Saltwater- and freshwater environments have opposing physiological challenges, yet, there are fish species that are able to enter both habitats during short time-spans, and as individuals they must therefore adjust quickly to osmoregulatory contrasts. In this study, we conducted an experiment to test for plastic responses to abrupt sainity changes in two poplulations of threespine stickleback, Gasterosteus aculeatus, representing two ecotypes (freshwater and ancestral saltwater). We exposed both ecotypes to abrupt native (control treatment) and non-native salinities (0 and 30‰) and sampled gill-tissue for transcriptomic analyses after six hours exposure. To investigate genomic responses to salinity, we analysed four different comparisons; one for each ecotype (in their control and exposure salinity; 1 and 2), one between ecotypes in their control salinity (3), and the fourth comparison included all transcripts identified in (3) that did not show any expressional changes within ecotype in either the control or the exposed salinity (4). Abrupt salinity transfer affected the expression of 10 and 1530 transcripts for the saltwater and freshwater ecotype, respectively, and 1314 were differentially expressed between the controls, including 502 that were not affected by salinity within ecotype (fixed expression). In total, these results indicate that factors other than genomic expressional plasticity are important for osmoregulation in stickleback, due to the need for opposite physiological pathways to survive the abrupt change in salinity.
DNA barcoding has been used worldwide to identify biological specimens and to delimit species. It represents a cost-effective, fast and efficient way to assess biodiversity with help of the public Barcode of Life Database (BOLD) accounting for more than 236,000 animal species and more than ten million barcode sequences. Here, we performed a meta-analysis of available barcode data of central European Coleoptera to detect intraspecific genetic patterns among ecological groups in relation to geographic distance with the aim to investigate a possible link between infraspecific variation and species ecology. We collected information regarding feeding style, body size as well as habitat and biotope preferences. Mantel tests and two variants of Procrustes analysis, both involving the Principal Coordinates Neighborhood Matrices (PCNM) approach, were applied on genetic and geographic distance matrices. However, significance levels were too low to further use the outcome for further trait investigation: these were in mean for all ecological guilds only 7.5, 9.4, or 15.6 % for PCNM+PCA, NMDS+PCA, and Mantel test, respectively, or at best 28% for a single guild. Our study confirmed that certain ecological traits were associated with higher species diversity and foster stronger genetic differentiation. Results suggest that increased numbers of species, sampling localities, and specimens for a chosen area of interest may give new insights to explore barcode data and species ecology for the scope of conservation on a larger scale.
Sexual imprinting is widespread in birds and other species but its existence requires explanation. Here we show that sexual imprinting leads to speciation in locally-adapted populations if a neutral mating cue – e.g., novel plumage coloration – arises through mutation. Local adaptations occur when evolution results in stable genetic polymorphisms with one allele predominating in some areas while others predominate elsewhere. Here we use a deterministic two-niche population genetic model to map the set of migration and selection rates for which polymorphic evolutionary outcomes, i.e., local adaptations, can occur. Equations for the boundaries of the set of polymorphic evolutionary outcomes were derived by (Bulmer, 1972), but our results, obtained by deterministic simulation of the evolutionary process, show that one of Bulmer’s equations is inaccurate except when the level of dominance is 0.5, and fails if one of the alleles is dominant. Having an accurate map of the set of migration and selection rates for which polymorphic evolutionary outcomes can occur, we then show using the model of (Sibly et al., 2019) that local adaptation in all cases leads to speciation if a new neutral mating cue arises by mutation. We finish by considering how genome sequencing makes possible testing of our results.
