cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25850/nioz/7b.b.bf
title: Precessional pacing of early Proterozoic redox cycles - Data

description: This file contains raw X-ray fluorescence and line scan data of regular 'Knox cyclothem' alternations in two short intervals (J45de and J60d) of drill-core DD98SGP001. Core DD98SGP001 contains banded iron formation of the lower Paleoproterozoic Joffre Member of the Brockman Iron Formation and was drilled in 1998 at Silvergrass Peak (22 03'29.9''S, 116 50' 06.0''E) in the Hamersley Range, Western Australia; the core is currently stored at the Perth Core Library of the Geological Survey of Western Australia. The scanned interval J45de is from 289.05 - 290.26 m depth in the core (box 45, rows d and e) and contains cherty iron formation-type cyclothems. The scanned interval 60d is from 358.34 - 358.73 m depth in the core (box 60, row d) and contains shaley carbonate-type cyclothems.
DOI: 10.25850/nioz/7b.b.fb
title: Reconstruction of the past trophic position of lost top predators in a temperate coastal fish food web

description: Over the last century substantial changes have taken place in the fish community of the Dutch coastal North Sea zone with the loss of top predators, such as sharks and skates. Whether their disappearance has changed the trophic structure of these shallow waters, has not been properly investigated. In this study historical data of 9 species of sharks and skates, either being (near)-residents (one species), juvenile marine migrants (three species) and marine seasonal visitors (five species) of the Dutch coastal North Sea zone were analysed. (Near)-resident and juvenile marine migrants species had a demersal and all marine seasonal visitors species a pelagic lifestyle. Based on stomach content composition, trophic position of the various shark and skate species were reconstructed. Near-residents (lesser spotted dogfish) and the marine juvenile migrants (smooth hound, thornback ray and spur-dog) had a benthic/demersal diet (polychaetes, molluscs and crustaceans), while the pelagic marine seasonal visitors fed dominantly on cephalopods and fishes. Diet overlap occurred for fish (tope shark and lesser spotted dogfish), for hermit crabs (lesser spotted dogfish and smooth hound) and for shrimps (thornback ray, common stingray and smooth hound). Trophic position ranged from 3.2 for basking shark preying exclusively on crustaceans to 4.6 for the porbeagle consuming exclusively fishes. The calculated trophic positions of shark and skate species indicated that they were not at the top of the trophic pyramid but might have been on top of their own ecological niche.
DOI: 10.25850/nioz/7b.b.mf
title: Prince Edward Islands Biodiversity 2016-2017

description: Community composition is one of the main factors influencing the function of any given ecosystem, with a more diverse community providing a larger set of services. Benthic community composition can vary at a spatial and temporal scales, with primary production dynamics and benthic food availability being main factors to determine the structure of a given system. Studies have indicated shifts in benthic community composition at Sub-Antarctic Islands over a period of 30 years, linked to variability in food availability driven by climate change. Here we aim to evaluate possible short-term variability in benthic community composition at the Sub Antarctic archipelago Prince Edward Islands (PEIs), sampling stations located across three regions over two consecutive years. The results indicated significant higher species richness and abundances in 2017 than 2016, and some taxa also showed variation among regions around the PEIs. Such effects can be linked to different substratum type of the station sampled or to sampling effort. This study further contribute to understand how benthic communities may change in the near future, an essential information to develop efficient management strategies for this vulnerable marine system.
DOI: 10.25850/nioz/7b.b.2
title: Review of the possible interactions between Blue Energy and aquatic organisms. Deliverables 1.2 1.3 of project OOBE (Onderzoek Omgevingseffecten Blue Energy). NIOZ Report 2020-04

description: A review of possible impacts on zooplankton and fish of Blue Energy production in general, and an experimental Blue Energy power plant at Breezanddijk, Netherlands, in particular.
DOI: 10.6084/m9.figshare.23260172.v1
title: RNA modulates hnRNPA1A amyloid formation mediated by condensation

description: Data of the main figures from the manuscript "RNA modulates hnRNPA1A amyloid formation mediated by condensation".
DOI: 10.25850/nioz/7b.b.md
title: Seabirds and other charismatic megafauna in offshore habitats off NW Africa : GTA Ecological Vulnerability Analysis. NIOZ Report 2022-03

