First insight into molecular diversity and DNA barcode library of epikarst-dwelling invertebrates in the Western Carpathians

Rendoš, Michal; Parimuchová, Andrea; Hřívová, Dana Klímová; Karpowicz, Maciej; Papáč, Vladimír; Jabłońska, Aleksandra; Płóciennik, Mateusz; Haviarová, Dagmar; Grabowski, Michał

doi:10.1016/j.ecohyd.2023.07.005

Cited by 2 publications

References 93 publications

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A rapid and parallel Late Pleistocene/Holocene morphological radiation in a predaceous planktonic water flea: the case of Bythotrephes (Cladocera: Cercopagididae)

Karpowicz,

Karabanov,

Świsłocka-Cutter

et al. 2024

Zoological Journal of the Linnean Society

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The predatory cladoceran Bythotrephes is one of North America’s most successful and impactive invasive species in freshwater plankton communities. The taxonomic status of the genus Bythotrephes Leydig, 1860 (Crustacea: Cladocera: Cercopagididae) has remained unclear and a subject of intensive debate for over 150 years. We applied an integrative taxonomy approach with multi-gene analysis (mitochondrial COI and 12S genes, and nuclear 18S and 28S genes) on 80 individuals (representing at least four morphospecies) from various regions spanning the genus distribution (North America, Europe, and Asia) to resolve the taxonomic status of species within Bythotrephes. The results of our study strongly support the hypothesis of a single species—Bythotrephes longimanus Leydig, 1860, and ecological morphs should be accepted as junior synonyms. Our work also elucidates the very recent radiation of Bythotrephes, which may have begun rapidly and parallel during the Late Pleistocene, or even after the last glaciation. Finally, we provide a comprehensive biogeographic reconstruction of Bythotrephes dispersal within the Holarctic realm. Europe likely served as a dispersal centre for Bythotrephes from where they spread relatively recently (possibly, less than 10 kyr) and we distinguish five possible dispersal events in its evolutionary history.

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A rapid and parallel Late Pleistocene/Holocene morphological radiation in a predaceous planktonic water flea: the case of Bythotrephes (Cladocera: Cercopagididae)

Karpowicz,

Karabanov,

Świsłocka-Cutter

et al. 2024

Zoological Journal of the Linnean Society

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What are the best practices for curating eDNA custom barcode reference libraries? A case study using Australian subterranean fauna

Guzik,

Stringer,

Thornhill

et al. 2024

Preprint

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Identification of species for environmental assessment and monitoring is essential for understanding anthropogenic impacts on biodiversity, but for subterranean fauna this task is frequently difficult and time consuming. The implementation of environmental DNA (eDNA) metabarcoding for biodiversity discovery and assessment offers considerable promise for improving the rate, accuracy and efficiency of species detection in ecosystems both above and below the ground. Importantly, for a better understanding of the biodiversity and ecology of organisms detected using eDNA, a custom library of known reference sequences with associated correct taxonomic metadata - i.e., a barcode reference library (BRL) - is required. Yet, minimal guidance is currently available on how an effective (i.e. shareable, multi-sequence, that permits metadata and has a unified nomenclature) and accurate (i.e. verified) custom BRL can be achieved. Here, we present a detailed roadmap for curation of a BRL for subterranean fauna. To do this, we (1) curated a custom sequence database of subterranean fauna at an environmentally sensitive location, Bungaroo Creek in the Pilbara region of Western Australia, for four gene loci useful for eDNA metabarcoding (COI, 18S rRNA, 12S rRNA and 16S rRNA); (2) addressed major gaps in taxonomy and disparate nomenclature of subterranean fauna by estimating 17-29 putative new species with standard delimitation methods, including 34 Barcode Index Numbers (BINs) in BOLD, and (3) summarised a best practice workflow for curation of a custom BRL that has broad applicability and can be applied to any taxa.

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First insight into molecular diversity and DNA barcode library of epikarst-dwelling invertebrates in the Western Carpathians

Cited by 2 publications

References 93 publications

A rapid and parallel Late Pleistocene/Holocene morphological radiation in a predaceous planktonic water flea: the case of Bythotrephes (Cladocera: Cercopagididae)

A rapid and parallel Late Pleistocene/Holocene morphological radiation in a predaceous planktonic water flea: the case of Bythotrephes (Cladocera: Cercopagididae)

What are the best practices for curating eDNA custom barcode reference libraries? A case study using Australian subterranean fauna

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