Research ideas and outcomes最新文献

{"title":"Prototype Biodiversity Digital Twin: honey bees in agricultural landscapes","authors":"Jürgen Groeneveld, Tomas Martinovic, Tuomas P. Rossi, Ondrej Salamon, Kata Sara-aho, V. Grimm","doi":"10.3897/rio.10.e125167","DOIUrl":"https://doi.org/10.3897/rio.10.e125167","url":null,"abstract":"Honey bees are vital to human well-being and are under multiple stresses. We need to be able to assess the viability and productivity of honey bee colonies in different landscapes and under different management and climate-change scenarios. We have developed a prototype digital twin, HONEYBEE-pDT, based on the BEEHAVE model, which simulates foraging, population dynamics and Varroa mite infestation of a single honey bee colony. The main input data are land-cover maps and daily weather data. We have developed the pDT for simulating large areas and have tested it for the whole of Germany. We have also developed a web-based GUI that users can use to run the pDT for specific sites. Hive weight data from hundreds of hives will be used for calibration and validation.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":"3 4","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141360578","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Implementing biodiversity monitoring of rocky shores using photo-quadrats and Artificial Intelligence in support of data-driven decision-making of marine living resources","authors":"G. Bravo, G. Bigatti, María Bagur, E. Macaya, Nelson Valdivia, Ariel Rodriguez, Mariela Gauna, Ian Walker, J. Livore, María Mendez, Rocío Nieto Vilela, Fernando Lima, Rui Seabra, Enrique Montes","doi":"10.3897/rio.10.e126660","DOIUrl":"https://doi.org/10.3897/rio.10.e126660","url":null,"abstract":"The Marine Biodiversity Observation Network Pole to Pole of the Americas (MBON Pole to Pole) conducted two workshops on 27-31 March 2023 and 22-26 January 2024 in the Argentinian Patagonia aiming to enhance capacity for long-term monitoring of rocky intertidal communities in Argentina and Chile by applying novel and easy-to-use methods for biodiversity observing. In these workshops, participants received training on the collection and processing of benthic photo-quadrat imagery and their analysis using open-source artificial intelligence applications. Workshop participants included park rangers, undergraduate and graduate students and scientists. These training activities covered theoretical concepts of rocky shore ecology and field exercises. The workshops promoted collaboration and knowledge exchange between users of biodiversity data and ecologists resulting in the development of a standardised biodiversity monitoring protocol for rocky intertidal communities available in the Ocean Best Practices System of the Intergovernmental Oceanographic Commission of UNESCO. Participants learned to identify dominant species and functional groups (e.g. macro-algal taxa, molluscs, barnacles) commonly present in these habitats and their zonation patterns along elevation gradients, capture high-quality benthic photographs using quadrat frames and cameras provided by the MBON Pole to Pole and compute percentage cover estimates of observed taxonomic groups using open-source automated classifiers. Emerging recommendations underscored the importance of actively involving park rangers in survey efforts and facilitating communication with decision-makers managing Marine Protected Areas. These activities were endorsed by the UN Decade as contributions to the Marine Life 2030 programme towards increasing capacity in the implementation of coordinated, standardised and sustained biodiversity observing efforts in the Americas.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":"13 2","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-06-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141375520","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"PollinERA: Understanding pesticide-Pollinator interactions to support EU Environmental Risk Assessment and policy","authors":"Christopher John Topping, Agnieszka Bednarska, Emilio Benfenati, Jordan Chetcuti, Noa Delso, Xiaodong Duan, Andreas Focks, Ryszard Laskowski, Anna Lombardo, Luna Marcussen, Teodor Metodiev, Michael Rubinigg, Maj Rundlöf, Fabio Sgolastra, Carla Stoyanova, Gregor Sušanj, James Williams, Elżbieta Ziółkowska","doi":"10.3897/rio.10.e127485","DOIUrl":"https://doi.org/10.3897/rio.10.e127485","url":null,"abstract":"PollinERA aims to reverse pollinator population declines and reduce the harmful impacts of pesticides. It addresses the call through four objectives: SO1 filling ecotoxicological data gaps to enable realistic prediction of the source and routes of exposure and impact of pesticides on pollinators and their sensitivity to individual pesticides and mixtures. SO2 developing and testing a co-monitoring scheme for pesticides and pollinators across European cropping systems and landscapes, developing risk indicators and mixture exposure information. SO3 developing models for predicting pesticide toxicological effects on pollinators for chemicals and organisms, environmental fate, toxicokinetic/ toxicodynamic, and population models. SO4 developing a population-level systems-based approach to risk and policy assessment considering multiple stressors and long-term spatiotemporal dynamics at the landscape scale and generating an open database for pollinator/pesticide data and tools.\u0000 This will be achieved through developing knowledge and protocols for a broad range of toxicological testing, feeding to in silico models (QSARS, toxicokinetic/toxicodynamic, and population). Using a strong stakeholder co-development approach, these models will be combined in a One System framework taking a systems view on risk assessment and policy evaluation, including an international monitoring program.\u0000 The One System framework is based on EFSA’s system ERA view, expanding on the tools used for bees to include butterflies, moths and hoverflies. The consortium partners are experts in the field needed for this development and are well-placed to facilitate the uptake of tools by European bodies to guarantee the project's future impact.