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  • 1
    Publication Date: 2024-03-28
    Description: Water frogs (genus Pelophylax) are one of the most widespread and diverse, but also most invasive amphibians of the Western Palearctic region. As such, Pelophylax studies face the challenge of identifying similar taxa that hybridize in sympatry. For this purpose, the nuclear marker serum albumin intron 1 (SAI-1) has been used for over a decade in Pelophylax. Initially praised for its diagnosticity, notably to discriminate common species such as the pool frog (P. lessonae), the marsh frog (P. ridibundus) and their hybridogenetic hybrid the edible frog (P. esculentus) without sequencing (by amplicon length polymorphism), SAI-1 was later questioned due to misidentifications and doubtful patterns of genetic divergence. In this study, we incorporate an up-to-date multilocus phylogeographic framework spanning the entire Pelophylax diversification, to re-assess the performance of SAI-1 for lineage identification and discovery. We show that SAI-1 sequences discriminate all Palearctic water frog species and most of their phylogeographic lineages, enabling us to map their distributions and identify the genomes of hybridogenetic hybrids. However, the phylogeny of SAI-1 is aberrant and unrepresentative of the evolutionof the genus. In particular, differentiated P. l. lessonae alleles segregating in the Alpine region mimic a species-level divergence that is not recovered by any other marker. Moreover, the indel polymorphism that supposedly distinguishes P. lessonae from P. ridibundus, as well as the main P. ridibundus lineages from the Balkans (P. r. ridibundus vs kurtmuelleri), are not diagnostic across the entire range of these taxa. Hence, SAI-1 is neither the panacea for nor the nemesis of Pelophylax genotyping. Sequencing SAI-1 shall continue to offer a reliable and informative preliminary approach of single-gene barcoding identification of lineages, but analyses without sequencing, and other applications such as phylogenetic and taxonomic inferences, should be avoided.
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 2
    Publication Date: 2024-01-12
    Description: We provide results of a second survey of the hutan adat (forest traditionally exploited on a small scale by local people) situated in the Gunung Lumut Protection Forest, East Kalimantan, conducted in 2007 and closely following the first survey in 2005 (Wielstra & Pieterse 2009. Kukila 14: 1-15). An additional 29 species were observed, bringing the total number of species observed in GLPF to 217. These include two globally threatened (Vulnerable) species, 16 \xe2\x80\x9cSundaic Lowland Forest\xe2\x80\x9d biomerestricted species and one \xe2\x80\x9cSundaic montane forest\xe2\x80\x9d biome-restricted species. We confirmed the presence of over 1% of the biogeographic population of the congregatory waterbird Storm\xe2\x80\x99s Stork Ciconia stormi. The findings provide further support for our previous suggestion to recognize Gunung Lumut Protection Forest as an Important Bird Area. We also provide some remarks on the potential conservation value of hutanadat and raise issues to be addressed in further studies.
    Keywords: avifauna ; Gunung Lumut Protection Forest ; Kalimantan ; conservation value ; hutan adat ; Important Bird Area
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 3
    Publication Date: 2024-01-12
    Description: Newts of the genus Triturus (Amphibia, Caudata, Salamandridae) are distributed across Europe and adjacent Asia. In spite of its prominence as a model system for evolutionary research, the phylogeny of Triturus has remained incompletely solved. Our aim was to rectify this situation, to which we employed nuclear encoded proteins (40 loci) and mitochondrial DNA-sequence data (mtDNA, 642 bp of the ND4 gene). We sampled up to four populations per species covering large parts of their ranges. Allozyme and mtDNA data were analyzed separately with parsimony, distance, likelihood and Bayesian methods of phylogenetic inference. Existing knowledge on taxonomic relationships was confirmed, including the monophyly of the genus and the groups of crested newts (four species) and marbled newts (two species). The genetic coherence of species and subspecies was also confirmed, but not always with high statistical support (depending on taxon, characters under consideration, and method of inference). In spite of our efforts we did not obtain sufficient phylogenetic signal to prefer one out of twelve potential topologies representing crested newts relationships. We hypothesize that the lack of phylogenetic resolution reflects a hard polytomy and represents the (near)-simultaneous origin of crested newt species. Using a calibration point of 24 Ma (million years before present) for the most recent common ancestor of Triturus-species, the crested newt radiation event is dated at 7-6 Ma (scenario 1) or at 11-10 Ma (scenario 2), depending on the application of an allozyme versus mtDNA molecular clock. The first biogeographical scenario involves the spread of crested newts from the central Balkans into four compass directions. This scenario cannot be brought into line with potential vicariance events for south-eastern Europe. The second scenario involves the more or less simultaneous origin of four species of crested newts through large-scale vicariance events and is supported by the paleogeographical reconstruction for the region at the end of the Middle Miocene. The subspecies Triturus carnifex macedonicus carries in one large area the mtDNA that is typical for the neighbouring species T. karelinii, which is attributed to introgression and a recent range shift. It is nevertheless a long distinct evolutionary lineage and we propose to elevate its taxonomic status to that of a species, i.e., from Triturus c. macedonicus (Karaman, 1922) to Triturus macedonicus (Karaman, 1922).
