Reducing the impacts of leg hold trapping on critically endangered foxes by modified traps and conditioned trap aversion on San Nicolas Island, California, USA

Padded leg-hold live traps were used as the primary removal technique in the successful eradication of feral cats Felis silvestris catus from San Nicolas Island, California, USA. Risk of injury to endemic San Nicolas Island foxes Urocyon littoralis dickeyi, a similarly sized and more abundant non-target species, was mitigated by using a smaller trap size, modifying the trap and trap set to reduce injuries, and utilising a trap monitoring system to reduce time animals spent in traps. Impacts to foxes during the eradication campaign were further reduced by having a mobile veterinary hospital on island to treat injured foxes. Compared to other reported fox trapping efforts, serious injuries were reduced 2-7 times. Trapping efforts exceeded animal welfare standards, with 95% of fox captures resulting in minor or no injuries. Older foxes were more likely to receive serious injury. Fox captures were also reduced through aversive conditioning, with initial capture events providing a negative stimulus to prevent recaptures. Fox capture rates decreased up to six times during seven months of trapping, increasing trap availability for cats, and improving the efficacy of the cat eradication program. No aspect of the first capture event was significantly linked to the chance of recapture

The impact of model grid zooming on tracer transport in the 1999/2000 Arctic polar vortex

International audienceWe have used a 3D chemistry transport model to evaluate the transport of HF and CH4 in the stratosphere during the Arctic winter of 1999/2000. Several model experiments were carried out with the use of a zoom algorithm to investigate the effect of different horizontal resolutions. Balloon-borne and satellite-borne observations of HF and CH4 were used to test the model. In addition, air mass descent rates within the polar vortex were calculated and compared to observations. Outside the vortex the model results agree well with the observations, but inside the vortex the model underestimates the observed vertical gradient in HF and CH4, even when the highest available resolution (1°×1°) is applied. The calculated diabatic descent rates agree with observations above potential temperature levels of 450 K. These model results suggest that too strong mixing through the vortex edge could be a plausible cause for the model discrepancies, associated with the calculated mass fluxes, although other reasons are also discussed. Based on our model experiments we conclude that a global 6°×9° resolution is too coarse to represent the polar vortex, whereas the higher resolutions, 3°×2° and 1°×1°, yield similar results, even with a 6°×9° resolution in the tropical region

AI-based diagnosis and phenotype – Genotype correlations in syndromic craniosynostoses

Apert (AS), Crouzon (CS), Muenke (MS), Pfeiffer (PS), and Saethre Chotzen (SCS) are among the most frequently diagnosed syndromic craniosynostoses. The aims of this study were (1) to train an innovative model using artificial intelligence (AI)–based methods on two-dimensional facial frontal, lateral, and external ear photographs to assist diagnosis for syndromic craniosynostoses vs controls, and (2) to screen for genotype/phenotype correlations in AS, CS, and PS. We included retrospectively and prospectively, from 1979 to 2023, all frontal and lateral pictures of patients genetically diagnosed with AS, CS, MS, PS and SCS syndromes. After a deep learning–based preprocessing, we extracted geometric and textural features and used XGboost (eXtreme Gradient Boosting) to classify patients. The model was tested on an independent international validation set of genetically confirmed patients and non-syndromic controls. Between 1979 and 2023, we included 2228 frontal and lateral facial photographs corresponding to 541 patients. In all, 70.2% [0.593–0.797] (p &lt; 0.001) of patients in the validation set were correctly diagnosed. Genotypes linked to a splice donor site of FGFR2 in Crouzon-Pfeiffer syndrome (CPS) caused a milder phenotype in CPS. Here we report a new method for the automatic detection of syndromic craniosynostoses using AI.</p

Modelling the impact of toxic and disturbance stress on white-tailed eagle (Haliaeetus albicilla) populations

Several studies have related breeding success and survival of sea eagles to toxic or non-toxic stress separately. In the present investigation, we analysed single and combined impacts of both toxic and disturbance stress on populations of white-tailed eagle (Haliaeetus albicilla), using an analytical single-species model. Chemical and eco(toxico)logical data reported from laboratory and field studies were used to parameterise and validate the model. The model was applied to assess the impact of ∑PCB, DDE and disturbance stress on the white-tailed eagle population in The Netherlands. Disturbance stress was incorporated through a 1.6% reduction in survival and a 10–50% reduction in reproduction. ∑PCB contamination from 1950 up to 1987 was found to be too high to allow the return of white-tailed eagle as a breeding species in that period. ∑PCB and population trends simulated for 2006–2050 suggest that future population growth is still reduced. Disturbance stress resulted in a reduced population development. The combination of both toxic and disturbance stress varied from a slower population development to a catastrophical reduction in population size, where the main cause was attributed to the reduction in reproduction of 50%. Application of the model was restricted by the current lack of quantitative dose–response relationships between non-toxic stress and survival and reproduction. Nevertheless, the model provides a first step towards integrating and quantifying the impacts of multiple stressors on white-tailed eagle populations

