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Query: "keywords" (phylogeny) .

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1.
Phylogenetic Relationships and Conservation Implications of Shark Species from Turkish Water
Cemal Turan, Mevlüt Gürlek, Servet Ahmet Doğdu, Deniz Ergüden, Ali Uyan, Ayşegül Ergenler, Nuri Başusta, Alen Soldo, 2024, original scientific article

Abstract: Phylogenetic relationships of seven shark species (Squalus blainville, Carcharhinus plumbeus, Galeus melastomus, Scyliorhinus canicula, Isurus oxyrinchus, Mustelus mustelus and Oxynotus centrina) sampled from Turkish marine waters were examined using the mtDNA cytochrome b region. There were 293 variable and 74 conservative nucleotides, 279 of which were parsimony informative over 367 bp sequences of the mtDNA Cyt b region. Overall mean genetic diversity was 0.433, with the smallest genetic distance (0.2384) observed between M. mustelus and S. canicula, and the largest (1.3040) between G. melastomus and I. oxyrinchus. All species were clearly separated in NJ and MP trees, exhibiting high bootstrap values, and the observed genetic divergence clearly discriminated among all the shark species examined. Additionally, the study identified low genetic diversity and the presence of regional haplotypes, which suggests the need for immediate conservation strategies that are tailored specifically to these ecologically important predatory shark species.
Keywords: shark species, mtDNA Cyt b, phylogeny, DNA barcoding, Turkey, Mediterranean Sea
Published in DiRROS: 06.07.2026; Views: 90; Downloads: 84
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2.
Testing species boundaries of an unknown Dolomedes (Araneae, Dolomedidae) morphospecies from isolated islands
Grégory Cazanove, Kuang-Ping Yu, Brice Derepas, Arnaud Henrard, 2025, complete scientific database of research data

Abstract: Raft spiders, family Dolomedidae, represent a group of spiders with 7 genera distributed near globally well known for a semi-aquatic lifestyle. One of the iconic genera representing such a unique lifestyle is the largest and diverse dolomedid genus Dolomedes. Although Dolomedes is well surveyed in parts of its distribution, its diversity in the tropics remains largely unknown, such as the western Indian Ocean region with most of the islands unsurveyed. Recent expeditions to Madagascar and La Réunion Island discovered a series of specimens that appear to belong to an unknown morphospecies of Dolomedes, exhibiting varying degrees of differences in the diagnostic characteristics. To further test and define their species boundaries, we include molecular evidence followed by species delimitation analyses. Our findings indicate that specimens from both islands are conspecific. Consequently, we introduce a new species to science, Dolomedes reuniascar sp. nov., providing detailed illustrations, descriptions of its variations and ecological characteristics. Based on our observations and existing literature, we speculate that the presence of this species on the two isolated islands could be attributed to either highly efficient dispersal abilities, such as ballooning of spiderlings, or human-mediated introduction events. Contacts
Keywords: fishing spider, phylogeny, taxonomy, Madagascar, Réunion
Published in DiRROS: 08.05.2026; Views: 175; Downloads: 254
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Phylogenetic position of the genus Chaetoniphargus Karaman et Sket (Crustacea: Amphipoda: Niphargidae) from dinamic karst : An extreme case of homoplasy
Boris Sket, Gordan S. Karaman, 2018, original scientific article

Abstract: An alternative, phylogenetically grounded taxonomy of the recently described Chaetoniphargus lubuskensis Karaman & Sket (Crustacea: Amphipoda: Niphargidae) is presented. The recently described new genus and species, Chaetoniphargus lubuskensis from Dinaric Karst, has formerly only been taxonomically evaluated by a classical approach, based on morphology. Species of genera Niphargobatoides, Niphargobates, Chaetoniphargus, differ from Niphargus spp. mainly by slightly elevated number of maxilla I spines, by gradual reduction of maxillary and mandibular palps, by a strong reduction of urosomal structures. Molecularly, they appear to be nested within the Niphargus tree, but separately. Their collective separation from Niphargus would make the genus Niphargus paraphyletic, but for the low number of these species practically without diminishing the confusing diversity of it. A molecular phylogenetic analysis would include all here studied niphargid species as belonging to Niphargus. The gradual change in morphology of mentioned niphargids produces a smooth transition between Niphargidae and unrelated Metacrangonyctidae. Since other facts speak against the relatedness of both families, this is an additional case of convergence, demonstrating the need of molecular analyses when we speculate on phylogenetic relations within Amphipoda.
Keywords: subterranean, taxonomy, phylogeny
Published in DiRROS: 27.01.2026; Views: 392; Downloads: 285
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5.
History and biology of the "black proteus" (Proteus anguinus parkelj Sket & Arntzen 1994; Amphibia: Proteidae): a review
Lilijana Bizjak-Mali, Boris Sket, 2019, review article