Many populations of long-distance migrant shorebirds are declining rapidly. Since the 1970s, the Lesser Yellowlegs (Tringa flavipes) has experienced a pronounced reduction in abundance of ~63%. The potential causes of the species’ decline are complex and interrelated yet understanding the timing of migration and seasonal routes used by this species will aid in directing conservation planning to address potential threats. During 2018–2021, we tracked 118 adult Lesser Yellowlegs using GPS satellite tags deployed on birds from five breeding and two migratory stopover locations spanning the boreal forest of North America from Alaska to eastern Canada. Our objectives were to quantify migratory connectivity and identify key stopover and non-breeding locations. Individuals tagged in Alaska and central Canada followed similar southbound migratory routes through the Prairie Pothole Region of North America, whereas birds tagged in eastern Canada completed multi-day transoceanic flights covering distances of >4,000 km across the Atlantic between North and South America. Upon reaching their non-breeding locations, Lesser Yellowlegs populations overlapped, resulting in weak migratory connectivity. Lastly, freshwater and agricultural habitats of the Prairie Pothole region supported the highest proportion of Lesser Yellowlegs during southbound migration. Our findings suggest that while Lesser Yellowlegs travel long distances and traverse numerous political boundaries each year, the breeding population from which an individual originates likely has the greatest influence on which threats birds experience during migration. Further, the species’ dependence on wetlands in agricultural landscapes during migration may make them vulnerable to threats related to agricultural practices, such as pesticide exposure.
Abstract Questions: Most clustering methods assume data are structured as discrete hyper-spheroidal clusters to be evaluated by measures of central-tendency. If vegetation data do not conform to this model, then vegetation data may be clustered incorrectly. What are the implications for cluster stability and evaluation if clusters are of irregular shape or density? Location: Southeast Australia Methods: We define misplacement as the placement of a sample in a cluster other than (distinct from) its nearest neighbour and hypothesise that optimising homogeneity incurs the cost of higher rates of misplacement. The Chameleon algorithm emphasises interconnectivity and thus is sensitive to the shape and distribution of clusters. We contrasted its solutions with those of traditional non-hierarchical and hierarchical (agglomerative and divisive) approaches. Results: Chameleon-derived solutions had lower rates of misplacement and only marginally higher heterogeneity than those of k-means in the range 15–60 clusters, but their metrics converged with larger numbers of clusters. Solutions derived by agglomerative clustering had the best metrics (and divisive clustering the worst) but both produced inferior high-level solutions clusters to those of Chameleon by merging distantly-related clusters. Conclusions: Our results suggest that Chameleon may have an advantage over traditional algorithms at when data exhibit discontinuities and variable structure, potentially producing more stable solutions (due to lower rates of misplacement), but scoring lower on traditional metrics of central-tendency. Chameleon’s advantages are less obvious in the partitioning of data from continuous gradients, however its graph-based partitioning protocol facilitates hierarchical integration of solutions.
Birds of prey frequently feature in reintroductions and the hacking technique is typically used. Hacking involves removing large nestlings from donor populations, transferring them to captivity, feeding them ad libitum. Potentially, via the hacking method, stress of captivity and disruption of parental feeding may be detrimental. Alternatively, provision of ad libitum food may be advantageous. Although hacking has underpinned reintroduction project successes there has been no research on how the method may affect the health and nutritional status of translocated birds during captivity. We compared blood chemistry data from 55 young White-tailed Eagles, translocated from Norway as part of the species’ reintroduction to Scotland, from sampling soon after arriving in captivity and again (≈ 42 d later) before their release. Numerous significant differences between first and second samples were found, but no significant interactions showed that sexes responded similarly to captivity. According to hematological and biochemical metrics, individuals showed several changes during captivity, including in red blood cell parameters, plasma proteins and white cellular parameters related to the immune system, that indicated improved health status. Captivity with ad libitum food was associated with decreased urea and uric acid values: high values can indicate nutritional stress. Urea values became more normally distributed before release, indicating that ad libitum food had reduced nutritional differences between early nestlings in the season and later ones. Despite plentiful food, both sexes lost body mass before release, suggesting an inherent physiological mechanism to improve flight performance in fledglings. We conclude that hacking improved the health and nutritional status of released eagles which is likely to enable birds to cope with greater costs of exploratory behavior which they may require in reintroduction projects. In this context, we note the absence of survival differences between hacked and wild raptors in previous research.
