1. The Tree of Sex consortium : a global initiative for studying the evolution of reproduction in eukaryotesDaniel Jeffries, Chiara Benvenuto, Astrid Böhne, Christelle Fraïsse, Sònia Garcia, Paul Jay, Lukáš Kratochvíl, Caitlin E. McDonough-Goldstein, Aurora Ruiz-Herrera, Cibele G. Sotero-Caio, Peter Glasnović, 2025, pregledni znanstveni članek Opis: Reproduction is a fundamental aspect of life that affects all levels of biology, from genomes and development to population dynamics and diversification. The first Tree of Sex database synthesized a vast diversity of reproductive strategies and their intriguing distribution throughout eukaryotes. A decade on, we are reviving this initiative and greatly expanding its scope to provide the most comprehensive integration of knowl- edge on eukaryotic reproduction to date. In this perspective, we first identify important gaps in our current knowledge of reproductive strategies across eukaryotes. We then highlight a selection of questions that will benefit most from this new Tree of Sex project, including those related to the evolution of sex, modes of sex determination, sex chromosomes, and the consequences of various reproductive strategies. Finally, we out- line our vision for the new Tree of Sex database and the consortium that will create it (treeofsex.org). The new database will cover all Eukaryota and include a wide selection of biological traits. It will also incorporate genomic data types that were scarce or non-existent at the time of the first Tree of Sex initiative. The new database will be publicly accessible, stable, and self-sustaining, thus greatly improving the accessibility of reproductive knowledge to researchers across disciplines for years to come. Lastly, the consortium will persist after the database is created to serve as a collaborative framework for research, prioritizing ethical standards in the collection, use, and sharing of reproductive data. The new Tree of Sex consortium is open, and we encourage all who are interested in this topic to join us.
Ključne besede: biodiversity, asexual reproduction, sexual reproduction, sex chromosomes, sex determination, database, ontology
Objavljeno v RUP: 13.08.2026; Ogledov: 21; Prenosov: 3
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2. Engaging European local communities in biodiversity genomics research : a five-step framework for scientistsChristian de Guttry, Chiara Bortoluzzi, Luísa S. Marins, Tinatin Chkhartishvili, Camilla R. De Pierri, Stefaniya Kamenova, Jennifer A. Leonard, Kay Lucek, Lada Lukić-Bilela, Camila J. Mazzoni, Elena Bužan, 2026, izvirni znanstveni članek Opis: Biodiversity genomics research can inform conservation, management, and policy, including implementation and monitoring linked to the Kunming–Montreal Global Biodiversity Framework (KMGBF). Still, its societal relevance depends on how research is designed and interpreted with the people who live in, work with, and care for the species and places being studied. Local Communities often hold Local Ecological Knowledge that can improve sampling design, contextualise genomic patterns, and support the translation of findings into practice. Yet, community participation in biodiversity genomics remains limited, partly because researchers may lack practical guidance, training, incentives, or time for engagement. Here, we propose a five-step framework for engaging European Local Communities in biodiversity genomics projects. The framework covers early relationship building, respect for local context and knowledge, co-creation of research roles, transparent benefit sharing, and long-term knowledge transfer. We also outline biodiversity genomics-specific points that require early discussion, including biological sampling, genomic sequence data, genetic variant data, analytical outputs, associated ecological and locality information, Digital Sequence Information, repository deposition, interpretation, and reuse. The framework is intended as a practical starting point for research teams, funders, and community collaborators seeking to make biodiversity genomics research more transparent, locally informed, and useful for conservation decision-making.
Ključne besede: biodiversity conservation, community engagement, equitable research, knowledge co-creation, local ecological knowledge, participatory genomics
Objavljeno v RUP: 14.07.2026; Ogledov: 205; Prenosov: 9
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3. Species–park networks reflect the spatial structure of urban green infrastructureEdy Fantinato, Elisabetta Zendri, Rosario Rummo, Federico Fiorin, Peter Glasnović, Giovanna Aronne, Andrea Della Bella, Marino Simone Preo, Gabriella Buffa, 2026, izvirni znanstveni članek Opis: As cities expand, natural and semi-natural habitats are increasingly restricted in extent and connectivity, posing major challenges for biodiversity conservation. Urban parks, as nodes of green infrastructure, improve ecological connectivity in the urban landscape, yet their functional role in supporting urban plant communities remains challenging to quantify. This study aimed to investigate whether differences in the functional role of urban parks are reflected by their spatial location within the green infrastructure. We applied a bipartite species-park network approach to assess the role of urban parks in supporting plant species in three historic cities in north-eastern Italy. In 2024, we surveyed 57 parks, recorded vascular plant species in nested plots and measured park attributes including area, distance to the city centre, distance to other parks and tree canopy cover. Species–park networks were used to quantify the functional role of each park through park specialisation, importance, compositional representativeness, and colonisation potential. Statistical models showed that parks further from the city centre supported richer plant communities and hosted species more dependent on individual parks, while parks at intermediate distances from the centre acted as compositional links between parks closer and further from the city centre. Parks with greater tree canopy cover tended to host species that achieved comparatively higher local cover but showed reduced compositional representativeness to other parks. Our results revealed that the functional role of parks in supporting plant communities was strongly associated with their spatial location within the green infrastructure, providing insights for urban biodiversity conservation and landscape planning.