\u0000 Expected impacts target Destination impacts of better understanding and addressing drivers of biodiversity decline, interconnected biodiversity research using digital technologies, and understanding the biodiversity and health nexus at the ecosystem level.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":"33 13","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140966488","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Interplay of hypoxia and host cells in the translocation, invasion and dissemination of Taenia solium in neurocysticercosis","authors":"Eunice Ayerakwa, Isawumi Abiola","doi":"10.3897/rio.10.e124177","DOIUrl":"https://doi.org/10.3897/rio.10.e124177","url":null,"abstract":"Neurocysticercosis, caused by the invasion of the central nervous system (CNS) by Taenia solium larvae, poses a significant global health burden. Despite its prevalence and severe neurological consequences, understanding of the molecular and signalling pathways facilitating parasite dissemination and CNS invasion is limited. The lack of comprehensive knowledge of host-parasite interactions and associated proteins involved in T. solium infection hinders the development of targeted interventions to mitigate its ability to cross the epithelia barrier. This is complicated by reduced oxygen availability in the intestine, a phenomenon called hypoxia. Hypoxia can result in epithelial barrier disruption and cell damage, thereby promoting the translocation and dissemination of T. solium. This study aims to establish the role of hypoxia in T. solium invasion and disseminated infections. The effect of hypoxia on the migration, viability and morphological characteristics of T. solium would be determined using transwell invasion assays, flow cytometry and microscopy. T. solium oncosphere development and dissemination under hypoxic and normoxic conditions will be monitored using animal models. Also, host-parasite transcriptome and proteome profiling will be performed to determine pathways triggered under hypoxic conditions. It is expected that hypoxia would promote the invasion and dissemination of T. solium by enhancing epithelial and endothelial cell permeability. , hypoxia will induce the expression of binding and adhesion proteins and other virulence markers such as enolase, serpin, and glutathione transferases that are involved in host invasion. Understanding the role of hypoxia in the translocation mechanism of T. solium can be leveraged to provide insights into host tissues dissemination and the development of appropriate interventions.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":"26 6","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140982955","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Raising the Neanderthal (molecules) from the dead: a proposal for in vivo resurrection of Neanderthal haemoglobin for the investigation of biochemical adaptations for cold tolerance","authors":"Katherine McLean","doi":"10.3897/rio.10.e107983","DOIUrl":"https://doi.org/10.3897/rio.10.e107983","url":null,"abstract":"Since the first discoveries of Neanderthal fossils, their derived characteristics, such as increased robusticity, have engaged researchers. Adaptation to cold environments has been hypothesised to explain such traits and this hypothesis has driven the majority of discourse. This proposal seeks to examine this hypothesis and locate evidence of Neanderthals being physiologically adapted to cold at the biomolecular level. Haemoglobin is a biomolecule that has been previously demonstrated to adapt to cold in some species, driven by the inhibition of the protein’s function by low temperatures. Neanderthal haemoglobin is extinct; however, using pre-sequenced genomic data, I propose to resurrect Neanderthal haemoglobin so I can examine the consequences of lowered temperature on its function. This project could potentially detect signs of cold adaptation in the Neanderthal globin genes and provide empirical evidence for the cold adaptation hypothesis.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":"122 21","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140985455","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Probing Genetics and Environmental Factors underlying Uterine Fibroid Tumorigenesis in Ghana, West Africa","authors":"Tosin Senbadejo, Isawumi Abiola, Lily Paemka","doi":"10.3897/rio.10.e116907","DOIUrl":"https://doi.org/10.3897/rio.10.e116907","url":null,"abstract":"Uterine fibroid (UF) is the most prevalent benign tumour that affects millions of women globally, with a high incidence of 70% amongst women of reproductive age. UF has been associated with various complications, such as recurrent surgeries, infertility, anemia and pregnancy loss. Notably, women of African descent often experience more severe symptoms and complications. Although hormones, growth factors, and genetic alterations are widely associated with UF, the precise mechanism underlying its pathogenesis is not fully understood. Recent evidence suggests altered microbiota may serve as a potential risk factor for UF development. Altered microbiota can contribute to tumorigenesis via epigenetic changes to host cells or toxic effects from invasion. The lack of curative-drug treatment poses significant challenges to patients with UF. Patients often undergo surgeries that require the removal of the uterus or tumour, which can negatively impact fertility. Furthermore, uterine fibroids’ diagnosis relies on expensive imaging technologies such as ultrasound, which may not be readily available in developing countries. Moreso, diagnosis is often conducted only after patients’ symptoms become severe. Although late presentation may contribute to severe symptoms and complications among women with UF in Africa, other factors that influence severity and increase incidence in this population remain unknown. A comprehensive assessment of UF predisposing factors in high-risk populations such as Ghana could give better insights into disease pathogenesis. Hence, this study aims to assess: UF-associated demographic factors, the role of uterine microbiota dysbiosis on UF tumorigenesis; and molecular markers associated with UF in the Ghanaian population. Epidemiological data and clinical samples (tissues, blood and cervico-vaginal swabs) will be obtained. The characterization of samples will involve metagenomics, whole genome sequencing, functional validation of SNPs and SNP genotyping. The association of risk alleles with disease phenotypes will be assessed via regression analysis using PLINK v.1.9. The findings will provide information on potential disease markers that can be explored for better management strategies for UF in high-risk populations.