Wolves (Canis lupus) can exert top-down pressure and shape ecological communities through selective predation of ungulates and beavers (Castor Canadensis). Considering their ability to shape communities through predation, understanding wolf foraging decisions is critical to predicting their ecosystem level effects. Specifically, if wolves are optimal foragers, consumers that optimize tradeoffs between cost and benefits of prey acquisition, changes in these factors may lead to prey switching or negative-density dependent selection with potential consequences for community stability. For wolves, factors affecting cost and benefits include prey vulnerability, risk, reward, and availability which can vary temporally. We described wolf diet in by frequency of occurrence and percent biomass and characterized diet in relation to optimal foraging using prey remains found in wolf scats on Isle Royale National Park, Michigan, USA during May–October 2019–2020. We used logistic regression to estimate prey consumption over time. We predicted prey with temporal variation in cost (vulnerability and/or availability) such as adult and calf moose (Alces alces) and beaver to vary in wolves’ diet. We analyzed 206 scats and identified 62% of remains as beaver, 26% as and moose, and 12% as other (birds, smaller mammals, and wolves). Adult moose were more likely to occur in wolf scat in May, when moose are in poor condition following winter. Similarly, the occurrence of moose calves peaked June–mid July following parturition but before their vulnerability declined as they matured. In contrast, beaver occurrence in wolf scat did not change over time, possibly reflecting the importance of low handling cost prey items for recently introduced lone or paired wolves. Our results demonstrate that wolf diet is plastic and responsive to temporal changes in prey acquisition cost as predicted by optimal foraging theory. Temporal fluctuation in diet may influence wolves’ ecological role if prey respond to increased predation risk by altering their foraging or breeding behavior.
1. Given the sharp increase in agricultural and infrastructure development and the paucity of widespread data available for making conservation management decisions, a more rapid and accurate tool for identifying fish fauna in the world’s largest freshwater ecosystem, the Amazon, is needed. 2. Current strategies for identification of freshwater fishes require high levels of training and taxonomic expertise for morphological identification or genetic testing for species recognition at a molecular level. 3. To overcome these challenges, we built an image masking model (U-Net) and a convolutional neural net (CNN) to classify Amazonian fish in photographs. Fish used as training data were collected and photographed in tributaries in seasonally flooded forests of the upper Morona River valley in Loreto, Peru in 2018 and 2019. 4. Species identifications in the training images (n = 3,068) were verified by expert ichthyologists. These images were supplemented with photographs taken of additional Amazonian fish specimens housed in the ichthyological collection of the Smithsonian’s National Museum of Natural History. 5. We generated a CNN model that identified 33 genera of fishes with a mean accuracy of 97.9%. Wider availability of accurate freshwater fish image recognition tools, such as the one described here, will enable fishermen, local communities and community scientists to more effectively participate in collecting and sharing data from their territories to inform policy and management decisions that impact them directly.
Hypoxia has profound and diverse effects on aerobic organisms, disrupting oxidative phosphorylation and activating several protective pathways. Predictions have been made that exposure to mild intermittent hypoxia may be protective against more severe exposure and may extend lifespan. Both effects are likely to depend on prior selection on phenotypic and transcriptional plasticity in response to hypoxia, and may therefore show signs of local adaptation. Here we report the lifespan effects of chronic, mild, intermittent hypoxia (CMIH) and short-term survival in acute severe hypoxia (ASH) in four clones of Daphnia magna originating from either permanent or intermittent habitats, the latter regularly drying up with frequent hypoxic conditions. We show that CMIH extended the lifespan in the two clones originating from intermittent habitats but had the opposite effect in the two clones from permanent habitats, which also showed lower tolerance to ASH. Exposure to CMIH did not protect against ASH; to the contrary, Daphnia from the CMIH treatment had lower ASH tolerance than normoxic controls. Few transcripts changed their abundance in response to the CMIH treatment in any of the clones. After 12 hours of ASH treatment, the transcriptional response was more pronounced, with numerous protein-coding genes with functionality in mitochondrial and respiratory metabolism, oxygen transport, and, unexpectedly, gluconeogenesis showing up-regulation. While clones from intermittent habitats showed somewhat stronger differential expression in response to ASH than those from permanent habitats, there were no significant hypoxia-by-habitat of origin or CMIH-by-ASH interactions. GO enrichment analysis revealed a possible hypoxia tolerance role by accelerating the molting cycle and regulating neuron survival through up-regulation of cuticular proteins and neurotrophins, respectively.