description: This is a compilation of data collected during dedicated, systematic at sea surveys of seabirds and marine mammals: research cruises conducted between 1988 and 2022, mostly off Mauritania (NW Africa). Mauritanian waters are part of the Canary Current Eastern Boundary Upwelling Ecosystem; one of only four such ecosystems in the World (California, Humboldt, Benguela and Canary currents.The resulting database was used to describe their spatio-temporal distribution patterns and relative abundance of charismatic megafauna, characterise their foraging habitats and species interactions, and assess their sensitivity to developments associated with the Greater Tortue Ahmeyim (GTA) gas exploration project.This document gives a first comprehensive, science-based, impression of the megafauna community with emphasis on seabird distribution patterns, seasonal trends, habitats and species interactions in the GTA project area and beyond (West Africa) to help host governments, bp and its partners to improve mitigation management for net-zero impact on biodiversity. The offshore zone harbours internationally important seabird populations, interacting with migrating marine mammals (cetaceans), sea turtles, sharks, other large predatory fish and fishery resources, aggregating in well-defined areas at predictable times. The analysis is focused on ecological guilds, or ?functional groups? of species and on foraging opportunities, thereby to demonstrating the importance of the area within the annual life-cycle of taxa originating from both hemispheres, as a foraging ground during breeding, as a stop-over, or wintering (non-breeding) area.
DOI: 10.6084/m9.figshare.23260172
title: RNA modulates hnRNPA1A amyloid formation mediated by condensation

description: Data of the main figures from the manuscript "RNA modulates hnRNPA1A amyloid formation mediated by condensation".
DOI: 10.6084/m9.figshare.23541136
title: <i>Xenasmatellales</i> ord. nov. and <i>Xenasmatellaceae</i> fam. nov. for <i>Xenasmatella</i> (<i>Agaricomycetes, Basidiomycota</i>)

description: In the era of molecular phylogeny as dominant evidence in fungal taxonomy, the taxonomic framework of fungi adopted from morphological characteristics has been largely updated. Compared with other fungal groups, macrofungi underwent fewer updates at the order and higher level. In this study, the taxonomic placement of a poorly known macro-basidiomycetous genus <i>Xenasmatella</i> is studied. Phylogenetic and molecular clock analyses inferred from a seven-locus dataset support that the genus represents an order rank lineage. Accordingly, a monotypic order <i>Xenasmatellales</i> and a monotypic family <i>Xenasmatellaceae</i> are newly introduced for <i>Xenasmatella</i> within <i>Agaricomycetes</i>. The species diversity and relationships of <i>Xenasmatella</i> are further clarified with the aid of the phylogenetic analysis inferred from a four-locus dataset. In association with morphological characteristics, a new species <i>Xenasmatella hjortstamii</i> is described. Moreover, the distribution of <i>Xenasmatella ailaoshanensis, X. gossypina</i>, and <i>X. wuliangshanensis</i> previously known only from type localities in Yunnan Province, China are expanded. In addition, two unnamed single-specimen lineages of <i>Xenasmatella</i> from Victoria State, Australia and Sichuan, China are revealed, likely representing two potential new species of this genus. In summary, the current study updates the taxonomic framework of <i>Agaricomycetes</i> and provides a crucial supplement for comprehensively understanding the evolutionary history of this fungal class.
DOI: 10.6084/m9.figshare.23541136.v1
title: <i>Xenasmatellales</i> ord. nov. and <i>Xenasmatellaceae</i> fam. nov. for <i>Xenasmatella</i> (<i>Agaricomycetes, Basidiomycota</i>)

description: In the era of molecular phylogeny as dominant evidence in fungal taxonomy, the taxonomic framework of fungi adopted from morphological characteristics has been largely updated. Compared with other fungal groups, macrofungi underwent fewer updates at the order and higher level. In this study, the taxonomic placement of a poorly known macro-basidiomycetous genus <i>Xenasmatella</i> is studied. Phylogenetic and molecular clock analyses inferred from a seven-locus dataset support that the genus represents an order rank lineage. Accordingly, a monotypic order <i>Xenasmatellales</i> and a monotypic family <i>Xenasmatellaceae</i> are newly introduced for <i>Xenasmatella</i> within <i>Agaricomycetes</i>. The species diversity and relationships of <i>Xenasmatella</i> are further clarified with the aid of the phylogenetic analysis inferred from a four-locus dataset. In association with morphological characteristics, a new species <i>Xenasmatella hjortstamii</i> is described. Moreover, the distribution of <i>Xenasmatella ailaoshanensis, X. gossypina</i>, and <i>X. wuliangshanensis</i> previously known only from type localities in Yunnan Province, China are expanded. In addition, two unnamed single-specimen lineages of <i>Xenasmatella</i> from Victoria State, Australia and Sichuan, China are revealed, likely representing two potential new species of this genus. In summary, the current study updates the taxonomic framework of <i>Agaricomycetes</i> and provides a crucial supplement for comprehensively understanding the evolutionary history of this fungal class.
DOI: 10.25850/nioz/7b.b.yc
title: Seawater hydrography and biogeochemistry data from Luymes Bank Sinkhole Expedition 64PE20191205

