cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17026/dans-xh4-zdtn
title: Wheat 2012 outdoor (MSc thesis)

description: This dataset contains the underlying data for the MSc thesis:Effects of population density on tillering in wheat and barley.Tillering is the formation of lateral shoots from the base of the stem which is produced specially in grasses and cereals. It is an important property in crops (cereals and grasses) of the Poaceae family. It enables these crops to cope with intraspecific competition by optimizing the formation of ear-bearing shoots in relation to the resources available.The present study investigates the effects of plant population density on the tillering of wheat and barley species. More specifically it studies the kinetics of tiller appearance, the probability of tiller occurrence and the cessation of tiller appearance in relation to the light conditions inside the canopy (in terms of photosynthetically active radiation (PAR) intercepted and red : far-red ratio). Furthermore, tiller appearance is related to morphological characteristics of the plant.The experiment was conducted in Wageningen (The Netherlands) in July and August 2012. Spring wheat plants (Triticum aestivum L., cv. ‘Aurum’) and barley plants (Hordeum vulgare L., cv. ‘Quench’) were grown in containers of 70 x 90 cm. For both plant species, seeds were grown at three population densities: 100, 262 and 508 plants m-2. Leaf length, light intercepted by the canopy and relative red : far-red was monitored during the two months of experiment. At the end of the experiment, morphological characteristics of the monitored plants was measured.The conclusion of the present study was that competition for light had an effect on the production and senescence of tillers per plant. An increase in population density caused a reduction of light intensity and of light quality (lower red : far-red ratio) inside of the canopy that turned into a reduction of the number of tillers per plant. Different tiller dynamics were observed between wheat and barley (genetic variation): barley seemed to have a better sense of intraspecific competition. Furthermore, a correlation between final internode length of the plants and production of primary tillers was observed.
DOI: 10.17026/dans-xf5-qdxd
title: Trait-based projections of climate change effects on global biome distributions

description: Climate change will likely modify the global distribution of biomes, but the magnitude of change is debated. In the paper belonging to this dataset, we followed a trait-based, statistical approach to model the influence of climate change on the global distribution of biomes.Step 1. We predicted the global distribution of plant community mean specific leaf area (SLA), height, and wood density as a function of climate and soil characteristics using an ensemble of statistical models.Step 2. We predicted the probability of occurrence of biomes as a function of the three traits with a classification model.Step 3. We projected changes in plant community mean traits and corresponding changes in biome distributions to 2070 for low (RCP 2.6; +1.2°C) and extreme (RCP 8.5; +3.5°C) future climate change scenarios.Four R scripts are added to this dataset, starting with step two described in the paper: from traits to vegetation types (Traits.to.VegT.R). Input for this file is the csv file: all.trait.predictions.untransformed.csv which includes the predictions for community mean trait values for Specific Leaf Area (SLA), height and wood density, for the current climate and under the predictions under a climate change scenario with RCP2.6 and RCP8.5.
DOI: 10.17026/dans-xsf-d4px
title: ototopical drops containing a novel antibacterial synthetic peptide: safety and efficacy in aduts with chronic suppurative otitis media

