1.Images are resourceful data for ecologists and can provide a more complete information than other methods to study biodiversity and the interactions between species. Automated image analysis however often relies on extensive datasets, not implementable by small research teams. We are here proposing an object detection method that allows the analysis of high‐resolution images containing many animals interacting in a small dataset. 2.We developed an image analysis pipeline named ‘CORIGAN' to extract the characteristics of animal communities. CORIGAN is based on the YOLOv3 model as the core of object detection. To illustrate potential applications, we use images collected during a sentinel prey experiment. 3.Our pipeline can be used to detect, count and study the physical interactions between various animals. On our example dataset, the model reaches 86.6% precision and 88.9% recall at the species level or even at the caste level for ants. The training set required fewer than 10 h of labelling. Based on the pipeline output it was possible to build the trophic and non‐trophic interactions network describing the studied community. 4.CORIGAN relies on generic properties of the detected animals and can be used for a wide range of studies and supports. Here, we study invertebrates on high‐resolution images, but the same processing can be transferred for the study of larger animals on satellite or aircraft images.
Contributors:Popovic I., Riginos C., Matias A.M.A., Bierne N.
Introduced species can impose profound impacts on the evolution of receiving communities with which they interact. If native and introduced taxa remain reproductively semi-isolated, human-mediated secondary contact may promote genetic exchange across newly created hybrid zones, potentially impacting native genetic diversity and invasive species spread. Here, we investigate the contributions of recent divergence histories and ongoing (post-introduction) gene flow between the invasive marine mussel, Mytilus galloprovincialis and a morphologically indistinguishable and taxonomically contentious native Australian taxon, Mytilus planulatus. Using transcriptome-wide markers, we demonstrate that two contemporary M. galloprovincialis introductions into southeastern Australia originate from genetically divergent lineages from its native range in the Mediterranean Sea and Atlantic Europe, where both introductions have led to repeated instances of admixture between introduced and endemic populations. Through increased genome-wide resolution of species relationships, combined with demographic modelling, we validate that mussels sampled in Tasmania are representative of the endemic Australian taxon (M. planulatus), but share strong genetic affinities to M. galloprovincialis. Demographic inferences indicate late-Pleistocene divergence times and historical gene flow between the Tasmanian endemic lineage and northern M. galloprovincialis, suggesting that native and introduced taxa have experienced a period of historical isolation of at least 100,000 years. Our results demonstrate that many genomic loci and sufficient sampling of closely related lineages in both sympatric (e.g., Australian populations) and allopatric (e.g., northern-hemisphere Mytilus taxa) ranges are necessary to accurately (i) interpret patterns of intraspecific differentiation and to (ii) distinguish contemporary invasive introgression from signatures left by recent divergence histories in high dispersal marine species. More broadly, our study fills a significant gap in systematic knowledge of native Australian biodiversity and sheds light on the intrinsic challenges for invasive species research when native and introduced species boundaries are not well-defined.
Individuals often differ in their ability to cope with challenging environmental and social conditions. Evidence from model systems suggests that patterns of DNA methylation are associated with variation in coping ability. These associations could arise directly if methylation plays a role in controlling the physiological response to stressors by, among other things, regulating the release of glucocorticoids in response to challenges. Alternatively, the association could arise indirectly if methylation and resilience have a common cause, such as early life conditions. In either case, methylation might act as a biomarker for coping ability. At present, however, relatively little is known about whether variation in methylation is associated with organismal performance and resilience under natural conditions. We studied genome-wide patterns of DNA methylation in free-living female tree swallows (Tachycineta bicolor) using methylated DNA immunoprecipitation (MeDIP) and a tree swallow genome that was assembled for this study. We identified areas of the genome that were differentially methylated with respect to social signal expression (breast brightness) and physiological traits (ability to terminate the glucocorticoid stress response through negative feedback). We also asked whether methylation predicted resilience to a subsequent experimentally imposed challenge. Individuals with brighter breast plumage and higher stress resilience had lower methylation at differentially methylated regions across the genome. Thus, widespread differences in methylation predicted both social signal expression and the response to future challenges under natural conditions. These results have implications for predicting individual differences in resilience, and for understanding the mechanistic basis of resilience and its environmental and social mediators.