description: These datasets contain the measurements from discrete bottle samples and CTD sensors during cruise 64PE465/64PE20191205 on RV Pelagia in the Caribbean Netherlands (Luymes Bank Sinkhole Expedition, 5-18 December 2019). The cruise report is included for reference.
DOI: 10.6084/m9.figshare.23600107
title: Safety and pharmacokinetics of IBI112, an IL-23 monoclonal antibody, in Chinese healthy volunteers: a first-in-human phase 1 study

description: Interleukin (IL) 23p19 monoclonal antibodies were efficacious and safe in the treatment of psoriasis. A first-in-human (FIH) study was conducted to evaluate the safety, tolerability, pharmacokinetics (PK) and immunogenicity of IBI112, a novel IL-23p19 monoclonal antibody. In this FIH, randomized, double-blind, placebo-controlled, single-ascending-dose study, a subcutaneous (SC, 5–600 mg) or intravenous (IV, 100 and 600 mg) or placebo was administered to eligible healthy subjects. Safety was assessed by physical examinations, vital signs, laboratory tests, and electrocardiograms. Furthermore, non-compartment analysis and population PK modeling were conducted to characterize PK, and model-based simulation was applied to justify dose selection for psoriasis patients. A total of 46 subjects were enrolled, with 35 receiving IBI112 and 11 receiving placebo. No serious adverse events (SAEs) and no clinically significant adverse events were identified. After a single SC of IBI112, the median <i>T</i><sub>max</sub> was 4–10.5 days, and the half-life (t<sub>1/2</sub>) ranged from 21.8 to 35.8 days. IBI112 exposures (C<sub>max</sub> and AUC<sub>inf</sub>) approached dose proportionality across 5–300 mg range. IBI112 was well tolerated and safe at SC or IV dose up to 600 mg and showed a linear PK characteristics at SC dose from 5 to 300 mg. ClinicalTrial.gov NCT04511624
DOI: 10.6084/m9.figshare.23600107.v1
title: Safety and pharmacokinetics of IBI112, an IL-23 monoclonal antibody, in Chinese healthy volunteers: a first-in-human phase 1 study

description: Interleukin (IL) 23p19 monoclonal antibodies were efficacious and safe in the treatment of psoriasis. A first-in-human (FIH) study was conducted to evaluate the safety, tolerability, pharmacokinetics (PK) and immunogenicity of IBI112, a novel IL-23p19 monoclonal antibody. In this FIH, randomized, double-blind, placebo-controlled, single-ascending-dose study, a subcutaneous (SC, 5–600 mg) or intravenous (IV, 100 and 600 mg) or placebo was administered to eligible healthy subjects. Safety was assessed by physical examinations, vital signs, laboratory tests, and electrocardiograms. Furthermore, non-compartment analysis and population PK modeling were conducted to characterize PK, and model-based simulation was applied to justify dose selection for psoriasis patients. A total of 46 subjects were enrolled, with 35 receiving IBI112 and 11 receiving placebo. No serious adverse events (SAEs) and no clinically significant adverse events were identified. After a single SC of IBI112, the median <i>T</i><sub>max</sub> was 4–10.5 days, and the half-life (t<sub>1/2</sub>) ranged from 21.8 to 35.8 days. IBI112 exposures (C<sub>max</sub> and AUC<sub>inf</sub>) approached dose proportionality across 5–300 mg range. IBI112 was well tolerated and safe at SC or IV dose up to 600 mg and showed a linear PK characteristics at SC dose from 5 to 300 mg. ClinicalTrial.gov NCT04511624
DOI: 10.25850/nioz/7b.b.p
title: Sediment pore water nutrient profiles in Portuguese marine canyons

