cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6603100
title: Ensemble flood map spatial verification

description: Assessing the spatial spread-skill of ensemble flood maps with remote sensing observations, data and code. Creator: Helen Hooker[1] Publication Year: 2022 Organisation(s): 1. Department of Meteorology, University of Reading, U.K Description: This dataset contains: - Python functions for ensemble flood map spatial spread-skill evaluation. - SAR-derived observed flood maps used in the study. Helen Hooker. (2022). Ensemble flood map spatial verification (v1.0) [Data set]. Zenodo. https://10.5281/zenodo.6603101 Related publications: Assessing the spatial spread-skill of ensemble flood maps with remote sensing observations; 2023; NHESS; Helen Hooker[1], Sarah L. Dance[1,2,3], David C. Mason[4], John Bevington[5], and Kay Shelton[5] Department of Meteorology, University of Reading, UK. Department of Mathematics and Statistics, University of Reading, UK. NCEO, University of Reading, UK. Department of Geography and Environmental Science, University of Reading, UK. JBA Consulting, UK. Correspondence: Helen Hooker (h.hooker@pgr.reading.ac.uk)
DOI: 10.5281/zenodo.8129708
title: SAMap example for ComAnDOS

description: A tarball of SAMap input files and results reproducing the analysis provided in the SAMap repository. Deposited here as to not overwhelm the GitHub repository with needless baggage.
DOI: 10.5281/zenodo.8143110
title: SAMap example for ComAnDOS

description: A tarball of SAMap input files and results reproducing the analysis provided in the SAMap repository. Deposited here as to not overwhelm the GitHub repository with needless baggage.
description: added the orthology table for the hydra/planarian comparison
DOI: 10.6084/m9.figshare.19823038.v1
title: New insights into the crown age of angiosperms based on Bayesian tip and node dating

description: The timing of the origin of angiosperms and how they rapidly diversified into the dominant plant life on Earth, with diverse morphologies, has been the focus of numerous studies. In recent years, the rapid development of molecular clock methodology has provided an opportunity to answer this conundrum. In particular, how to best calibrate the molecular clock using the fossil record has received much attention. In this study, we apply Bayesian node and tip dating approaches that differ in how the calibration is achieved to estimate the crown age of angiosperms. Our extensive taxon sampling representing 67% of the families and 91% of the orders of extant angiosperms allows us to use the rich fossil record for divergence time estimation. Bayesian node-dating analyses with different calibration strategies emphasize that the posterior distribution is strongly constrained by the marginal prior at the node of crown angiosperms, and suggest that underlying assumptions of the fossil record shape the age of crown-group angiosperms. By assessing the sensitivity of fossilized birth-death tip dating, we reveal that fossils assigned to outgroups and the oldest fossils play a significant role in time estimates. Our tip dating analyses indicate an early Permian to late Triassic (282–226 Ma) origin for angiosperms and lay the foundation for further investigations into the origin and evolution of angiosperm traits and how they became dominant in terrestrial environments.
DOI: 10.6084/m9.figshare.19823038
title: New insights into the crown age of angiosperms based on Bayesian tip and node dating

description: The timing of the origin of angiosperms and how they rapidly diversified into the dominant plant life on Earth, with diverse morphologies, has been the focus of numerous studies. In recent years, the rapid development of molecular clock methodology has provided an opportunity to answer this conundrum. In particular, how to best calibrate the molecular clock using the fossil record has received much attention. In this study, we apply Bayesian node and tip dating approaches that differ in how the calibration is achieved to estimate the crown age of angiosperms. Our extensive taxon sampling representing 67% of the families and 91% of the orders of extant angiosperms allows us to use the rich fossil record for divergence time estimation. Bayesian node-dating analyses with different calibration strategies emphasize that the posterior distribution is strongly constrained by the marginal prior at the node of crown angiosperms, and suggest that underlying assumptions of the fossil record shape the age of crown-group angiosperms. By assessing the sensitivity of fossilized birth-death tip dating, we reveal that fossils assigned to outgroups and the oldest fossils play a significant role in time estimates. Our tip dating analyses indicate an early Permian to late Triassic (282–226 Ma) origin for angiosperms and lay the foundation for further investigations into the origin and evolution of angiosperm traits and how they became dominant in terrestrial environments.
DOI: 10.5061/dryad.rr4xgxdck
title: Sub-lethal but potentially devastating – The novel insecticide flupyradifurone impairs collective brood care in bumblebees

