1. Introgression among maternal lineages inferred from complete mitogenomes and molecular dating helps resolve phylogeography of European roe deerElena Bužan, Stefan Cidilko, Luka Duniš, Tilen Komel, Boštjan Pokorny, A. J. M. Hewison, Anna Korzekwa, 2026, izvirni znanstveni članek Opis: Background The European roe deer (Capreolus capreolus) is one of the most widespread ungulates in Europe, with a phylogeographic structure mainly shaped by Pleistocene glacial cycles and secondary contacts with the Siberian roe deer (C. pygargus). Methods We sequenced 52 complete mitogenomes of C. capreolus from Slovenia, Poland and France, and combined them with 24 publicly available sequences of C. capreolus and C. pygargus, yielding an alignment of 76 genomes representing 59 haplotypes (42 from C. capreolus and 17 from C. pygargus). Phylogeographic structure was assessed using a median-joining network, and divergence times were estimated using a time-calibrated Bayesian phylogeny based on mitochondrial coding regions, incorporating published ancient C. pygargus mitogenomes. We additionally screened mitochondrial protein-coding genes for selection. Results The haplotype network recovered the three major European roe deer clades (Eastern, Central, and Western) and detected Central-clade haplotypes in France. Two Polish haplotypes (Cp9 and Cp10), detected in C. capreolus, clustered within the C. pygargus mitochondrial lineage, supporting mitochondrial introgression. Time-calibrated phylogenies placed introgressed haplotypes within established C. pygargus lineages. Selection analyses provided limited evidence for episodic positive selection restricted to a small number of codons. Conclusions Whole mitogenomes improve resolution of roe deer phylogeography and reveal introgressed maternal lineages, while time-calibrated phylogenies and selection tests add evolutionary context for interpreting mtDNA diversity in genus Capreolus. Ključne besede: mitogenome, introgression, Bayesian molecular dating, Roe deer, phylogeography Objavljeno v RUP: 15.07.2026; Ogledov: 60; Prenosov: 3
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2. Graph classes closed under self-intersectionKonrad K. Dabrowski, Vadim V. Lozin, Martin Milanič, Andrea Munaro, Daniël Paulusma, Viktor Zamaraev, 2026, objavljeni znanstveni prispevek na konferenci Opis: A graph class is monotone if it is closed under taking subgraphs. A monotone class defined by finitely many obstructions has bounded treewidth if and only if one of the obstructions is a tripod, i.e. a disjoint union of subdivided claws and paths. This dichotomy also characterizes exactly those monotone graph classes for which many NP-hard graph problems admit polynomial-time algorithms. These dichotomies do not extend to the universe of all hereditary classes. This leads to the question of whether we can extend known dichotomies for monotone classes to larger families of hereditary classes. We answer this question affirmatively by considering the family of hereditary graph classes closed under self-intersection. This family is known to be located strictly between the monotone and hereditary classes. We prove a new structural characterization of graphs in self-intersection-closed classes excluding a tripod. In contrast to monotone classes excluding a tripod, these classes do not necessarily have bounded treewidth; in fact, they do not even need to be sparse. We use our characterization to give a complete dichotomy for Maximum Independent Set, and its weighted variant, on self-intersection-closed classes defined by finitely many obstructions: these problems are in P if the class excludes a tripod and NP-hard otherwise. Our dichotomy generalizes several known results on Maximum Independent Set in the literature. We also apply our characterization to obtain a dichotomy for Maximum Induced Matching on self-intersection-closed classes of bipartite graphs defined by finitely many obstructions, and for Satisfiability and Counting Satisfiability on self-intersection-closed classes of (bipartite) incidence graphs defined by finitely many obstructions. Finally, we use our characterization to obtain a dichotomy for boundedness of clique-width for self-intersection-closed classes of bipartite graphs defined by finitely many obstructions. Ključne besede: graph classes, self-intersection closed, dichotomy, independent set, clique-width, treewidth Objavljeno v RUP: 15.07.2026; Ogledov: 51; Prenosov: 2
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3. 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: 66; Prenosov: 7
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4. Advancing genetics and evolution : new editors-in-chief in GeneticaElena Bužan, Andreia Carina Turchetto-Zolet, 2026, drugi znanstveni članki Opis: The editorial team of Genetica would like to inform our readers of the recent developments in the editorial leadership of the journal. As 2025 came to an end, we said goodbye to our longstanding Editors-in-Chief, Horacio Naveira, PhD and Professor Juan L. Bouzat, after many years of dedicated service to the journal. Springer Nature would like to express its sincere gratitude for their outstanding service and commitment to the journal. During their time as co-EiCs, they played a central role in maintaining Genetica’s scientific rigor, broad disciplinary scope, and international visibility. Their leadership was marked by a strong commitment to high-quality peer review, thematic diversity, and the continued relevance of the journal at the interface of genetics and evolution. Beyond their editorial responsibilities, both Horacio and Juan have also contributed as authors, reinforcing their close scientific ties to the journal (Hibbets et al. 2020, Naveira et al. 2023). Now, Genetica enters a new era. We are pleased to introduce its new editorial leadership, consisting of Prof. Elena Buzan and Prof. Andreia Carina Turchetto Zolet. Ključne besede: Genetica, editor in chief, Buzan Objavljeno v RUP: 14.07.2026; Ogledov: 62; Prenosov: 4