Habitat divergence among close relatives is a common theme in ecology. While recent studies have frequently found that the abundance and diversity of plant species are regulated by soil microbes, little is known whether soil microbes can also affect the habitat distributions of plants. To fill in this knowledge gap, we investigated whether interactions with soil microbes restrict habitat distributions of closely related oaks (Quercus spp.) in eastern North America. We performed a soil inoculum experiment using two pairs of sister species that show habitat divergence: Quercus alba (local species) vs. Q. michauxii (foreign), and Q. shumardii (local) vs. Q. acerifolia (foreign). To test whether host-specific soil microbes are responsible for habitat restriction, we investigated the impact of local sister live soil (containing soil microbes associated with local sister species) on the survival and growth of local and foreign species. Secondly, to test whether habitat-specific soil microbes are responsible for habitat restriction, we also examined the effect of local habitat live soil (containing soil microbes within local sister’s habitats, but not directly associated with roots of local sister species) on the seedlings of local and foreign species. We found that local sister live soil decreased the survival and biomass of foreign species’ seedlings while increased those of local species, which supports the roles of host-specific microbes in mediating habitat exclusion. In contrast, local habitat live soil did not differentially affect the survival or biomass of the local vs. foreign sister species, providing no support for the roles of habitat-specific microbes. Our study indicates that soil microbes associated with one sister species can suppress the recruitment of the other host species, contributing to habitat partitioning of the closely related oaks. Our findings emphasize that considering the complex interactions with soil microbes is essential for understanding habitat distributions of closely related plants.
Patagonia is an understudied area, especially when it comes to population genomic studies with relevance to fishery management. However, the dynamic and heterogeneous landscape in this area can harbor important but cryptic genetic population structure. Once such information is revealed, it can be integrated into the management of infrequently investigated species. Eleginops maclovinus is a protandrous hermaphrodite species with economic importance for local communities that is currently managed as a single genetic unit. In this study, we sampled five locations distributed across a salinity cline from Northern Patagonia to investigate the genetic population structure of E. maclovinus. We use Restriction-site Associated DNA (RAD) sequencing and outlier tests to obtain neutral and adaptive loci, using FST and GEA approaches. We identified a spatial pattern of structuration with gene flow and spatial selection by environmental association. Neutral and adaptive loci showed two and three genetic groups, respectively. The effective population sizes estimated ranged from 572 (Chepu) to 14,454 (Chaitén) and were influenced more by locality than salinity cline. We found loci putatively associated with salinity suggesting that salinity may act as a selective driver in E. maclovinus populations. These results suggest a complex interaction between genetic drift, geneflow, and natural selection in this area. Our findings suggest several units in this area, and the information should be integrated into the management of this species. We discuss the significance of these results for fishery management and suggest future directions to improve our understanding of how E. maclovinus is adapted to the dynamic waters of Northern Patagonia.
Thousands of plant species produce both extrafloral nectaries (EFNs) on their leaves and nutrient-rich appendages on their diaspores (elaiosomes). Although their individual ecology is well-known, any possible functional link between them has been ignored. Here, we recognized their co-presence in the shrub, Adenanthos cygnorum (Proteaceae), and studied their function and interaction. We observed that ants frequently visit both structures, seeds are attractive to vertebrate granivores but are released into a leafy cup from where they are harvested by ants and taken to their nests, from which seeds, lacking elaiosomes, germinate after fire. We showed that juvenile plants do not produce EFNs and are not visited by ants. We conclude that EFNs are not just an indirect adaptation to minimize herbivory via aggressive ants (or parasitoid wasps) but specifically enhance reproductive success by inducing ants to visit the plant throughout the year, promoting discovery of the seasonally available, elaiosome-bearing seeds on the plant and transporting them to their nests, so avoiding the risk of granivory should seeds fall to the ground.