description: Objective Chronic suppurative otitis media (CSOM) is a chronic infectious disease with worldwide prevalence and that causes hearing loss and decreased quality of life. As current (antibiotic) treatments are often not successful and antibiotic resistance is emerging, alternative agents and/or strategies are urgently needed. We considered the synthetic antimicrobial and anti-biofilm peptide P60.4Ac an interesting candidate as it also displays anti-inflammatory activities including lipopolysaccharide-neutralizing activity. The aim of the present study was to investigate the safety and efficacy of ototopical drops containing P60.4Ac in adults with CSOM without cholesteatoma. Methods We conducted a limited dose-finding study and subsequently a randomized, double blinded, placebo-controlled, multicenter phase IIa study. P60.4Ac-containing or placebo ototopical drops were applied twice a day for 2 weeks and adverse events (AEs) and medication use were recorded; laboratory tests, swabs from the middle ear and throat for bacterial cultures, and audiometry were performed at various intervals up to 10 weeks after therapy. Response to treatment was assessed by blinded symptom scoring on otoscopy. Results Direct application of P60.4Ac-containing ototopical drops (range 0.25-2.0 mg of peptide/ml) on the tympanic membrane was safe and well-tolerated. The optimal dose , i.e.0.5 mg of peptide/ml, was selected for the subsequent phase IIa study. Safety evaluation revealed only a few AEs that were unlikely related to study treatment and all, except one, were of mild to moderate intensity. Further to this excellent safety profile, P60.4Ac ototopical drops resulted in a treatment success in 47% of cases, versus 6% in the placebo group. Conclusion The efficacy/safety balance assessed in the present study provides a compelling justification for continued clinical development of P60.4Ac in therapy-resistant CSOM.
DOI: 10.17026/dans-zge-35as
title: Effects of sialidase inhibition by oseltamivir phosphate on platelet recovery and markers of plasma leakage in adults Indonesian patients with dengue (TOTO trial)

description: The dataset contains the results from a randomised controlled trial assessing the effects of the sialidase inhibitor oseltamivir on the recovery of platelet counts and parameters of plasma leakage in Indonesian adult patients with acute dengue infection (TOTO trial). A total number of 70 patients with a platelet count &lt;70 x 10^9/L and a duration of illness &lt;7 days were randomized between oseltamivir phosphate 75mg BID or placebo for a maximum of five days. Primary outcomes were the time to platelet recovery (platelet count ≥ 100 x 109/l) or discharge from hospital and the course of measures of plasma leakage (measured by daily ultrasound, hematocrit, plasma albumin and syndecan-1 concentrations). A blood count was performed twice daily; maximum follow-up was five days. More details on the trial are given in https://doi.org/10.1186/ISRCTN35227717
DOI: 10.17026/dans-xrr-br4c
title: Implementation of the Coach2Move approach in daily clinical practice

description: Goal of this study was to assess if the (cost-)effectiveness of a personalized physical therapy approach (Coach2Move) compared to usual care physical therapy (UCP), as demonstrated in a previous trial, could be replicated. This was done using a multicenter cluster-randomized stepped wedge trial with four clusters consisting of four physical therapy practices in the Netherlands comparing a personalized physical therapy approach to elicit physical activity (Coach2Move) versus care as usual. Multilevel analyses for effectiveness were conducted for the amount of physical activity (LASA Physical Activity Questionnaire) and functional mobility (Timed Up and Go test) at 3, 6 (primary outcome), and 12 months follow-up. Secondary outcomes were level of frailty (Evaluative Frailty Index for Physical Activity), perceived effect (Global Perceived Effect and Patient Specific Complaints questionnaire), quality of life (EQ-5D-5L) and healthcare expenditures. A total of 292 community-dwelling older adults with mobility problems visiting physical therapists were included in either the Coach2Move (n=112, mean (SD) age 82 (5) years; 60% female) or UCP (n=180, mean age 81 (6) years; 62% female) section of the trial.
DOI: 10.17026/dans-xmu-z4yy
title: Invasive Australian swamp stonecrop (Crassula helmsii) negatively affects spawning but accelerates larval growth of the endangered natterjack toad (Epidalea calamita)