description: Shelf morphology and local hydrodynamical conditions may significantly influence the partitioning of material (terrestrial or in situ production) between shelf sediments (0-200 m) and the deeper ocean margin sediments (200-2000 m). Submarine canyons are typical morphological features of the rather narrow Iberian shelf. They have been shown to trap and transport material from the shelf to the abyss. During the OMEX cruise in 1999 the relative contribution of canyons in off-shelf transport was studied by comparing sediment carbon budgets for the Nazar?? Canyon and for ???normal??? shelf-slope-abyssal transects. In this study, three different canyon-shelf systems were compared, Setubal and Nazar?? Canyons on the Iberian Margin and Cap de Cr??us Canyon in the Gulf of Lyon.
DOI: 10.25850/nioz/7b.b.ad
title: Simple and complex burrow morphology in two Macrophthalmus species on the intertidal mudflats of Barr Al Hikman, Sultanate of Oman

description: Burrowing Ocypodoidea crabs are an abundant component of many tropical and temperate coastal areas and central to the ecosystem functioning, for instance because they recycle nutrients, are important food for many shorebirds and alter the sediment by their burrowing behaviour. The burrow morphology of these crabs may differ between and within species, often correlated with differences in habitat preferences, crab morphology and life-history traits. Here we studied the burrow morphology and complexity of Macrophthalmus sulcatus and Macrophthalmus depressus, by means of casts (n = 7 and 10 respectively) and burrow excavations (n = 17 and 16 respectively) at the pristine intertidal mudflats of Barr Al Hikman in the Sultanate of Oman. We found that M. sulcatus construct simple burrows that were in all but one case inhabited by a single crab. By contrast, all burrows of M. depressus were complex with multiple entrances and many (deep-reaching) branches. There was a strong relation between M. sulcatus carapace width and burrow entrance size, indicating that the simple burrows are adapted to, and made by the occupant. There was no relation between M. depressus carapace width and burrow entrance size, and in six burrows more than one crab was encountered, suggesting that the complex burrows are not made by, and adapted to a single occupant. The complex burrows were found close to the shore whereas the simple burrows were found at the intermediate tidal zone. We speculate that the striking differences in burrow morphology may be explained by difference in habitat selection of the studied crabs, which most importantly relates to differences in sediment structure and tidal height. Also, crab morphology and life-history traits including the social life of the studied crabs could account for the observed difference in burrow morphology.
DOI: 10.25850/nioz/7b.b.wf
title: SO289 Alkalinity Enhancement Experiment on R/V Sonne.

description: This dataset contains 110 measurements of seawater dissolved inorganic carbon (DIC) and total alkalinity (TA) from an alkalinity enhancement expreriment in the South Pacific Ocean. The samples were collected during R/V Sonne cruise SO289 in February-April 2022, as part of the GEOTRACES GP21 research programme to build an understanding of the distribution, origins, and depletions of trace elements and their isotopes (TEIs) in a lesser-explored ocean region. Measurements for TA and DIC were carried out using a VINDTA 3C instrument (#014, Marianda, Germany) and a Seal QuAAtro, gas-segmented continuous flow analyser. All analysis was conducted at the NIOZ Royal Netherlands Institute for Sea Research. Bad results from technical issues during analysis have been removed from these results, so there are no recognised issues. The NIOZ created the metadata entry and is responsible for holding master copies of the data.
DOI: 10.6084/m9.figshare.23607342
title: Refined and Annotated Genome Results for Female Sika Deer

description: Here,we upload a revised female sika deer genome, which has higher accuracy, completeness, and contiguity. Meanwhile, we also predictied gene structure and function. this could help our deeply understand and research  genome of sika deer. The resvised genome size is 2.5Gb,  the repeat seqence is 39.5% and annotated 24,354 coding protein genes.
DOI: 10.25850/nioz/7b.b.3d
title: Social Distancing Seals

