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Using ancient DNA to identify Bos primigenius in ancient cattle remains from Belgium
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Aurochs (Bos primigenius) are the wild ancestors of the domesticated taurine cattle (Bos taurus). During the Holocene, populations of aurochs gradually declined until their extinction at the turn of the 17th century. DNA data suggest that domestic cattle in Europe descended from Near East aurochs that were domesticated and brought to Europe by the first farmers during the Neolithic period. Hybridization occurred more recently in Europe between domestic cattle and local wild aurochs. Most aurochs can be distinguished from domestic cattle osteometrically, but large-sized domestic cattle may be misidentified as aurochs. Based on mitochondrial DNA, most European aurochs differ from domestic cattle (haplogroup “P” versus “T”). With the aim to provide new data on the former distribution of aurochs in Europe, we used mitochondrial DNA to identify large bovid bones attributed to aurochs and dating from Epipaleolithic to medieval times. DNA was extracted from the bones of 11 specimens from Belgium in an ancient DNA lab. Shotgun DNA sequencing provided raw reads comprising 0.02-10% of endogenous DNA. For three samples, reads covered 74-98% of the bovid mitochondrial genome and enabled the identification of one aurochs from the Bronze Age (haplogroup “P”) and two cows from Roman and medieval times (haplogroup “T”). Among the other samples (covering 2-18% of the mitogenome), three Roman specimens could be assigned to the haplogroup “T” based on a few diagnostic positions. This study provides the first mitogenomic data for a Belgian aurochs and contributes to the identification of exceptionally large Roman bovid remains.
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RBINS Staff Publications 2023
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Anatomy, Relationships, and Paleobiology of Cambaytherium (Mammalia, Perissodactylamorpha, Anthracobunia) from the lower Eocene of western India
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The anatomy of Cambaytherium, a primitive, perissodactyl-like mammal from the lower Eocene Cambay Shale Formation of Gujarat, India, is described in detail on the basis of more than 350 specimens that represent almost the entire dentition and the skeleton. Cambaytherium combines plesiomorphic traits typical of archaic ungulates such as phenacodontids with derived traits characteristic of early perissodactyls. Cambaytherium was a subcursorial animal better adapted for running than phenacodontids but less specialized than early perissodactyls. The cheek teeth are bunodont with large upper molar conules, not lophodont as in early perissodactyls; like perissodactyls, however, the lower molars have twinned metaconids and m3 has an extended hypoconulid lobe. A steep wear gradient with heavy wear in the middle of the tooth row suggests an abrasive herbivorous diet. Three species of Cambaytherium are recognized: C. thewissi (∼23 kg), C. gracilis (∼10 kg), and C. marinus (∼99 kg). Body masses were estimated from tooth size and long bone dimensions. Biostratigraphic and isotopic evidence indicates an age of ca. 54.5 Ma for the Cambay Shale vertebrate fauna, the oldest Cenozoic continental vertebrate assemblage from India, near or prior to the initial collision with Asia. Cambaytheriidae (also including Nakusia and Perissobune) and Anthracobunidae are sister taxa, constituting the clade Anthracobunia, which is sister to Perissodactyla. We unite them in a new higher taxon, Perissodactylamorpha. The antiquity and occurrence of Cambaytherium—the most primitive known perissodactylamorph—in India near or before its collision with Asia suggest that Perissodactyla evolved during the Paleocene on the Indian Plate or in peripheral areas of southern or southwestern Asia.
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RBINS Staff Publications 2020
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New and poorly known species of Cancellariidae (Neogastropoda: Cancellarioidea) from the Indian Ocean and the western Pacific
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RBINS Staff Publications 2020
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Uncertainty assessment applied to marine subsurface datasets
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A recently released voxel model quantifying aggregate resources of the Belgian part of the North Sea includes lithological properties of all Quaternary sediments and modelling-related uncertainty. As the underlying borehole data come from various sources and cover a long time-span, data-related uncertainties should be accounted for as well. Applying a tiered data-uncertainty assessment to a composite lithology dataset with uniform, standardized lithological descriptions and rigorously completed metadata fields, uncertainties were qualified and quantified for positioning, sampling and vintage. The uncertainty on horizontal positioning combines navigational errors, on-board and off-deck offsets and underwater drift. Sampling-gear uncertainty evaluates the suitability of each instrument in terms of its efficiency of sediment yield per lithological class. Vintage uncertainty provides a likelihood of temporal change since the moment of sampling, using the mobility of fine-scale bedforms as an indicator. For each uncertainty component, quality flags from 1 (very uncertain) to 5 (very certain) were defined and converted into corresponding uncertainty percentages meeting the input requirements of the voxel model. Obviously, an uncertainty-based data selection procedure, aimed at improving the confidence of data products, reduces data density. Whether or not this density reduction is detrimental to the spatial coverage of data products, will depend on their intended use. At the very least, demonstrable reductions in spatial coverage will help to highlight the need for future data acquisition and to optimize survey plans. By opening up our subsurface model with associated data uncertainties in a public decision support application, policy makers and other end users are better able to visualize overall confidence and identify areas with insufficient coverage meeting their needs. Having to work with a borehole dataset that is increasingly limited with depth below the seabed, engineering geologists and geospatial analysts in particular will profit from a better visualization of datarelated uncertainty.
