology and feeding strategy. Because streetlights can occur in high density near freshwaters, ALAN may have widespread effects on aquatic–terrestrial ecosystem linkages.  相似文献   

14.
    
  1. Body size is a key trait of an organism which determines the dynamics of predator–prey interactions. Most empirical studies on the individual size distribution of the aquatic community have focused on the variations in body size of a single trophic level as a response to certain environmental variables or biotic factors. Few studies, however, have evaluated how individual size structure is altered simultaneously across interacting trophic levels and locations. Such comparative examinations of the size distribution in predator and prey communities may bring insight into the strength of the interactions between adjacent trophic levels.
  2. We assessed the potential predation effect of size‐structured predators (i.e. predation by individuals of different sizes) on prey size structure using data from 30 shallow Turkish lakes spanning over five latitudinal degrees. We correlated size diversity and size evenness of predator and prey assemblages across the planktonic food web after accounting for the confounding effects of temperature and resource availability which may also affect size structure. We expected to find a negative relationship between size diversity of predators and prey due to the enhanced strength of top‐down control with increasing predator size diversity. We also hypothesised that competitive interactions for resources in less productive systems would promote a higher size diversity. We further expected a shift towards reduced size diversity and evenness at high temperatures.
  3. In contrast to our hypothesis, we found a positive correlation between size structures of two interacting trophic levels of the planktonic food web; thus, highly size‐diverse fish assemblages were associated with highly size‐diverse zooplankton assemblages. The size evenness of fish and phytoplankton assemblages was negatively and positively related to temperature, respectively. Phytoplankton size diversity was only weakly predicted by the resource availability.
  4. Our results suggest that size structure within a trophic group may be controlled by the size structure at adjacent trophic levels, as well as by temperature and resource availability. The positive relationship between the size diversity of fish and zooplankton suggests that higher diversity of the resources drives a higher size diversity of consumers or vice versa, and these effects are beyond those mediated by taxonomic diversity. In contrast, the size diversity and size evenness of phytoplankton are mainly influenced by physical factors in this region and perhaps in warm shallow lakes in general.
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15.
    
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   

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Marine food webs are highly compartmentalized, and characterizing the trophic niches among consumers is important for predicting how impact from human activities affects the structuring and functioning of marine food webs. Biomarkers such as bulk stable isotopes have proven to be powerful tools to elucidate trophic niches, but they may lack in resolution, particularly when spatiotemporal variability in a system is high. To close this gap, we investigated whether carbon isotope (δ13C) patterns of essential amino acids (EAAs), also termed δ13CAA fingerprints, can characterize niche differentiation in a highly dynamic marine system. Specifically, we tested the ability of δ13CAA fingerprints to differentiate trophic niches among six functional groups and ten individual species in the Baltic Sea. We also tested whether fingerprints of the common zooplanktivorous fishes, herring and sprat, differ among four Baltic Sea regions with different biochemical conditions and phytoplankton assemblages. Additionally, we investigated how these results compared to bulk C and N isotope data for the same sample set. We found significantly different δ13CAA fingerprints among all six functional groups. Species differentiation was in comparison less distinct, due to partial convergence of the species' fingerprints within functional groups. Herring and sprat displayed region‐specific δ13CAA fingerprints indicating that this approach could be used as a migratory marker. Niche metrics analyses showed that bulk isotope data had a lower power to differentiate between trophic niches than δ13CAA fingerprinting. We conclude that δ13CAA fingerprinting has a strong potential to advance our understanding of ecological niches, and trophic linkages from producers to higher trophic levels in dynamic marine systems. Given how management practices of marine resources and habitats are reshaping the structure and function of marine food webs, implementing new and powerful tracer methods are urgently needed to improve the knowledge base for policy makers.  相似文献   

18.
    
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   

19.
    
Food-hoarding behaviour is widespread in the animal kingdom and enables predictable access to food resources in unpredictable environments. Within species, consistent variation among individuals in food-hoarding behaviours may indicate the existence of individual strategies, as it likely captures intrinsic differences in how individuals cope with risks (e.g. starvation, pilferage). Using 17 years of data, we estimated the long-term repeatability of 10 food-hoarding behaviours in a population of Eurasian pygmy owls (Glaucidium passerinum), a small avian predator subject to high temporal fluctuations in its main prey abundance. We found low repeatability in the proportion of shrews and the average prey mass stored for both sexes, while females were moderately repeatable in the mass and the number of prey items stored. These two pairs of behaviours were tightly correlated among individuals and might represent two different sets of individual strategies to buffer against starvation risks.  相似文献   

20.
    
Climate fluctuations and human exploitation are causing global changes in nutrient enrichment of terrestrial and aquatic ecosystems and declining abundances of apex predators. The resulting trophic cascades have had profound effects on food webs, leading to significant economic and societal consequences. However, the strength of cascades–that is the extent to which a disturbance is diminished as it propagates through a food web–varies widely between ecosystems, and there is no formal theory as to why this should be so. Some food chain models reproduce cascade effects seen in nature, but to what extent is this dependent on their formulation? We show that inclusion of processes represented mathematically as density‐dependent regulation of either consumer uptake or mortality rates is necessary for the generation of realistic ‘top‐down’ cascades in simple food chain models. Realistically modelled ‘bottom‐up’ cascades, caused by changing nutrient input, are also dependent on the inclusion of density dependence, but especially on mortality regulation as a caricature of, e.g. disease and parasite dynamics or intraguild predation. We show that our conclusions, based on simple food chains, transfer to a more complex marine food web model in which cascades are induced by varying river nutrient inputs or fish harvesting rates.  相似文献   

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