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":" 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140992326","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Sharing data, caring for collections. Open data on collection agents affiliated with the Museum für Naturkunde Berlin","authors":"Sabine von Mering, Erik Stolze, Katja Kaiser, Mareike Petersen","doi":"10.3897/rio.10.e118851","DOIUrl":"https://doi.org/10.3897/rio.10.e118851","url":null,"abstract":"Linked open data on collection agents contribute to increased discoverability, accessibility and transparency of natural history collections. Despite major efforts to digitise and open up museum and university object collections, related information is often stored in internal resources. This paper describes a project conducted at the Museum für Naturkunde Berlin (MfN) contributing to its collection disclosure and development initiatives. Information on historical collectors and other collection agents was transferred from the internal MfN collector wiki to Wikidata. For a total of 600 collection agents, existing Wikidata items were enriched or new items created.\u0000 Special emphasis was put on linking these people to the Museum, to document their affiliation with the MfN, its collection and its archive. Within the project, an open participatory approach was taken. Several Wikidata edit-a-thons were organised to test this collaborative and innovative format for possible future application by the Museum. By opening up institutional silos and openly sharing data on agents connected to museum holdings, these data become more widely accessible and reusable, for example, as a resource for transdisciplinary provenance research.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":" 7","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140998702","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Knowledge re-integration in real-world laboratories to transform cities and communities: report on workshop designs","authors":"Marie Neumann, Franziska Ehnert","doi":"10.3897/rio.10.e124018","DOIUrl":"https://doi.org/10.3897/rio.10.e124018","url":null,"abstract":"How can we re-integrate knowledge generated in real-world laboratories (RWLs) into societal practice? In the RWL “Dresden – City of the Future 2030+”, the re-integration of knowledge was central to the research design. In this Workshop Report, we focus on facilitation methods for knowledge re-integration into societal practice. This is to guide transdisciplinary research practice and help researchers in designing and facilitating such research processes. We conceptualise knowledge re-integration, based on the current literature. Further, we describe our facilitation methods (two workshop formats) to document and reflect on our experiences. A self-reflective evaluation is conducted with the help of evaluation criteria synthesised from the literature on transdisciplinary research (TDR). Our reflections confirm that the facilitation of exchange with the target group/target context can greatly enhance the transferability of knowledge gained in TDR settings. In our conclusion, we highlight the importance of facilitators and knowledge brokers, as well as co-creation with local stakeholders to reach out to the target group.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":" 7","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140691050","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Chemistry Development Kit in 2024: improving cheminformatics research","authors":"E. Willighagen, Marc Teunis, Alyanne De Haan","doi":"10.3897/rio.10.e124884","DOIUrl":"https://doi.org/10.3897/rio.10.e124884","url":null,"abstract":"Cheminformatics is the research field that deals with information about chemical systems. This includes the chemical structure which is used in computational chemistry where quantum chemistry is too complex. The Chemistry Development Kit (CDK) was one of the first Open Science libraries in chemistry, co-founded in The Netherlands. The source code goes as far back as 1997 and has been maintained for more than 25 years. The CDK is used by many tools in drug discovery, computational toxicology, and bioinformatics. This project will develop improvements to the core library and update tools using the CDK to use the latest release.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":" 14","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140691217","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Why and how did LifeWatch emerge?","authors":"Wouter Los","doi":"10.3897/rio.10.e121892","DOIUrl":"https://doi.org/10.3897/rio.10.e121892","url":null,"abstract":"The original vision on what later became LifeWatch ERIC started about a quarter of a century ago in 1996. In those days, the promise of digital technologies entered biodiversity and ecosystem research. Not only by digitiing relevant information, but also with applications to process such data. While several (inter)national initiatives embarked on specific topics, there was also an idea that the upcoming view on grid computing provided attractive solutions for federated data sources, together with a strong computing capacity. This paper presents the history from conception to early actions, until actual preparations towards a research infrastructure on the European scale.","PeriodicalId":92718,"journal":{"name":"Research ideas and outcomes","volume":" 84","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140692364","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}