Abstract: Proteus anguinus parkelj Sket & Arntzen 1994 is a black pigmented with developed eyes, non-troglomorphic, but yet troglobiotic subspecies of P. anguinus Laurenti 1786. It is endemic to the karst of Bela krajina in southeast Slovenia. As a probable mimic of the epigean ancestor it is very informative regarding adaptation to subterranean environment. Since it was discovered only in 1986, relatively little is known about its biology. The purpose of this review paper is to summarize the published data about the circumstances of its discovery, its distribution, phylogeny, taxonomy and its biology, including environmental threats, conservation status, and actions that are being taken to ensure its survival. The exceedingly limited distribution of the black proteus makes it particularly vulnerable. It is endangered by environmental pollution as well as by various potential pathogens that are of global concern to amphibians. Populations of the black proteus are in dire need of protection if they are to survive in their own natural habitat.
Keywords: Proteus anguinus parkelj, discovery, distribution, phylogeny, morphology, threats
Published in DiRROS: 27.01.2026; Views: 576; Downloads: 340
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6.
Rare Basidiomycete resupinatus rouxii reported for the first time in Türki̇ye
Ismail Acar, Halide Karabiyik, 2025, original scientific article

Abstract: In this study, Resupinatus rouxii Consiglio & Setti was collected from Çanakkale province, Türkiye, and identified using both morphological and molecular data. Macroscopically, the species is characterised by its small size, kidney-shaped pileus, light grey colour, and slightly hairy surface. Microscopic examination confirmed diagnostic features of the genus Resupinatus, and detailed evaluations were made of the basidia, basidiospores, and cystidia. The internal transcribed spacer (ITS) region of nuclear ribosomal DNA was sequenced and used in phylogenetic analyses. The resulting ITS sequence showed more than 99% similarity to the reference sequence of R. rouxii, supporting the morphological identification. This study represents the second scientific report of R. rouxii worldwide and provides the fourth known record of this species, extending its known distribution to Türkiye (Çanakkale province) and contributing valuable data to its biogeography.
Keywords: Resupinatus, fungi, new record, internal transcribed spacer region, molecular phylogeny, Turky
Published in DiRROS: 17.12.2025; Views: 845; Downloads: 564
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7.
Tomato spotted wilt virus in tomato from Croatia, Montenegro and Slovenia: genetic diversity and evolution
Dijana Škorić, Jelena Zindović, Dorotea Grbin, Patrik Pul, Vladan Božović, Paolo Margaria, Nataša Mehle, Anja Pecman, Zala Kogej Zwitter, Denis Kutnjak, Ana Vučurović, 2025, original scientific article

Abstract: Tomato spotted wilt orthotospovirus (TSWV) is a major plant pathogen causing significant economic losses in tomato production worldwide. Understanding its genetic diversity and evolutionary mechanisms is crucial for effective disease management. This study analyzed TSWV isolates from symptomatic tomato plants collected across Croatia, Montenegro and Slovenia between 2020 and 2024. High-throughput sequencing (HTS) was employed to obtain whole-genome sequences, followed by phylogenetic analyses to assess genetic variability and relationships among isolates from these three countries and other isolates of worldwide geographic origin. Phylogenetic analyses placed all studied isolates within the L1-M3-S3 genotype, commonly associated with solanaceous crops in Europe. While Croatian and Slovenian isolates exhibited high genetic similarity, Montenegrin isolates clustered in a distinct subgroup, showing closer relationships to Asian and Mediterranean accessions. Despite the severe disease symptoms observed, no substitutions in the NSm protein associated with resistance-breaking (RB) phenotypes were detected. These findings suggest that additional virome components, environmental factors or so far unknown mechanism(s) may contribute to infection and disease severity in tomato and strongly support the need of continuous surveillance of TSWV genetic diversity in order to inform breeding programs and develop sustainable management strategies to mitigate future outbreaks.
Keywords: tomato, HTS, phylogeny, TSWV, plant virus
Published in DiRROS: 16.09.2025; Views: 784; Downloads: 400
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8.
Additions to the taxonomy of the Auriculariales (Basidiomycota) with pedunculate basidia
Viacheslav Spirin, Vera Malysheva, Ilya Viner, Renato Lúcio Mendes Alvarenga, Tine Grebenc, Gérald Gruhn, Anton Savchenko, Django Grootmyers, Leif Ryvarden, Josef Vlasák, Karl-Henrik Larsson, R. Henrik Nilsson, 2025, original scientific article