description: The worldwide decline in pollinating insects is alarming. One of the main anthropogenic drivers is the massive use of pesticides in agriculture. Risk assessment procedures test pesticides for mortality rates of well-fed, parasite-free individuals of a few non-target species. Sublethal and synergistic effects of co-occurring stressors are usually not addressed. Here, we present a simple, high-throughput bio-essay to assess such effects. Using brood thermoregulation in bumblebee microcolonies as readout, we investigate how this collective ability is affected by long-term feeding exposure to the herbicide glyphosate (5 mg/l), the insecticide flupyradifurone (0.4 mg/l) and the combination of both, when co-occurring with the natural stressor resource limitation compared. Documenting brood temperature and development in 53 microcolonies, we find no significant effect of glyphosate, while flupyradifurone significantly impaired the collective ability to maintain the necessary brood temperatures, resulting in prolonged developmental times and a decrease in colony growth by over fifty percent. This reduction in colony growth has the potential to significantly curtail reproductive chances of colonies in the field. Our findings highlight the potentially alarming consequences of flupyradifurone use in agriculture even at sub-lethal doses and underline the urgent need for improved risk assessment procedures.
DOI: 10.5061/dryad.xd2547djm
title: Decreasing species richness and positive Rapoport effects of Crambidae (Lepidoptera) on Mount Taibai

description: The vertical gradient pattern of species richness has been studied intensively over the past decades. Among these, Rapoport's rule is one of the important hypotheses of the patterns of species richness and macroecology, asserting the latitude or altitude distributional width of animal and plant species gradually narrows from a high latitude or high altitude area to low latitude or low altitude areas. However, altitudinal distributions and Rapoport’s rule have rarely been tested for Asian Lepidopterans. Pyraustinae and Spilomelinae (Lepidoptera: Crambidae) are widely distributed across the world's major geographic realms and some species pose serious economic problems. These crambids as model organisms are extremely diverse in temperate Asia including in Mount Taibai where is considered as an ideal area for studying the vertical distribution patterns of insect species and verifying the universality of Rapoport's rule from the perspective of spatial scale. Based on the investigation of altitudinal distribution data with identification by using both DNA barcoding and traditional classification of Pyraustinae and Spilomelinae, this paper determines the altitudinal gradient pattern for these two subfamilies on the north slope of Mount Taibai, and provides a test of the universality of Rapoport's rule in Lepidoptera by using four methods, including Stevens's method, Pagel's method, Rohde's method, and the cross-species method. Our results show that the abundance and α-diversity of Pyraustinae and Spilomelinae both decrease with rising altitude. By contrast, the species distribution ranges increase with rising altitude. Three of the four methods used to test Rapoport’s rule yield positive results, while Rohde's results show a unimodal distribution model and do not support Rapoport's rule. This may be due to the Mid-Domain effect.
description: Based on the investigation of altitudinal distribution data with identification by using both DNA barcoding and traditional classification of Pyraustinae and Spilomelinae, we adopted four commonly used methods to test for the impact of Rapoport effect on species range size, including the Stevens' method (Stevens, 1989), Pagel’s method (Pagel et al., 1991), Rohde's method (Rohde et al., 1993), and across-species method (Letcher & Harvey, 1994).
DOI: 10.5281/zenodo.8143129
title: Velocity data from GETM GBA set up

description: Sample surface velocity data from a GETM model of the Greater Bay Area region encompassing Hong Kong. Data for use with https://github.com/julianmak/ParcelsGETM_demo for a summer school demonstrating the use of the Parcels package (https://oceanparcels.org/)
DOI: 10.5281/zenodo.8143128
title: Velocity data from GETM GBA set up

description: Sample surface velocity data from a GETM model of the Greater Bay Area region encompassing Hong Kong. Data for use with https://github.com/julianmak/ParcelsGETM_demo for a summer school demonstrating the use of the Parcels package (https://oceanparcels.org/)
DOI: 10.5281/zenodo.6572662
title: Dataset (n=1671) of the publication "Engaging small-scale private forest owners for transformative change towards integrative conservation"