The buffy-tufted-ear marmoset (Callithrix aurita) is a small primate endemic to the Brazilian Atlantic Forest biome, and one of the 25 most endangered primates in the world, due to fragmentation, loss of habitat, and invasion by allochthonous Callithrix species. Using occurrence data for C. aurita from published data papers, we employed model selection and cumulative AICc weight (w+) to evaluate whether fragment size, distance to fragments with allochthonous species, altitude, connectivity, and surrounding matrices influence the occurrence of C. aurita within its distributional range. Distance to fragments with C. jacchus (w+ = 0.94) and non-vegetated areas (w+ = 0.59) correlated negatively with C. aurita occurrence. Conversely, the percentage of agriculture and pasture mosaic (w+ = 0.61) and the percentage of savanna formation (w+ = 0.59) in the surrounding matrix correlated positively with C. aurita occurrence. The findings indicate that C. aurita is isolated in forest fragments surrounded by potentially inhospitable matrices, along with the proximity of a more generalist and invasive species, thereby increasing the possibility of introgressive hybridization. The findings also highlighted the importance of landscape factors and allochthonous congeneric species for C. aurita conservation, besides indicating urgency for allochthonous species management. Finally, the approach used here can be applied to improve conservation studies of other endangered species, such as C. flaviceps, which is also endemic to the Brazilian Atlantic Forest and faces the same challenges.
How first-time animal migrants find specific destinations remains an intriguing ecological question. Migratory marine species use geomagnetic map cues acquired as juveniles to aide long-distance migration, but less is known for long-distance migrants in other taxa. We test the hypothesis that naïve Eastern North American fall migratory monarch butterflies (Danaus plexippus), a species that possesses a magnetic sense, locate their overwintering sites in Central Mexico using inherited geomagnetic map cues. We examined whether overwintering locations and the abundance of monarchs changed with the natural shift of Earth’s magnetic field from 2004 to 2018. We found that migratory monarchs continued to overwinter at established sites in similar abundance despite significant shifts in the geomagnetic field, which is inconsistent with monarchs using fine scale geomagnetic map cues to find overwintering sites. It is more likely that monarchs use geomagnetic cues to assess migratory direction rather than location and use other cues to locate overwintering sites.
Determining what factors influence the distribution and abundance of wildlife populations is crucial for implementing effective conservation and management actions. Yet, for species with dynamic seasonal, sex-, and age-specific spatial ecology, like the diamondback terrapin (Malaclemys terrapin; DBT), doing so can be challenging. Moreover, environmental factors that influence the distribution and abundance of DBT in their northernmost range have not been quantitatively characterized. We investigated proximity to nesting habitat as one potential driver of spatiotemporal variation in abundance in a three-step analytical approach. First, we used a scale selection Resource Selection Function (RSF) approach based on NLCD landcover data to identify the scale at which DBT are selecting for (or avoiding) landcover types to nest. Next, we used RSF to predict areas of suitable nesting habitat and created an index of nest suitability (NSI). Finally, analyzing visual count data using a generalized linear mixed model (GLMM), we investigate spatiotemporal drivers of relative abundance, with a specific focus on whether similar factors affect offshore abundance and onshore nest site selection. We found the scale of selection for developed and saltmarsh land use classes to be 500 m and 525 m and coniferous, beach and open water land use classes to be 100 m. Selection was positive for nesting areas proximal to saltmarsh and beach habitat and negative for developed, coniferous and open water. Expected relative abundance was best explained by the interaction between NSI and day of season, where expected relative abundance was greater within high NSI areas during the nesting season (2.30 individuals, CI: 1.29 – 4.10) compared to areas of low NSI (1.99 individuals, CI: 1.27 – 3.13). Our results provide evidence that inferred spatial patterns of suitable nesting habitat explain spatiotemporal patterns of terrapin movement and abundance.