description: C. helmsii often invades the breeding habitat of endangered amphibians, such as Epidalea calamita. However, effects on natterjack population were unclear. The spawning rate, egg survival and the speed of larval growth of this toad species in relation to the presence of C. helmsii were studied.For this study we’ve measured temperature (by temperature data loggers) and chemical properties (by ICP- and AA analysis) of the water, as affected by C. helmsii. Additionally we’ve measured numbers of spawning, egg survival and larval sizes to investigate larval growth rate performing an exclosure experiment at a field location (Gijzenrooise zegge).*The data appropriate to this article may contain Dutch notes. For an English explanation, please contact the author of the dataAbstract of the paper:The invasive Crassula helmsii is expanding in Europe. Several ecological effects are described, most of which focus on ecosystem functioning and native vegetation but rarely on fauna. In North-western Europe, C. helmsii often invades the breeding habitat of endangered amphibians, such as Epidalea calamita. The spawning rate, egg survival and the speed of larval growth of this toad species in relation to the presence of C. helmsii were studied. In order to unravel causal mechanisms, the outcome is related to temperature and chemical properties of the water, as affected by C. helmsii. Spawning and egg survival were significantly lower in case of C. helmsii dominance compared to bare soil conditions, and negatively affected the population size of E. calamita. However, larval growth rate was significantly higher in C. helmsii dominated treatments, which could be beneficial for tadpoles. Differences in water temperature and chemistry were a possible explanation for these effects. It remains unclear whether the population viability of E. calamita is negatively affected when C. helmsii is present. In many areas, however, this plant species completely overgrows and causes desiccation of waterbodies. Therefore, appropriate management measures will be required to protect this toad against this invader.
DOI: 10.17026/dans-xb9-zpmw
title: Genetic progress in Dutch crop yields

description: This dataset contains the underlying data for the study: Rijk, B., Ittersum, M. van, Withagen, J. "Genetic progress in Dutch crop yields". Field Crops Research 149 (2013) 262–268, http://dx.doi.org/10.1016/j.fcr.2013.05.008Crop yields are a result of interactions between genetics, environment and management (G × E × M). As in the Netherlands differences between potential yield and actual farm yields (yield gaps) are relatively small, progress in genetic potential is essential to further increase farm yields. In this paper we study the progress in yields of newly released varieties in official Dutch variety trials as a proxy for the progress in genetic yield potential, i.e., yield under absence of water and nitrogen limitation and pests and diseases. The use of yields from variety trials as a proxy for genetic yield potential is justified as these are well managed and because water is hardly limiting under Dutch climate–soil conditions. We compared the genetic yield progress of winter wheat (Triticum aestivum L.), spring barley (Hordeum vulgare L.), ware and starch potato (Solanum tuberosum L.) and sugar beet (Beta vulgaris L.) over the past ca. 30 years (ca. 1980–2010) with the developments in on-farm yields over the same period. GenStat 14th edition was used to perform modified joint regression analyses (mjra) and residual (or restricted) maximum likelihood (reml) analyses of yields in order to separate year (i.e., climate and/or management) effects from variety effects. Genetic progress in yield has been linear with ca. 100 and 60 kg ha−1 year−1 (15% moisture), respectively, for winter wheat and spring barley, 580 kg ha−1 year−1 payment weight for starch potato, and, partly non-linear for sugar beet, i.e., 80–170 kg sugar ha−1 year−1 depending on resistance type of the varieties. We also analyzed significant year effects (corrected for genetic progress) for most crops in the variety trials, which point at an effect of climate (environment) and/or management in addition to the genetic effect. Farm yields of winter wheat, spring barley and starch potato have increased linearly over the last decades, with ca. 90, 70 and 320 kg ha−1 year−1 (in the same units as above). Increase in sugar yields on farms was concave (20–230 kg ha−1 year−1) and spectacular over the last 10 years. For ware potatoes the genetic yield increase was only 20 kg dry matter ha−1 year−1 and reliable farm statistics for dry matter yields are lacking. We conclude that for the main crops in the Netherlands genetic progress in yield potential of varieties newly released over the past three decades has been substantial and largely linear. Farm yields for these crops also continued to increase, at approximately the same rates, but could not always keep pace with the combined genetic and year effects (G × E × M) in variety trials, suggesting a widening yield gap.
DOI: 10.17026/dans-z3z-n3k2
title: Data from: A 7000-year history of changing plant trait composition in an Amazonian landscape; the role of humans and climate