description: The excel file contains the replies of small-scale private forest owners in Lower Saxony, Germany, to certain questions of a survey analyzed within the following publication: “Engaging small-scale private forest owners for transformative change towards integrative conservation” .<br> <br> The questions and responses included in this dataset cover their objectives, management activities, perspectives, and forest stand structures. Further details are provided in the second sheet of the file called “Code explanation”.<br> <br> More information about the methods of data collection can be found in the before-mentioned publication.
description: The project "Small private forests: conservation through resource use (KLEIBER)" is funded by the German Federal Ministry of Food and Agriculture (BMEL) through the Agency of Renewable Resources (FNR) within the funding program "Renewable Resources" and according to a decision of the German Parliament (FKZ 22001218 and 22023218).
DOI: 10.5281/zenodo.6572661
title: Dataset (n=1671) of the publication "Engaging small-scale private forest owners for transformative change towards integrative conservation"

description: The excel file contains the replies of small-scale private forest owners in Lower Saxony, Germany, to certain questions of a survey analyzed within the following publication: “Engaging small-scale private forest owners for transformative change towards integrative conservation” .<br> <br> The questions and responses included in this dataset cover their objectives, management activities, perspectives, and forest stand structures. Further details are provided in the second sheet of the file called “Code explanation”.<br> <br> More information about the methods of data collection can be found in the before-mentioned publication.
description: The project "Small private forests: conservation through resource use (KLEIBER)" is funded by the German Federal Ministry of Food and Agriculture (BMEL) through the Agency of Renewable Resources (FNR) within the funding program "Renewable Resources" and according to a decision of the German Parliament (FKZ 22001218 and 22023218).
DOI: 10.34740/kaggle/dsv/5954738
title: Russian Voice Dataset
DOI: 10.5281/zenodo.7107312
title: OI 630 nm Airglow Images for 20120416 & 20130306

description: All-Sky Airglow Images of OI 630 nm emission nightglow from Ranchi (23.3º N, 85.3º E, mlat. ~19º N), India showing the resurgence of fossil depletions around midnight on 16 April 2012 and 06 March 2013.
DOI: 10.5281/zenodo.8143169
title: OI 630 nm Airglow Images for 20120416

description: All-Sky Airglow Images of OI 630 nm emission nightglow from Ranchi (23.3º N, 85.3º E, mlat. ~19º N), India, showing the resurgence of fossil depletions around midnight on 16 April 2012.
DOI: 10.5281/zenodo.8138248
title: Data set of phase-field studies of permeability evolution in open fractures during precipitation and dissolution

description: The numerical data in this repository consists of the simulation data of crystallization and dissolution processes in open fractures on microscale. The simulations were performed using the software package "Pace3D". The simulation data shows intermediate crystal growth and dissolution stages with fluid flow computations. The data was converted from Pace3D output data format to VTK data format. The VTK files can be visualized using open source software packages like Paraview. The data files in the zip-folders are also compressed (file format *.xz). For visualization the data has to be decompressed with e.g. xz or 7zip.
DOI: 10.5281/zenodo.8138247
title: Data set of phase-field studies of permeability evolution in open fractures during precipitation and dissolution

description: The numerical data in this repository consists of the simulation data of crystallization and dissolution processes in open fractures on microscale. The simulations were performed using the software package "Pace3D". The simulation data shows intermediate crystal growth and dissolution stages with fluid flow computations. The data was converted from Pace3D output data format to VTK data format. The VTK files can be visualized using open source software packages like Paraview. The data files in the zip-folders are also compressed (file format *.xz). For visualization the data has to be decompressed with e.g. xz or 7zip.
DOI: 10.5281/zenodo.8143217
title: crassadoma_gigantea_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.8143216
title: crassadoma_gigantea_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.8143215
title: OI 630 nm Airglow Images for 20120416

description: All-Sky Airglow Images of OI 630 nm emission nightglow from Ranchi (23.3º N, 85.3º E, mlat. ~19º N), India, showing the resurgence of fossil depletions around midnight on 16 April 2012.
DOI: 10.5281/zenodo.8143214
title: OI 630 nm Airglow Images for 20120416