Abstract: In the present paper, we revise the taxonomy of the Auriculariales having pedunculate (stalked) basidia. In total, sixteen new species from Europe, East Asia, North and South America, and tropical Africa are described. They are classified among the genera Hydrophana, Mycostilla, Myxarium, Protoacia, Protohydnum, and Protomerulius. In addition, the generic affiliation of eleven extant species is re-established based on phylogenetic and/or morphological evidence. A new genus, Elmericium, is introduced to accommodate a crust-like fungus, E. alabastrinum, from East Asia; phylogenetic data place it in the vicinity of the anatomically similar poroid genera Elmerina and Protodaedalea (Auriculariaceae). The generic description of Protohydnum is amended; in its current scope, the genus encompasses several species formerly assigned to Bourdotia, Ductifera, and Exidiopsis. Available environmental data point to a wider distribution of some Protomerulius spp. and greater species diversity in the genus than currently surmised from physical fungal samples.
Keywords: heterobasidiomycetes, phylogeny, soil sequences, taxonomy
Published in DiRROS: 05.09.2025; Views: 639; Downloads: 353
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9.
Testing species boundaries of an unknown Dolomedes (Araneae, Dolomedidae) morphospecies from isolated islands
Grégory Cazanove, Kuang-Ping Yu, Brice Derepas, Arnaud Henrard, 2025, original scientific article

Abstract: Raft spiders, family Dolomedidae, represent a group of spiders with 7 genera distributed near globally well known for a semi-aquatic lifestyle. One of the iconic genera representing such a unique lifestyle is the largest and diverse dolomedid genus Dolomedes. Although Dolomedes is well surveyed in parts of its distribution, its diversity in the tropics remains largely unknown, such as the western Indian Ocean region with most of the islands unsurveyed. Recent expeditions to Madagascar and La Réunion Island discovered a series of specimens that appear to belong to an unknown morphospecies of Dolomedes, exhibiting varying degrees of differences in the diagnostic characteristics. To further test and define their species boundaries, we include molecular evidence followed by species delimitation analyses. Our findings indicate that specimens from both islands are conspecific. Consequently, we introduce a new species to science, Dolomedes reuniascar sp. nov., providing detailed illustrations, descriptions of its variations and ecological characteristics. Based on our observations and existing literature, we speculate that the presence of this species on the two isolated islands could be attributed to either highly efficient dispersal abilities, such as ballooning of spiderlings, or human-mediated introduction events.
Keywords: fishing spider, phylogeny, taxonomy, Madagascar, Réunion
Published in DiRROS: 20.06.2025; Views: 824; Downloads: 831
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10.
Hybrid zones in the European Alps impact the phylogeography of alpine vicariant willow species (Salix L.)
Loïc Pittet, Pia Marinček, Piotr Kosinski, Natascha D. Wagner, Elvira Hörandl, 2025, original scientific article

Abstract: Introduction: In the European Alps, Pleistocene climate oscillations resulted in geographical range expansions and restrictions of species. Postglacial recolonizations often result in secondary contact hybridization of vicariant species, thereby creating hybrid zones with patterns of introgression. Here, we compare the genetic structure of two secondary contact hybrid zones between two vicariant willow species pairs occurring in the European Alpine System. Supplemented by morphological and ecological data, we try to understand the factors shaping the hybrid zones and their influence on geographical range filling patterns. Methods: RAD sequencing and morphometric data were used to characterize biogeographical history, genetic diversity and the hybrid zone of each species pair. Vegetation relevés and species distribution models provided ecological context and support. Key results: Results suggest that recolonization of the Alps happened from peripheral glacial refugia, resulting in broad secondary contact zones in the Eastern Alps in both species pairs. Both hybrid zones show introgression, but differ in symmetry and intensity of gene flow, in the type of introgressed loci, and in the geographical range. Habitat preferences and species distribution models do not indicate ecological barriers to recolonization. Conclusions: Hybrid zones do not only affect the genetic structure of species by gene flow and introgression, but also appear to impact the biogeographical patterns of species.
Keywords: hybridization, phylogeny, phylogeography, climatic oscillations, genus Salix
Published in DiRROS: 22.04.2025; Views: 1044; Downloads: 645
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