Rockhopper penguins are delimited as two species, the northern rockhopper (Eudyptes moseleyi) and the southern rockhopper (E. chrysocome), with the latter comprising two subspecies, the western rockhopper (E. c. chrysocome) and the eastern rockhopper (E. c. filholi). We conducted a phylogeographic study using multilocus data from 114 individuals sampled across 12 colonies from the entire range of the northern/southern rockhopper complex to assess potential population structure, gene flow and species limits. Bayesian and likelihood methods with nuclear and mitochondrial DNA, including model testing and heuristic approaches, support E. moseleyi and E. chrysocome as distinct species lineages with a divergence time of 0.97 Ma. However, these analyses also indicated the presence of gene flow between these species. Among southern rockhopper subspecies, we found evidence of significant gene flow and heuristic approaches to species delimitation based on the genealogical diversity index failed to delimit them as species. The best-supported population models for the southern rockhoppers were those where E. c. chrysocome and E. c. filholi were combined into a single lineage or two lineages with bidirectional gene flow. Additionally, we found that E. c. filholi has the highest effective population size while E. c. chrysocome showed similar effective population size to that of the endangered E. moseleyi. We suggest that the current taxonomic definitions within rockhopper penguins be upheld and that E. chrysocome populations, all found south of the subtropical front, should be treated as a single taxon with distinct management units for E. c. chrysocome and E. c. filholi.
Contributors:Pereira P., da Silva L.P., Beja P., Lopes P.B., Lopes R.J., Mata V.A., Jarman S.N.
The application of DNA metabarcoding to dietary analysis of trophic generalists requires using multiple markers in order to overcome problems of primer specificity and bias. However, limited attention has been given to the integration of information from multiple markers, particularly when they partly overlap in the taxa amplified, and vary in taxonomic resolution and biases. Here we test the use of a mix of universal and specific markers, provide criteria to integrate multi-marker metabarcoding data and a python script to implement such criteria and produce a single list of taxa ingested per sample. We then compare the results of dietary analysis based on morphological methods, single markers, and the proposed combination of multiple markers. The study was based on the analysis of 115 faeces from a small passerine, the Black Wheatears (Oenanthe leucura). Morphological analysis detected far fewer plant taxa (12) than either a universal 18S marker (57) or the plant trnL marker (124). This may partly reflect the detection of secondary ingestion by molecular methods. Morphological identification also detected far fewer taxa (23) than when using 18S (91) or the arthropod markers IN16STK (244) and ZBJ (231), though each method missed or underestimated some prey items. Integration of multi-marker data provided far more detailed dietary information than any single marker and estimated higher frequencies of occurrence of all taxa. Overall, our results show the value of integrating data from multiple, taxonomically overlapping markers in an example dietary dataset.
An experimental study on ordered pyrochlore structured Gd1.5Ce0.5Ti2O7 (Fd-3m) was carried out up to 45 GPa by synchrotron radiation X-ray diffraction and Raman spectroscopy. Experimental results show that Gd1.5Ce0.5Ti2O7 transfers to a disordered cotunnite-like phase (Pnma Z=4) at ~42 GPa. Compared with the end member Gd2Ti2O7, the substitution of Ce3+ for Gd3+ increases the transition pressure and the high-pressure stability of the pyrochlore phase. This pressure-induced structure transition is mainly controlled by cationic order-disorder modification, and the cationic radius ratio rA/rB may also be effective for predicting the pyrochlore oxides’ high-pressure stability. In addition, two isostructural transitions of Gd1.5Ce0.5Ti2O7 are observed at 6.5 GPa and 13 GPa, and their unit-cell volumes as a function of pressure demonstrate that the compression behavior is rather complex.