Information retrieval and text mining technologies for chemistry

Efficient access to chemical information contained in scientific literature, patents, technical reports, or the web is a pressing need shared by researchers and patent attorneys from different chemical disciplines. Retrieval of important chemical information in most cases starts with finding relevant documents for a particular chemical compound or family. Targeted retrieval of chemical documents is closely connected to the automatic recognition of chemical entities in the text, which commonly involves the extraction of the entire list of chemicals mentioned in a document, including any associated information. In this Review, we provide a comprehensive and in-depth description of fundamental concepts, technical implementations, and current technologies for meeting these information demands. A strong focus is placed on community challenges addressing systems performance, more particularly CHEMDNER and CHEMDNER patents tasks of BioCreative IV and V, respectively. Considering the growing interest in the construction of automatically annotated chemical knowledge bases that integrate chemical information and biological data, cheminformatics approaches for mapping the extracted chemical names into chemical structures and their subsequent annotation together with text mining applications for linking chemistry with biological information are also presented. Finally, future trends and current challenges are highlighted as a roadmap proposal for research in this emerging field.A.V. and M.K. acknowledge funding from the European Community’s Horizon 2020 Program (project reference: 654021 - OpenMinted). M.K. additionally acknowledges the Encomienda MINETAD-CNIO as part of the Plan for the Advancement of Language Technology. O.R. and J.O. thank the Foundation for Applied Medical Research (FIMA), University of Navarra (Pamplona, Spain). This work was partially funded by Consellería de Cultura, Educación e Ordenación Universitaria (Xunta de Galicia), and FEDER (European Union), and the Portuguese Foundation for Science and Technology (FCT) under the scope of the strategic funding of UID/BIO/04469/2013 unit and COMPETE 2020 (POCI-01-0145-FEDER-006684). We thank Iñigo Garciá -Yoldi for useful feedback and discussions during the preparation of the manuscript.info:eu-repo/semantics/publishedVersio

Serological and molecular epidemiology of canine adenovirus type 1 in red foxes (<i>Vulpes vulpes</i>) in the United Kingdom

Canine adenovirus type 1 (CAV-1) causes infectious canine hepatitis (ICH), a frequently fatal disease which primarily affects canids. In this study, serology (ELISA) and molecular techniques (PCR/qPCR) were utilised to investigate the exposure of free-ranging red foxes (Vulpes vulpes) to CAV-1 in the United Kingdom (UK) and to examine their role as a wildlife reservoir of infection for susceptible species. The role of canine adenovirus type 2 (CAV-2), primarily a respiratory pathogen, was also explored. In foxes with no evidence of ICH on post-mortem examination, 29 of 154 (18.8%) red foxes had inapparent infections with CAV-1, as detected by a nested PCR, in a range of samples, including liver, kidney, spleen, brain, and lung. CAV-1 was detected in the urine of three red foxes with inapparent infections. It was estimated that 302 of 469 (64.4%) red foxes were seropositive for canine adenovirus (CAV) by ELISA. CAV-2 was not detected by PCR in any red foxes examined. Additional sequence data were obtained from CAV-1 positive samples, revealing regional variations in CAV-1 sequences. It is concluded that CAV-1 is endemic in free-ranging red foxes in the UK and that many foxes have inapparent infections in a range of tissues

A Trap Monitoring System to Enhance Efficiency of Feral Cat Eradication and Minimize Adverse Effects on Non-Target Endemic Species on San Nicolas Island

Feral cats have significant negative impacts on island ecosystems and are a major threat to resident seabird populations. In an attempt to restore populations of Brandt’s Cormorants, western gulls, and other native species on San Nicolas Island, California, feral cats were targeted for eradication. In over 83 successful feral cat eradications from islands, removal by padded leg-hold traps was the most commonly used eradication technique. However, the size of San Nicolas, 5,896 ha (14,562 acres) and the presence of &gt;600 diminutive (average 1.7 kg) endemic island fox presented challenges. A telemetry-based trap monitoring system was developed to remotely check trap status, decrease staff time spent checking traps, and decrease response time to captured animals to limit fox injuries and mortalities due to exposure. This system enabled a team of 6 staff to maintain daily checks of approximately 250 traps and have a response time to captures of &lt;60 minutes during daylight hours. Field staff were trained to assess fox health in the field, and a mobile veterinary hospital was established on island to treat any injuries. The trap monitoring system was composed of transmitter units connected to traps, an island-wide repeater system, a GIS database with field PDA data collection, and a user interface hosted on a local internet network. When activated, each transmitter sent a trapspecific ID code every 4 hours, indicating it was operational. When sprung, a modified ID code was transmitted every 30 minutes until the trap transmitter was reset. Repeaters relayed trap status data, both to a dedicated PC where a set of scripts filtered the raw data to find capture events, and simultaneously to the internet. A web-based software user interface was designed to combine capture events with location information from a GIS database, allowing field staff to quickly identify which traps were sprung and plan the most effective route between all sprung traps. Ultimately, this system was a powerful adaptive management tool that increased staff efficiency and minimized effects on non-target species