description: Tropical forests are shifting in species and trait composition, but the main underlying causes remain unclear because of the short temporal scales of most studies. Here, we develop a novel approach by linking functional trait data with 7000 years of forest dynamics from a fossil pollen record of Lake Sauce in the Peruvian Amazon. We evaluate how climate and human disturbances affect community trait composition. We found weak relationships between environmental conditions and traits at the taxon level, but strong effects for community-mean traits. Overall, community-mean traits were more responsive to human disturbances than to climate change; human-induced erosion increased the dominance of dense-wooded, non-zoochorous species with compound leaves, and human-induced fire increased the dominance of tall, zoochorous taxa with large seeds and simple leaves. This information can help to enhance our understanding of forest responses to past environmental changes, and improve predictions of future changes in tropical forest composition.
DOI: 10.17026/dans-x3c-f34w
title: Data from "The CHD8/CHD7/Kismet family links blood-brain barrier glia and serotonin to ASD-associated sleep defects"

description: In this dataset we provide the original z-stacks of anti-serotonin stainings used in the article by Coll-Tan? and colleagues entitled ?The CHD8/CHD7/Kismet family links blood-brain barrier glia and serotonin to ASD-associated sleep defects? (doi: 10.1126/sciadv.abe2626).In this paper we show that Kismet-related sleep disturbances are caused by high serotonin during development, paralleling a well-established but genetically unsolved autism endophenotype.In order to investigate serotonin levels during development, we performed anti-serotonin fluorescence immunohistochemistry and quantitative imaging (via photon counting, see Materials and Methods), in pan-glial and SPG-specific kismet knockdown wandering third instar larvae. We focused on the projections of serotonergic neurons of the subesophagal ganglion that innervate the proventriculus and anterior midgut of the larval digestive tract. In controls, serotonin was visible in the proventricular nerve and at the level of proventricular innervations, but absent or hard to discern in the distal projections that innervate the anterior midgut. In contrast, loss of glial Kismet led to elevated serotonin signal, with serotonergic midgut innervations strongly labeled. As the innervated tissues appeared to show slightly higher levels of staining too, we quantified total signal intensities of ?-serotonin signal across the proventriculus and in the anterior midgut, containing both the serotonergic terminals and the innervated tissues. We observed significantly increased serotonin at the midgut region of pan-glial kismet knockdown larvae. Similarly, serotonin was significantly increased at the level of the proventriculus and midgut of SPG-specific kismet knockdown larvae. Together, these results demonstrate that Kismet loss in glia leads to increased serotonin during development.
DOI: 10.17026/dans-xwt-z3fg
title: Data used for Human and chimpanzee shared and divergent neurobiological systems

description: Brain Connectivity as used inHuman and chimpanzee shared and divergent neurobiological systems for general and specific cognitive brain functions
DOI: 10.17026/dans-ztg-whpz
title: Improving Professional Attitude through Addiction Medicine Education among Medical Students in Jakarta, Indonesia