Contributors:Diehl S., Wickman J., Brannstrom A.
Spatial environmental heterogeneity coupled with dispersal can promote ecological persistence of diverse metacommunities. Does this premise hold when metacommunities evolve? Using a 2-resource competition model, we studied the evolution of resource-uptake specialization as a function of resource type (substitutable to essential) and shape of the trade-off between resource uptake affinities (generalist- to specialist-favoring). In spatially homogeneous environments, evolutionarily stable coexistence of consumers is only possible for sufficiently substitutable resources and specialist-favoring trade-offs. Remarkably, these same conditions yield comparatively low diversity in heterogeneous environments, because they promote sympatric evolution of two opposite resource specialists that, together, monopolize the two resources everywhere. Consumer diversity is instead maximized for intermediate trade-offs and clearly substitutable or clearly essential resources, where evolved metacommunities are characterized by contrasting selection regimes. Taken together, our results present new insights on resource-competition-mediated evolutionarily-stable diversity in homogeneous and heterogeneous environments, which should be applicable to a wide range of systems.
Deposition of carbonaceous compounds was used to improve the propylene selectivity of ZSM-5 by deactivating some acid sites meanwhile maintaining the high activity for methanol conversion. The carbonaceous species of pre-coked samples before and after MTP reactions were investigated by elementary analysis and Thermo Gravimetric Analyzer (TGA). The results showed that pre-coke formed at low temperature (250 ℃) was unstable and easily to transform into polyaromatics species at the high reacting temperature. While combing 5% pre-coking process with 95% stream treatment at high temperature (480 ℃) was effective in inhibiting the formation of coke deposits and presented an significant improvement in the propylene selectivity.
Contributors:Kim M.-K., Kim D.-S., Ryu H., Choi E.-K., Kim S.-W., Hinchet R., Yoon H.-J.
A major challenge for implantable medical systems is the inclusion or reliable delivery of electrical power. We use ultrasound to deliver mechanical energy through skin and liquids, and demonstrate a thin implantable vibrating triboelectric generator able to effectively harvest it. The ultrasound can induce the micrometer scale displacement of a polymer thin membrane to generate electrical energy through contact electrification. We recharge a Li-ion battery at a rate of 166 μC/s in water. The voltage and current generated in-vivo by ultrasound-energy transfer reached 6 V and 550 µA in a dog. It shows that capacitive triboelectric electret is the first technology able to compete with piezoelectricity to harvest ultrasound in-vivo and power medical implants.
A double-platform protocol was implemented in the Bay of Biscay and English Channel during SCANS-III survey (2016). Two observation platforms using different protocols were operating on-board a single aircraft: the reference platform ("Scans"), targeting cetaceans, and the "Megafauna" platform, recording all the marine fauna visible at the sea surface (jellyfishes to seabirds). We tested for a potential bias in small cetacean detection and density estimation when recording all marine fauna. At a small temporal scale (30 seconds, roughly 1.5 km), our results provided overall similar perception probabilities for both platforms. Small cetacean perception was higher following the detection of another cetacean within the previous 30 seconds in both platforms. The only prior target that decreased small cetacean perception during the subsequent 30 seconds was seabirds, in the Megafauna platform. However, at a larger scale (study area), this small-scale perception bias had no effect on the density estimates, which were similar for the two protocols. As a result, there was no evidence of lower performance regarding small cetacean population monitoring for the multitarget protocol in our study area. Because our study area was characterised by moderate cetacean densities and small spatial overlap of cetaceans and seabirds, any extrapolation to other areas or time requires caution. Nonetheless, by permitting the collection of cost-effective quantitative data for marine fauna, anthropogenic activities and marine litter at the sea surface, the multi-target protocol is valuable for optimizing logistical and financial resources to efficiently monitor biodiversity and study community ecology.