description: All-Sky Airglow Images of OI 630 nm emission nightglow from Ranchi (23.3º N, 85.3º E, mlat. ~19º N), India, showing the resurgence of fossil depletions around midnight on 16 April 2012.
DOI: 10.5281/zenodo.8143107
title: Iron Age Funnelpendant Lower Rhine Valley

description: Catalog of the Funnelpendant found in the Lower Rhine Valley. This dataset was transformed into ArkeoGIS format during a Summer School on Research Data Management in Pre- and Protohistoric Archaeology at Kiel University co-organised by CRC1266 and Cluster of Excellence ROOTS. Conducted from 10-14th of July 2023. - artefacts_Nakoinz2004_Trichteranhaenger_epsg25832.csv: original data, digitalised from analog source - artefacts_Nakoinz2004_Trichteranhaenger_epsg25832.yaml: metadata - ArkeoGIS_Nakoinz_funnelpendant_2004_v2.csv: transformed data to match ArkeoGIS structure (in English)
description: {"references": ["Nakoinz, O. Hallstattzeitliche Trichteranh\u00e4nger am Niederrhein - eine semiotische Analyse Starigard Jahresber. FUFG 2003/2004, 2004, 145-161. (https://www.researchgate.net/publication/266796581_Hallstattzeitliche_Trichteranhanger_am_Niederrhein_-_eine_semiotische_Analyse_Starigard_Jahresber_FUFG_20032004_145-161)"]}
DOI: 10.5281/zenodo.8143106
title: Iron Age Funnelpendant Lower Rhine Valley

description: Catalog of the Funnelpendant found in the Lower Rhine Valley. This dataset was transformed into ArkeoGIS format during a Summer School on Research Data Management in Pre- and Protohistoric Archaeology at Kiel University co-organised by CRC1266 and Cluster of Excellence ROOTS. Conducted from 10-14th of July 2023. - artefacts_Nakoinz2004_Trichteranhaenger_epsg25832.csv: original data, digitalised from analog source - artefacts_Nakoinz2004_Trichteranhaenger_epsg25832.yaml: metadata - ArkeoGIS_Nakoinz_funnelpendant_2004_v2.csv: transformed data to match ArkeoGIS structure (in English)
description: {"references": ["Nakoinz, O. Hallstattzeitliche Trichteranh\u00e4nger am Niederrhein - eine semiotische Analyse Starigard Jahresber. FUFG 2003/2004, 2004, 145-161. (https://www.researchgate.net/publication/266796581_Hallstattzeitliche_Trichteranhanger_am_Niederrhein_-_eine_semiotische_Analyse_Starigard_Jahresber_FUFG_20032004_145-161)"]}
DOI: 10.5061/dryad.08kprr51q
title: Relationships between allometric patterns of the submerged macrophyte Vallisneria natans, its stoichiometric characteristics, and the water exchange rate

description: Variation in the water exchange rate (WER) of freshwater lakes has recently been demonstrated to affect the phenotypic traits of submerged macrophytes. However, whether these responses are size-dependent (“apparent plasticity”） or not (“real plasticity”) remains unclear. Here, we used allometric analysis to investigate phenotypic plasticity, and the carbon, nitrogen, and phosphorus stoichiometry of the submerged macrophyte Vallisneria natans cultured for 15, 30, 45, and 65 days under three levels of WER (0, 20, and 40% exchange of total volume day-1). Result showed that biomass accumulation, below-: above-ground biomass ratio, root length, root diameter, leaf length, and leaf width significantly decreased with increasing WER; however, specific root length was unaffected, and specific leaf area (SLA) gradually increased with increasing WER through the whole experiment. Allometric analyses showed that shifts in leaf width and SLA were determined solely by changes in plant size; all other morphological adjustments were largely size-dependent. Stoichiometric calculations indicated that ramets were mainly N-limited, and this limitation was significantly associated with leaf growth, thereby restricting the potential for real plasticity in leaf morphologies. Thus, V. natans adapts to WER variation largely through apparent plastic responses that reduce the demand for plant nutrients.
DOI: 10.5255/ukda-sn-856592
title: GP Patient Survey, 2023