The domestic cat, Felis catus, is one of the most popular and widespread domestic animals. Because domestic cats can reach high population densities and retain at least some tendency to hunt, their overall impact on wildlife can be severe. Domestic cats have highly variable predation rates depending on the availability of prey in their environment, their owners' practices, and individual cat characteristics. Among these characteristics, cat personality has recently been hypothesized to be an important factor contributing to variations in the hunting activity of cats. In this study, we used surveys of 2,508 cat owners living in France to collect information about cat personalities using the Feline Five personality model and about the frequency with which the cats bring home prey. For both birds and rodents, cats with high levels of extraversion or low levels of neuroticism had significantly higher frequencies of prey return. Owners whose cats had low levels of agreeableness or high levels dominance reported a significantly lower frequency of bird return. Personality differences therefore seem to contribute to the high variability in predation rates between domestic cats. We also found that the owner-reported prey return frequencies were significantly higher for cats spending more time outdoors, for non-pedigree cats, and for owners living in rural or suburban areas as opposed to urban areas. By contrast, we did not detect an effect of cat sex or age on their reported prey return rates.
1. Recent empirical studies have quantified correlation between survival and recovery by estimating these parameters as correlated random effects with Bayesian multivariate mixed effects models fit to tag-recovery data. In these applications, increasingly negative correlation between survival and recovery indicates increasingly additive harvest mortality. The power of mixed effects models to detect non-zero correlations has rarely been evaluated and these few studies have not focused on a common data type in the form of tag recoveries. 2. We assessed the power of multivariate mixed effects models to estimate negative correlation between annual survival and recovery. Using three priors for multivariate normal distributions, we fit mixed effects models to a mallard (Anas platyrhychos) tag-recovery dataset and to simulated data with sample sizes corresponding to different levels of monitoring intensity. We also demonstrate a method of calculating effective sample size for capture-recapture data. 3) Different priors lead to different inference about additive harvest when we fit our models to the mallard data. Our power analysis of simulated data indicated most prior distribution and sample size combinations resulted in correlation estimates with substantial bias and imprecision. Many correlation estimates spanned the available parameter space (–1,1) and were biased towards zero. Only one prior combined with our most intensive monitoring scenario allowed our models to consistently recover negative correlation without bias. Underestimating the magnitude of correlation coincided with overestimating the variability of annual survival, but not annual recovery. 4) The inadequacy of prior distributions and sample size combinations typically assumed adequate for robust inference represents a concern in the application of Bayesian mixed effects models for the purpose of informing harvest management. Our analysis approach provides a means for examining prior influence and sample size on mixed-effects models fit to capture-recapture data while emphasizing transferability of results between empirical and simulation studies.
• The carnivorous pitcher plant Sarracenia purpurea is native to North America, but has been introduced into Europe, where it is now widespread. We have little understanding of how this species functions in its non-native range. Such understanding will provide insight into S. purpurea ecology and support its use as a model system for investigating food webs. We measured pitcher morphology and prey capture by S. purpurea in Britain and Ireland. • Pitchers were removed from different plants at each of six bogs covering the species rage in the UK and Ireland (n = 10 pitchers per site). For each pitcher we counted and identified every prey item and took measurements of morphology. We also compiled prey capture data for existing studies in Europe and North America. • Prey capture characteristics varied between sites in the UK and Ireland. The amount of prey captured varied 2-fold between sites and was partially explained by differences in pitcher size; larger pitchers caught more prey. The primary prey was Formicidae, Diptera and Coleoptera. At the rank of order, prey composition varied between bogs, some contained mainly Formicidae, some mainly Diptera and some a mix. Plants were more specialised in prey capture at some bogs compared to others. There was no overall difference in prey capture (composition or degree of specialism) at the rank of order between plants in Europe compared to those in North America. At the rank of species, prey capture varied between populations even within the same order. • This study demonstrates a large amount of variability between sites in prey capture characteristics. This may reflect different site characteristics and/or plant strategies, will likely impact plant function, and may impact on the inquiline community. In terms of prey capture at the rank of order S. purpurea functions identically in its non-native range. This supports its use as a natural experiment for understanding food webs