description: This is the dataset of a prospective experimental case-control study. The purpose of this study was to evaluate the effect of addiction medicine training on medical students’ attitude towards addiction and perception of addiction. Participants were fourth-year medical students of Atma Jaya Catholic University of Indonesia. They were recruited in 2014 from three elective blocks: addiction medicine (n=40), healthcare entrepreneurship (n=35) and palliative care (n=33). The addiction medicine block was the intervention and the other two blocks (healthcare entrepreneurship and palliative care) formed the control condition. Participants were not randomly distributed because they could enrol in the block of their preference.The dataset consists of the score of attitude and perception related with addiction of participants from the intervention and control group. The data was collected from two measurements, before (baseline) and after (follow-up) the elective blocks (five weeks of duration). All participants were asked to fill in two questionnaires, the medical condition regard scale (MCRS) and the illness perception questionnaire addiction version (IPQ-A). The MCRS was used to measure the attitude towards addiction among participants. This instrument consists of 11 items on a six-point Likert’s scale (1: strongly disagree to 6: strongly agree). The MCRS produces a one-dimensional scale, named regard scale, which reflects the attitude towards medical condition (addiction). The IPQ-A was used to measure perceptions of addiction. The IPQ-A consists of two domains: perception (37 items) and attribution (15 items). A five-point Likert scale (1: strongly disagree to 5: strongly agree) is used for each item. The IPQ-A has eight subscales for the perception domain and four subscales for the attribution domain. The perception subscales are: emotional representations, demoralization, illness coherence, consequences, timeline chronic, personal control, timeline cyclical, and treatment control. The attribution subscales are psychological attribution, risk factors, smoking/alcohol, and overwork.The effect of addiction medicine training on attitude and perceptions of addiction was evaluated using the repeated measures multivariate analysis of variances. The relationship between the development in attitude towards addiction and the change of illness perceptions of addiction within the intervention group were evaluated using Pearson's correlation analysis.
DOI: 10.17026/dans-zw7-ja63
title: The Ecosystem Resilience Approach (ERA) to control the invasive Australian swamp stonecrop (Crassula helmsii)

description: The invasive Australian swamp stonecrop (Crassula helmsii) threatens species characteristic of shallow soft water lakes and pools in Europe. Eradication of this plant is, however, difficult and costly once a large population has established. For this reason, we here explore a novel ecosystem resilience approach (ERA) to control this species. These datasets contain information about the first field performances of the ERA. Effectiveness of the ERA is measured by determining the cover (%) of the invasive species and the introduced and naturally established native vegetation after the introduction of a competing species in field plots. Additionally we’ve observed and measured field characteristics (soil- and water nutrient content by AA- and ICP analysis) to describe difference between the treated locations. *The data appropriate to this article may contain Dutch notes. For an English explanation, please contact the author of the dataAbstract of paper: The invasive Australian swamp stonecrop (Crassula helmsii) threatens species characteristic of shallow soft water lakes and pools in Europe. Anthropogenic disturbances of these ecosystems cause open niches in their littoral zones and allow C. helmsii to form dominant stands, especially under nutrient enrichment. Eradication of this amphibious and clonal plant is, however, difficult and costly once a large population has established. For this reason, we here explore a novel ecosystem resilience approach (ERA) to control this species. This approach includes supressing the species by facilitating the occurrence and expansion of native vegetation. This requires a set-back of C. helmsii’s abundance by actively reducing its biomass, and the rehabilitation of optimal environmental conditions for native species. Our ERA study in four nature areas shows that restoring abiotic conditions, a one-time reduction of C. helmsii’s biomass and the introduction of native species makes the ecosystem more resilient against invasions, as shown by less recolonization of this invasive plant species. Therefore, we state that ERA can effectively be applied in practice to decrease the invasibility of ecosystems by C. helmsii. Effectiveness, costs and benefits, and recommendations for application in practice are discussed. Overall, we argue that incorporating ERA in nature- and water management will provide more sustainable solutions in terms of biodiversity as well as economics for invasive species prevention and control.
DOI: 10.17026/dans-zyu-xkhc
title: Kenya public weather processed by the Global Yield Gap Atlas project (revised version)

description: The Global Yield Gap Atlas project (GYGA - http://yieldgap.org) has undertaken a yield gap assessment following the protocol recommended by van Ittersum et al. (2013). One part of the activities consists of collecting and processing weather data as an input for crop simulation models in sub-Saharan African countries including Kenya. This publication covers daily weather data for 12 locations in Kenya for the years 1998-2012. The project looked for good quality weather data in areas where crops are pre-dominantly grown. As locations with good public weather data are sparse in Africa, the project developed a method to generate bias corrected weather data from a combination of observed data and other external weather data. The bias corrected weather data consist of daily TRMM rain data and NASA POWER Tmax, Tmin, and Tdew data. These data are corrected based on calibrations with short-term (10 years) observed weather data.