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RBINS Staff Publications 2020
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Sexual dimorphism in the walrus mandible: comparative description and geometric morphometrics
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RBINS Staff Publications 2022
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One to host them all: genomics of the diverse bacterial endosymbionts of the spider Oedothorax gibbosus
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Bacterial endosymbionts of the groups Wolbachia , Cardinium and Rickettsiaceae are well known for their diverse effects on their arthropod hosts, ranging from mutualistic relationships to reproductive phenotypes. Here, we analysed a unique system in which the dwarf spider Oedothorax gibbosus is co-infected with up to five different endosymbionts affiliated with Wolbachia , ‘Candidatus Tisiphia’ (formerly Torix group Rickettsia ), Cardinium and Rhabdochlamydia . Using short-read genome sequencing data, we show that the endosymbionts are heterogeneously distributed among O. gibbosus populations and are frequently found co-infecting spider individuals. To study this intricate host–endosymbiont system on a genome-resolved level, we used long-read sequencing to reconstruct closed genomes of the Wolbachia , ‘Ca. Tisiphia’ and Cardinium endosymbionts. We provide insights into the ecology and evolution of the endosymbionts and shed light on the interactions with their spider host. We detected high quantities of transposable elements in all endosymbiont genomes and provide evidence that ancestors of the Cardinium , ‘Ca. Tisiphia’ and Wolbachia endosymbionts have co-infected the same hosts in the past. Our findings contribute to broadening our knowledge about endosymbionts infecting one of the largest animal phyla on Earth and show the usefulness of transposable elements as an evolutionary ‘contact-tracing’ tool.
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RBINS Staff Publications 2023
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First record of the ant Pheidole megatron Fischer and Fisher, 2013 (Hymenoptera: Formicidae) from Rwanda
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We present the first record of the ant Pheidole megatron Fischer and Fisher, 2013 in Rwanda, a species thought to be endemic to the Malagasy region. Specimens were collected in July 2019, in one of the houses located at Kivumu, in the center of Rwanda. They were first morphologically identified as Pheidole megatron using a recent identification key. Molecular identification through mitochondrial cytochrome oxidase I (COI) confirmed the morphological identification. The Rwanda sample clustered with samples from the Comoros, and it belongs to the group megacephala. Future studies may focus on the biology and ecology of this ant species in Africa. Moreover, we suggest the screening of other African populations of Pheidole megacephala using finer genetic markers with higher mutation rates to clarify the identification and spread of the species.
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RBINS Staff Publications 2021
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Contribution to the knowledge of the Prioninae (Coleoptera, Cerambycidae) from the Mizoram State (India), with the first report of the genus Megobaralipton Lepesme & Breuning and new records from the country
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RBINS Staff Publications 2021
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Ways forward in quantifying data uncertainty in geological databases
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Issues of compatibility of geological data resulting from the merging of many different data sources and time periods may jeopardize harmonization of data products. Important progress has been made due to increasing data standardization, e.g., at a European scale through the SeaDataNet and Geo-Seas data management infrastructures. Common geological data standards are unambiguously defined, avoiding semantic overlap in geological data and associated metadata. Quality flagging is also applied increasingly, though ways in further propagating this information in data products is still at its infancy. For the Belgian and southern Netherlands part of the North Sea, databases are now rigorously re-analyzed in view of quantifying quality flags in terms of uncertainty to be propagated through a 3D voxel model of the subsurface (https://odnature.naturalsciences.be/tiles/). An approach is worked out to consistently account for differences in positioning, sampling gear, analysis procedures and vintage. The flag scaling is used in the interpolation process of geological data, but will also be used when visualizing the suitability of geological resources in a decision support system. Expert knowledge is systematically revisited as to avoid totally inappropriate use of the flag scaling process. The quality flagging is also important when communicating results to end-users. Therefore, an open data policy in combination with several processing tools will be at the heart of a new Belgian geological data portal as a platform for knowledge building (KB) and knowledge management (KM) serving the marine geoscience, the policy community and the public at large.
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RBINS Staff Publications 2017
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A redescription of the Neotropical lanternfly Coptopola cincticrus Stål, 1869 (Fulgoridae: Poiocerinae: Poiocerini)
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RBINS Staff Publications 2024