Ključne besede: bipartite network, green infrastructure, habitat connectivity, urban biodiversity, urban park
Objavljeno v RUP: 11.05.2026; Ogledov: 563; Prenosov: 12
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4. Biodiversity Genomics Europe (BGE) Project – abridged grant proposalDimitris Koureas, Pedro Beja, Mark L. Blaxter, Astrid Böhne, Sarah J. Bourlat, Torbjørn Ekrem, Brent C. Emerson, Katharina F. Heil, José Melo-Ferreira, Ben Price, Elena Bužan, Laura Iacolina, 2026, pregledni znanstveni članek Opis: The Biodiversity Genomics Europe (BGE) Project has the overarching aim of accelerating the use of genomic science to enhance understanding of biodiversity, monitor biodiversity change, and guide interventions to address its decline. The BGE Project comprises activities focused on DNA Barcoding (Barcoding Stream) and Reference Genome Generation (Genomes Stream) for eukaryotic species across Europe, bringing together two European networks: the International Barcode of Life in Europe (iBOL Europe) and the European Reference Genome Atlas (ERGA). This publication is an abridged version of the successful grant proposal developed jointly by iBOL Europe and ERGA in response to the Horizon Europe call HORIZON-CL6-2021-BIODIV-01-01. Two key strands of genomic science form the basis of this proposal: DNA barcoding - sequencing short, standardised genomic regions to tell the world’s species apart, transforming the speed of completion of the inventory of life on Earth and providing the foundations of a global bio-surveillance system for biodiversity; and genome sequencing - generating high-quality complete reference genomes for all species on Earth, transforming understanding of biodiversity at the genetic level, and delivering fundamental knowledge of how biological systems function and how species respond and adapt to environmental change. The BGE Project objectives are focused on (i) Capacity: To establish functioning biodiversity genomics networks at the European level to connect and grow community capacity to use genomic tools to tackle the biodiversity crisis; (ii) Production: To establish and implement large-scale biodiversity genomic data generation pipelines for Europe to accelerate the production and accessibility of genomic data for biodiversity characterisation, conservation, and biomonitoring; and (iii) Application: To apply genomic tools to enhance understanding of pan-European biodiversity and biodiversity declines to improve the efficacy of management interventions and biomonitoring programmes.
Ključne besede: biodiversity genomics, DNA barcodes, ERGA, Horizon Europe, iBOL Europe, reference genomes
Objavljeno v RUP: 03.03.2026; Ogledov: 587; Prenosov: 34
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5. Biodiversity genomics research practices require harmonising to meet stakeholder needs in conservationElena Bužan, Christian de Guttry, Chiara Bortoluzzi, Nathaniel R. Street, Kay Lucek, Anna Rosling, Lino Ometto, Alice Mouton, Luísa S. Marins, María José Ruiz-López, José Melo-Ferreira, Elisabet Ottosson, Camila J. Mazzoni, Robert M. Waterhouse, 2025, izvirni znanstveni članek Opis: Biodiversity resilience relies on genetic diversity, which sustains the evolutionary potential of organisms in dynamic ecosystems. Genomics is a powerful tool for accurately estimating genetic diversity across genomes of species and populations. However, integration of genomic data into conservation efforts faces challenges due to the heterogeneity of approaches employed. Establishing common sets of standards for genomic data production and analysis is essential to consistently interpret results and clearly communicate outcomes to stakeholders. While the European Reference Genome Atlas (ERGA) community has contributed significantly to the standardisation of reference genome methodologies in synergy with other initiatives, there is now an urgent need to extend these principles to downstream analyses. ERGA aims to build on its experience to help establish harmonised approaches in applied biodiversity genomics research, aligned with ongoing efforts to define standardised metrics for measuring and reporting genetic diversity. Establishing consensus on best practices for genome-wide data generation methods and applications will substantially increase accuracy, interpretability, and comparability, together with enhanced stakeholder capacities. By identifying key opportunities and challenges, as well as conducting preliminary stakeholder mapping and examining case studies, the goal is to build an inclusive framework that ensures the relevance and widespread adoption of these best practices: fostering trust and confidence in genomics research practices to meet stakeholder needs in biodiversity conservation. We call upon the broader research community to join efforts in establishing these approaches, recognising the importance of participation of end-users, to foster the integration of genomic data into the toolkit for measuring and reporting genetic diversity.
Ključne besede: best practices, biodiversity genomics, genome-wide genetic diversity, stakeholder engagement, standardisation, whole genome resequencing data
Objavljeno v RUP: 16.01.2026; Ogledov: 902; Prenosov: 4
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10. High diversity and sensitivity to coastal development of fish and invertebrates of the Novigrad and Karin seas : a metacommunity study in the northern Adriatic, CroatiaClaudia Kruschel, Stewart T. Schultz, Julia Stiefel, 2011, izvirni znanstveni članek Ključne besede: favnistična diverziteta, biološka raznovrstnost, metazdružba, vizualno štetje, Jadransko morje, faunal diversity, biodiversity, metacommunity, visual census, Adriatic, coastal development
Objavljeno v RUP: 10.07.2015; Ogledov: 4969; Prenosov: 32
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