description: Many species aggregate in dense colonies. Species-specific spatial patterns provide clues about how colonies are shaped by various (a-)biotic factors, including predation, temperature regulation, or disease transmission. Using aerial imagery, we examined these patterns in colonies on land of two sympatric seal species: the harbour seal and grey seal. Results show that the density of grey seals on land is twice as high as that of harbour seals. Furthermore, the nearest neighbour distance (NND) of harbour seals (median = 1.06 m) is significantly larger than that of grey seals (median = 0.53 m). When the observed seal locations were shuffled slightly through spatial simulation, the frequency of the smallest NNDs (0-25 cm) increased, while the most frequently observed NNDs decreased, implying that both species actively display social distancing. As harbour seals are more prone to infectious diseases, we hypothesize that the larger NNDs might be a behavioural response to reduce pathogen transmission. The observed differences in spatial patterns can be used as a practical tool to differentiate between harbour and grey seals in remote sensing applications, particularly in low to medium resolution imagery (e.g., satellite imagery), where morphological characteristics alone are insufficient to differentiate between species.
DOI: 10.25850/nioz/7b.b.8c
title: Sulfur in lucinid bivalves inhibits intake rates of a molluscivore shorebird

description: A forager?s energy intake rate is usually constrained by a combination of handling time, encounter rate and digestion rate. On top of that, food intake may be constrained when a forager can only process a maximum amount of certain toxic compounds. The latter constraint is well described for herbivores with a limited tolerance to plant secondary metabolites. In sulfidic marine ecosystems, many animals host chemoautotrophic endosymbionts, which store sulfur compounds as an energy resource, potentially making their hosts toxic to predators. The red knot Calidris canutus canutus is a molluscivore shorebird that winters on the mudflats of Banc d?Arguin, where the most abundant bivalve prey Loripes orbiculatus hosts sulfide-oxidizing bacteria. In this system, we studied the potential effect of sulfur on the red knots? intake rates, by offering Loripes with various sulfur content to captive birds. To manipulate toxicity, we starved Loripes for 10 days by removing them from their symbiont?s energy source sulfide. As predicted, we found lower sulfur concentrations in starved Loripes. We also included natural variation in sulfur concentrations by offering Loripes collected at two different locations. In both cases lower sulfur levels in Loripes resulted in higher consumption rates in red knots. Over time the red knots increased their intake rates on Loripes, showing their ability to adjust to a higher intake of sulfur.
DOI: 10.6084/m9.figshare.23607342.v2
title: Refined and Annotated Genome Results for Female Sika Deer

description: Here,we upload a revised female sika deer genome, which has higher accuracy, completeness, and contiguity. Meanwhile, we also predictied gene structure and function. this could help our deeply understand and research  genome of sika deer. The resvised genome size is 2.5Gb,  the repeat seqence is 39.5% and annotated 24,354 coding protein genes.
DOI: 10.25850/nioz/7b.b.x
title: Suppl. Info - Alkenone distributions and hydrogen isotope ratios show changes in haptophyte species and source water in the Holocene Baltic Sea

description: The Baltic Sea, a dynamic, marginal marine basin, experienced a number of large changes in salinity during the Holocene as a result of fluctuations in global and local sea level related to melting of glacial ice sheets and subsequent isostatic rebound. These changes likely had pronounced effects on the species composition of haptophytes, a common phytoplankton group found in the Baltic Sea. This dynamic environment provides the ideal setting to study how species change impacts distribution and hydrogen isotope ratios of long-chain alkenones (d2HC37), haptophyte-specific biomarkers. Here we analyzed the aforementioned parameters in Holocene sediments covering the contrasting hydrological phases of the Baltic Sea. Alkenone distributions changed with different Baltic Sea salinity phases, suggesting that species shifts coincide with salinity change. d2HC37 values show two major shifts: one in the middle of the freshwater Ancylus Lake phase (10.6 to 7.7 ka) and a second at the transition from the brackish Littorina Sea phase (7.2 to 3 ka) into the fresher Modern Baltic (3 ka to the present). The first shift represents a significant enrichment of 50 ???, which cannot be explained by salinity or species changes only. At this time, the isotopically depleted ice sheets had melted and only the relatively enriched freshwater source remained. The second shift, coincident with a change in distribution, is likely caused by a change in species composition alone. These findings show that hydrogen isotope ratios of long-chain alkenones, combined with their relative distribution, can be used to reconstruct changes in source water.
DOI: 10.6084/m9.figshare.23607342.v1
title: Refined and Annotated Genome Results for Female Sika Deer

description: Here,we upload a revised female sika deer genome, which has higher accuracy, completeness, and contiguity. Meanwhile, we also predictied gene structure and function. this could help our deeply understand and research  genome of sika deer. The resvised genome size is 2.5Gb,  the repeat seqence is 39.5% and annotated 24,354 coding protein genes.