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6. Intraspecific geographical variability of Phlebotomus perniciosus assessed by MALDI-TOF MS protein profilingVít Dvořák, Carla Maia, Rafael Marmé, José Risueño, Pedro Pérez-Cutillas, Eduardo Berriatua, Julie Sevila, Nalia Mekarnia, Jorian Prudhomme, Fano José Randriananambinintsoa, Vladimir Ivović, Katja Adam, 2026, izvirni znanstveni članek Opis: Background Matrix‑assisted laser desorption/ionization time‑of‑flight mass spectrometry (MALDI‑TOF MS) pro‑ tein profiling has emerged over the last decade as a method of choice for species identification of many medically important arthropods. However, the influence of intraspecific variability on the performance of this popular technique has seldom been tested. This study provides the first standardized comparison of different geographical popula‑ tions of Phlebotomus perniciosus, a vector of Leishmania infantum and Toscana virus in the western Mediterranean, by MALDI‑TOF MS protein profiling. Methods Phlebotomus perniciosus males were collected in five countries (Portugal, Spain, France, Italy, Croa‑ tia) that represent most of its distribution in Europe. All samples were trapped, stored and processed according to a highly standardized protocol to avoid effects other than geographical origin on their protein spectra acquired by MALDI‑TOF MS protein profiling. The obtained protein spectra were compared with laboratory‑reared specimens of Ph. perniciosus. Results Twenty‑two analysed specimens from five geographical populations provided protein spectra that were highly similar, species‑specific and clustering according to their quality. No grouping according to geographical origin was observed, and the protein spectra of field‑collected specimens showed similar composition and complexity to spectra from Ph. perniciosus laboratory colony‑reared in captivity for several decades. Conclusions Our findings demonstrate that in samples of a same sex, with the same collection method and storage time, MALDI‑TOF MS protein profiling does not reflect the geographical origin of analysed specimens, confirming the value of this technique for high‑fidelity and reproducible species identification of sand flies regardless of their geographical origin. Ključne besede: intraspecific geographical variability, Phlebotomus perniciosus, MALDI-TOF Objavljeno v RUP: 29.06.2026; Ogledov: 198; Prenosov: 5
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7. What do listeners attend to when listening to music? : Toward explainable music recommendationsKosar Seyyedhosseinzadeh, Matevž Pesek, Marko Tkalčič, 2026, objavljeni znanstveni prispevek na konferenci Opis: Personalized explanations in recommender systems can be useful when they reflect the aspects of an item that matter to the user. To account for individual preferences regarding different aspects of songs in music recommender systems, it is first necessary to identify which song aspects explain meaningful variation among listeners. This paper introduces a questionnaire instrument designed to operationalize these differences as a measurable user characteristic. The instrument was developed through item generation, expert review, pilot testing, and a main study. Data from the main study (� = 245) were analyzed using exploratory factor analysis to examine the questionnaire’s internal structure. The results supported a two-factor solution, interpreted as Lyric- Engagement and Music-Engagement, with both dimensions showing good internal consistency. These findings suggest that listeners’ orientations toward lyrical and musical elements can be measured in an interpretable way. The contribution of this study lies not in proposing a new explanation algorithm, but in providing an empirical basis for user modeling that may help align explanation content with the song characteristics most relevant to different listeners. Ključne besede: music recommender systems, explainable recommendation, personalized explanations, user modeling, questionnaire development, exploratory factor analysis Objavljeno v RUP: 26.06.2026; Ogledov: 225; Prenosov: 4
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8. Eco-sustainable food packaging : biobased multi-active films to mitigate migration of mineral oils and polyolefin oligomeric saturated hydrocarbonsAna Miklavčič Višnjevec, Laura Barp, Donatella Peressini, Sabrina Moret, 2026, pregledni znanstveni članek Opis: The migration of mineral oils from recycled paper and cardboard packaging to food has raised increasing con- cerns in recent years. In addition to mineral oil hydrocarbons (MOH), polyolefin oligomeric hydrocarbons (POH), a class of synthetic hydrocarbons derived from the polymerization of olefins such as ethylene and propylene, and often analytically mistaken for MOH, also pose a risk. POH can migrate from plastic materials into food, espe- cially those made with polyolefins like polyethylene (PE) and polypropylene (PP), which are widely used in food packaging (films, trays, containers, etc.). Several solutions have been proposed, and others are still under development to address this issue. Currently, the most promising approach is the introduction of polymeric materials as a barrier to prevent the migration of these contaminants. The primary aim of this review is to provide an updated overview of the migration of MOH and POH from conventional packaging materials into foods, the parameters influencing this process, recent advances in innovative eco-sustainable barrier materials, and the testing methods used to measure their migration. Special attention is given to biopolymers, as they enhance the sustainability of paper and cardboard packaging while maintaining their recyclability. Ključne besede: mineral oil hydrocarbons, polyolefin oligomeric saturated hydrocarbons, food packaging, sustainability, barrier materials Objavljeno v RUP: 26.06.2026; Ogledov: 191; Prenosov: 11
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10. Uporaba algoritmov strojnega učenja za ugotavljanje stopnje stresa na podlagi digitalnih navad : zaključno deloBor Dovč, 2026, diplomsko delo Ključne besede: strojno učenje, napovedni modeli, digitalne navade, stopnja stresa, klasifikacija, regresija, CSV format, ARFF format, WEKA, ZeroR, Naivni Bayes, Random Forest, J48, Linearna regresija, SMOreg, M5P, zaključno delo Objavljeno v RUP: 21.06.2026; Ogledov: 197; Prenosov: 13
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