1. Genomic signatures of climate-driven (mal)adaptation in an iconic conifer, the English Yew (Taxus baccata L.)Thomas Francisco, Santiago C. González-Martínez, Maria Mayol, Elia Vajana, Miquel Riba, Marjana Westergren, Stephen Cavers, Sara Pinosio, Francesca Bagnoli, Maurizio Marchi, Filipos Aravanopoulos, 2025, zaključena znanstvena zbirka raziskovalnih podatkov Povzetek: This dataset consists of a Variant Call Format (VCF) file containing genomic data from Taxus baccata (European yew). The dataset includes 11,374 single nucleotide polymorphisms (SNPs) identified across 490 individual trees sampled from across the European range of the species. This dataset was used to carry out a study investigating patterns of local adaptation and to assessing the risk of climate maladaptation using genomic offset approaches. English (2025-05-28)
Ključne besede: climate change , genomic offset , genotype- environment association , local adaptation , Taxus baccata
Objavljeno v DiRROS: 03.11.2025; Ogledov: 110; Prenosov: 26
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2. Genomic signatures of climate-driven (mal)adaptation in an iconic conifer, the English Yew (Taxus baccata L.)Thomas Francisco, Maria Mayol, Elia Vajana, Miquel Riba, Marjana Westergren, Stephen Cavers, Sara Pinosio, Francesca Bagnoli, Maurizio Marchi, Filipos Aravanopoulos, 2025, izvirni znanstveni članek Povzetek: The risk of climate maladaptation is increasing for numerous species, including trees. Developing robust methods to assess population maladaptation remains a critical challenge. Genomic offset approaches aim to predict climate maladaptation by characterizing the genomic changes required for populations to maintain their fitness under changing climates. In this study, we assessed the risk of climate maladaptation in European populations of English yew (Taxus baccata), a long-lived tree with a patchy distribution across Europe, the Atlas Mountains, and the Near East, where many populations are small or threatened. We found evidence suggesting local climate adaptation by analyzing 8616 SNPs in 475 trees from 29 European T. baccata populations, with climate explaining 18.1% of genetic variance and 100 unlinked climate-associated loci identified via genotype-environment association (GEA). Then, we evaluated the deviation of populations from the overall gene-climate association to assess variability in local adaptation or different adaptation trajectories across populations and found the highest deviations in low latitude populations. Moreover, we predicted genomic offsets and successfully validated these predictions using phenotypic traits assessed in plants from 26 populations grown in a comparative experiment. Finally, we integrated information from current local adaptation, genomic offset, historical genetic differentiation, and effective migration rates to show that Mediterranean and high-elevation T. baccata populations face higher vulnerability to climate change than low-elevation Atlantic and continental populations. Our study demonstrates the practical use of the genomic offset framework in conservation genetics, offers insights for its further development, and highlights the need for a population-centered approach that incorporates additional statistics and data sources to credibly assess climate vulnerability in wild plant populations.
Ključne besede: climate change , genomic offset , genotype- environment association , local adaptation , Taxus baccata
Objavljeno v DiRROS: 10.10.2025; Ogledov: 223; Prenosov: 97
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3. Can a forest tree species progeny trial serve as an ex situ collection? : A case study on Alnus glutinosaRita Verbylaite, Filipos Aravanopoulos, Virgilijus Baliuckas, Aušra Juškauskaite, Dalibor Ballian, 2023, izvirni znanstveni članek Povzetek: Scientifically informed decisions for the long-term conservation of extant genetic diversity should combine in situ and ex situ conservation methods. The aim of the present study was to assess if a progeny plantation consisting of several open pollinated (OP) families and established for breeding purposes can also serve as an ex situ conservation plantation, using the case study of a Lithuanian progeny trial of Alnus glutinosa, a keystone species of riparian ecosystems that warrants priority conservation actions. We employed 17 nuclear microsatellite (Simple Sequence Repeat) markers and compared the genetic diversity and copy number of the captured alleles of 22 OP progeny families from this plantation, with 10 wild A. glutinosa populations, originating from the two provenance regions of the species in Lithuania. We conclude that the progeny plantation could be used as an ex situ plantation for the A. glutinosa populations from the first provenance region (represented by eight genetic conservation units (GCU)). Based on the present study’s results, we can expect that the A. glutinosa progeny plantation harbors enough genetic diversity of wild A. glutinosa populations from the first provenance region. This progeny plantation can serve as a robust ex situ collection containing local alleles present in at least one wild population with at least 0.05 frequency with 25 replications.