description: The GP Patient Survey is a large-scale postal survey run by Ipsos on behalf of NHS England. This year the survey received responses from around 760,000 adults in England. It looks at patient experiences of their GP practice and other local NHS services. The results from the latest publication of the survey were released on 13 July 2023. The most recent reports and survey materials can be found on the GP Patient Survey website. Data is currently available nationally, at Integrated Care System (ICS), Primary Care Network (PCN) and practice-level. The analysis tool also enables users to look at the survey in more detail (at national, ICS, PCN and practice levels), view the results by specific sub-groups, run bespoke crosstabulations and analyse trends.
DOI: 10.5061/dryad.59zw3r26s
title: Constrained flexibility of parental cooperation limits evolutionary responses to harsh conditions

description: Parental care is predicted to evolve to mitigate harsh environments, thus adaptive plasticity of care may be an important response to our climate crisis. In biparental species, fitness costs may be reduced with plasticity of behavior among partners. We investigated this prediction with the burying beetle, Nicrophorus orbicollis, by exposing them to contrasting benign and harsh thermal environments. We found strong fitness costs under the harsh environment, but rather than select for more care, visualized selection was stabilizing. Examining different components of care revealed positive directional selection for direct care and strong stabilizing selection for indirect care, resulting in constrained evolutionary responses. Further, because males and females did not coordinate their investments, the potential for adaptive plasticity was not enhanced under biparental care. Females cared at capacity with or without male partners, while males with partners reduced direct care but maintained indirect care levels. Decision rules were not altered in different environments, suggesting no shift from sexual conflict to cooperation. We suggest that the potential for parenting to ameliorate the effects of our climate crisis may depend on the sex-specific evolutionary drivers of parental care, and that this may be best reflected in components of care.
description: Data were collected as described in Moss and Moore 2021. Briefly, we used a mixed factorial design in which social condition (uniparental or biparental) was measured as a within-subject factor and thermal environment (benign or harsh) was measured as a between-subject factor. Hence, individual males and females were observed in two independent trials. Data were filtered and analyzed in R, beginning with the removal of any trials that failed due to errors in setup and the flagging of repeated measures to control for breeding history. Data were then analyzed for evidence of fitness costs (using survival analysis and tests of variation in potential/realized reproductive rates), differences in selection (using standardized selection gradients), and variation in plasticity (using repeated measures ANOVAs and MANOVAs).
description: Behavioral_Exp_Data.xlsx is the Excel file of the data. Behavioral_Exp_Data.csv is the csv file, used as input to the R script. Behavioral_Exp_Analysis_-_DataDryad.R is the R script for analysis.
DOI: 10.6084/m9.figshare.23661111.v1
title: Supplementary Material for: Effect of first-line therapy with osimertinib for a metastatic choroidal tumor in advanced-stage lung cancer: A case report

description: Although the advent of molecular-targeted drugs has improved the prognosis of various cancers, the long-term prognosis and side effects as first-line therapy for metastatic choroidal tumors remain unclear. We describe a case in which first-line therapy of osimertinib has shown long-term successful and minimum side effect responses for metastatic choroidal tumors in a patient with advanced-stage lung cancer. The patient was a 62-year-old man who complained of foggy vision and visual field defects in his left eye for one month. When he visited his local doctor, a serous retinal detachment was noted in the left eye, and he was referred to our hospital for further examination. The patient had no history of systemic disease. A fundus examination of his left eye showed a slightly elevated choroidal lesion along with the superior retinal vascular arcade. Optical coherence tomography showed a serous retinal detachment around the lesion. Fluorescein angiography showed that the site of the lesion had spotty and mottled hyperfluorescence in the early phase and ring hypofluorescence in the late phase. We suspected a metastatic choroidal tumor and performed a whole-body computed tomography scan, which indicated lung cancer and metastasis to the left iliac bone. The patient was referred to the department of respiratory medicine of our hospital, and after a thorough examination, a diagnosis of lung adenocarcinoma (stage IV-B, epidermal growth factor receptor (EGFR) gene mutation positive) was made. Treatment with osimertinib was initiated, and shrinkage of the primary tumor was observed. The elevated choroidal lesion and serous retinal detachment resolved after two months of treatment, and no recurrence was observed during the 20 months of treatment. The use of osimertinib as primary treatment for EGFR mutation-positive lung cancer was found to significantly reduce the size of metastatic choroidal tumors and to have a relatively long-lasting antitumor effect without serious ocular complications.