    Keywords: allozymes ; historical biogeography ; mitochondrial DNA-sequences ; Triturus macedonicus ; Triturus marmoratus ; vicariance
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 4
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    Frontiers Media SA
    In:  Frontiers for Young Minds vol. 12
    Publication Date: 2024-02-21
    Description: When parents of two dierent species have babies together, those \nbabies are called hybrids. In nature, hybrids are often born in the \nregion where the ranges of their parent species meet. This region is \ncalled a hybrid zone. We know that species change their ranges all the \ntime, and we also know that some species compete with each other \nfor food or living space. This means that, if one of the two parent \nspecies manages to expand its range, the other species may be forced \nto retreat. If that were to happen, the hybrid zone between the two \nspecies\xe2\x80\x99 ranges should move, right? Even though researchers used \nto think that hybrid zone movement was rare, recent studies suggest \notherwise. In this article, we will tell you what hybrid zones are, how \nthey form, why their position may shift over time, and what we can \nlearn from this movement
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 5
    Publication Date: 2024-03-21
    Description: Palearctic water frogs (genus Pelophylax) are an outstanding model in ecology and evolution, being widespread, speciose, either threatened or threatening to other species through biological invasions, and capable of siring hybrid offspring that escape the rules of sexual reproduction. Despite half a century of genetic research and hundreds of publications, the diversity, systematics and biogeography of Pelophylax still remain highly confusing, in no small part due to a lack of correspondence between studies. To provide a comprehensive overview, we gathered 〉13,000 sequences of barcoding genes from 〉1700 native and introduced localities and built multigene mitochondrial (~17 kb) and nuclear (~10 kb) phylogenies. We mapped all currently recognized taxa and their phylogeographic lineages (〉40) to get a grasp on taxonomic issues, cyto-nuclear discordances, the genetic makeup of hybridogenetic hybrids, and the origins of introduced populations. Competing hypotheses for the molecular calibration were evaluated through plausibility tests, implementing a new approach relying on predictions from the anuran speciation continuum. Based on our timetree, we propose a new biogeographic paradigm for the Palearctic since the Paleogene, notably by attributing a prominent role to the dynamics of the Paratethys, a vast paleo-sea that extended over most of Europe. Furthermore, our results show that distinct marsh frog lineages from Eastern Europe, the Balkans, the Near East, and Central Asia (P. ridibundus ssp.) are naturally capable of inducing hybridogenesis with pool frogs (P. lessonae). We identified 14 alien lineages (mostly of P. ridibundus) over ~20 areas of invasions, especially in Western Europe, with genetic signatures disproportionally pointing to the Balkans and Anatolia as the regions of origins, in line with exporting records of the frog leg industry and the stocks of pet sellers. Pelophylax thus emerges as one of the most invasive amphibians worldwide, and deserves much higher conservation concern than currently given by the authorities fighting biological invasions.
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 6
    Publication Date: 2024-04-16
    Description: Water frogs (genus Pelophylax) are one of the most widespread and diverse, but also most invasive amphibians of the Western Palearctic region. As such, Pelophylax studies face the challenge of identifying similar taxa that hybridize in sympatry. For this purpose, the nuclear marker serum albumin intron 1 (SAI-1) has been used for over a decade in Pelophylax. Initially praised for its diagnosticity, notably to discriminate common species such as the pool frog (P. lessonae), the marsh frog (P. ridibundus) and their hybridogenetic hybrid the edible frog (P. esculentus) without sequencing (by amplicon length polymorphism), SAI-1 was later questioned due to misidentifications and doubtful patterns of genetic divergence. In this study, we incorporate an up-to-date multilocus phylogeographic framework spanning the entire Pelophylax diversification, to re-assess the performance of SAI-1 for lineage identification and discovery. We show that SAI-1 sequences discriminate all Palearctic water frog species and most of their phylogeographic lineages, enabling us to map their distributions and identify the genomes of hybridogenetic hybrids. However, the phylogeny of SAI-1 is aberrant and unrepresentative of the evolutionof the genus. In particular, differentiated P. l. lessonae alleles segregating in the Alpine region mimic a species-level divergence that is not recovered by any other marker. Moreover, the indel polymorphism that supposedly distinguishes P. lessonae from P. ridibundus, as well as the main P. ridibundus lineages from the Balkans (P. r. ridibundus vs kurtmuelleri), are not diagnostic across the entire range of these taxa. Hence, SAI-1 is neither the panacea for nor the nemesis of Pelophylax genotyping. Sequencing SAI-1 shall continue to offer a reliable and informative preliminary approach of single-gene barcoding identification of lineages, but analyses without sequencing, and other applications such as phylogenetic and taxonomic inferences, should be avoided.
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 7
    Publication Date: 2024-04-22
    Description: Phenological responses to climate change frequently vary among trophic levels, which can result in increasing asynchrony between the peak energy requirements of consumers and the availability of resources. Migratory birds use multiple habitats with seasonal food resources along migration flyways. Spatially heterogeneous climate change could cause the phenology of food availability along the migration flyway to become desynchronized. Such heterogeneous shifts in food phenology could pose a challenge to migratory birds by reducing their opportunity for food availability along the migration path and consequently influencing their survival and reproduction. We develop a novel graph-based approach to quantify this problem and deploy it to evaluate the condition of the heterogeneous shifts in vegetation phenology for 16 migratory herbivorous waterfowl species in Asia. We show that climate change-induced heterogeneous shifts in vegetation phenology could cause a 12% loss of migration network integrity on average across all study species. Species that winter at relatively lower latitudes are subjected to a higher loss of integrity in their migration network. These findings highlight the susceptibility of migratory species to climate change. Our proposed methodological framework could be applied to migratory species in general to yield an accurate assessment of the exposure under climate change and help to identify actions for biodiversity conservation in the face of climate-related risks.
    Keywords: bird migration ; climate change ; graph-based approach ; heterogeneous shifts ; network integrity ; phenological asynchrony ; vegetation phenology
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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