Ključne besede: black alder, genetic diversity, allele pattern, microsatellite genotypes, ex situ collection
Objavljeno v DiRROS: 25.03.2024; Ogledov: 1132; Prenosov: 577
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4. Monitoring of species’ genetic diversity in Europe varies greatly and overlooks potential climate change impactsPeter Pearman, Olivier Broennimann, Tsipe Aavik, Tamer Albayrak, Paulo Célio Alves, Filipos Aravanopoulos, Laura Bertola, Aleksandra Biedrzycka, Elena Bužan, Vlatka Čubrić Čurik, Katja Kavčič Sonnenschein, Marjana Westergren, 2024, izvirni znanstveni članek Povzetek: Genetic monitoring of populations currently attracts interest in the context of the Convention on Biological Diversity but needs long-term planning and investments. However, genetic diversity has been largely neglected in biodiversity monitoring, and when addressed, it is treated separately, detached from other conservation issues, such as habitat alteration due to climate change. We report an accounting of efforts to monitor population genetic diversity in Europe (genetic monitoring effort, GME), the evaluation of which can help guide future capacity building and collaboration towards areas most in need of expanded monitoring. Overlaying GME with areas where the ranges of selected species of conservation interest approach current and future climate niche limits helps identify whether GME coincides with anticipated climate change effects on biodiversity. Our analysis suggests that country area, financial resources and conservation policy influence GME, high values of which only partially match species’ joint patterns of limits to suitable climatic conditions. Populations at trailing climatic niche margins probably hold genetic diversity that is important for adaptation to changing climate. Our results illuminate the need in Europe for expanded investment in genetic monitoring across climate gradients occupied by focal species, a need arguably greatest in southeastern European countries. This need could be met in part by expanding the European Union’s Birds and Habitats Directives to fully address the conservation and monitoring of genetic diversity.
Ključne besede: genetics, monitoring, population genetic diversity, Europe
Objavljeno v DiRROS: 22.01.2024; Ogledov: 1328; Prenosov: 757
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5. Forest genetics research in the mediterranean basin : bibliometric analysis, knowledge gaps, and perspectivesBruno Fady, Edoardo Esposito, Khaled Abulaila, Jelena M. Aleksic, Ricardo Alía, Paraskevi Alizoti, Ecaterina-Nicoleta Apostol, Filipos Aravanopoulos, Dalibor Ballian, Magda Bou Dagher Kharrat, Hojka Kraigher, Marjana Westergren, 2022, izvirni znanstveni članek Povzetek: Purpose of Review Recognizing that in the context of global change, tree genetic diversity represents a crucial resource for future forest adaptation, we review and highlight the major forest genetics research achievements of the past decades in biodiversity-rich countries of the Mediterranean region. For this, we conducted a bibliometric analysis of the scientific literature spanning the past thirty years (1991–2020). Putting together the representative regionwide expertise of our co-authorship, we propose research perspectives for the next decade. Recent Findings Forest genetics research in Mediterranean countries is organized into three different scientific domains of unequal importance. The domain “Population diversity and Differentiation” related to over 62% of all publications of the period, the domain “Environmental conditions, growth and stress response” to almost 23%, and the domain “Phylogeography” to almost 15%. Citation rate was trending the opposite way, indicating a strong and sustained interest in phylogeography and a rising interest for genetics research related to climate change and drought resistance. The share of publications from Asia and Africa to the total within the Mediterranean increased significantly during the 30-year period analyzed, reaching just below 30% during the last decade. Summary Describing poorly known species and populations, including marginal populations, using the full potential of genomic methods, testing adaptation in common gardens, and modeling adaptive capacity to build reliable scenarios for forest management remain strategic research priorities. Delineating areas of high and low genetic diversity, for conservation and restoration, respectively, is needed. Joining forces between forest management and forest research, sharing data, experience, and knowledge within and among countries will have to progress significantly, e.g., to assess the potential of Mediterranean genetic resources as assisted migration material worldwide.
Ključne besede: conservation ·, forest genetic resources, genetic diversity, global change, Mediterranean, sustainable management
Objavljeno v DiRROS: 09.12.2022; Ogledov: 1362; Prenosov: 856
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6. Forest genetic resources strategy for EuropeRicardo Alia, Filipos Aravanopoulos, K. B. Fjellstad, Michele Bozzano, Bruno Fady, Anna-Maria Farsakoglou, Santiago C. Gonzáles Martínez, Berthold Heinze, Gaye Kandemir, Czesław Kozioł, Hojka Kraigher, Francois Lefevre, Mari Rusanen, Ivan Scotti, Marjana Westergren, Frank Wolter, 2021, strokovna monografija Objavljeno v DiRROS: 11.01.2022; Ogledov: 1841; Prenosov: 991
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7. LIFEGENMON - LIFE for European forest genetic monitoring systemHojka Kraigher, Filipos Aravanopoulos, Barbara Fussi, Fotis Kiourtsis, Monika Konnert, Tina Michieli, Živan Veselič, Marjana Westergren, 2016, objavljeni povzetek znanstvenega prispevka na konferenci Objavljeno v DiRROS: 03.11.2021; Ogledov: 1650; Prenosov: 695
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