bluuebunny/crossref_metadata_2025_split huggingface dataset:
Climate Change Mitigation through Land Use on Rewetted Peatlands – Cross-Sectoral Spatial Planning for Paludiculture in Northeast Germany
Authors: Tanneberger Franziska , Schröder Christian , Hohlbein Monika , Lenschow † Uwe , Permien Thorsten , Wichmann Sabine , Wichtmann Wendelin 
Published: July 2020

AbstractDrainage of peatlands causes severe environmental damage, including high greenhouse gas emissions. Peatland rewetting substantially lowers these emissions. After rewetting, paludiculture (i.e. agriculture and forestry on wet peatlands) is a promising land use option. In Northeast Germany (291,361 ha of peatland) a multi-stakeholder discussion process about the implementation of paludiculture took place in 2016/2017. Currently, 57% of the peatland area is used for agriculture (7% as arable land, 50% as permanent grassland), causing greenhouse gas emissions of 4.5 Mt CO2eq a−1. By rewetting and implementing paludiculture, up to 3 Mt CO2eq a−1from peat soils could be avoided. To safeguard interests of both nature conservation and agriculture, the different types of paludiculture were grouped into ‘cropping paludiculture’ and ‘permanent grassland paludiculture’. Based on land legislation and plans, a paludiculture land classification was developed. On 52% (85,468 ha) of the agriculturally used peatlands any type of paludiculture may be implemented. On 30% (49,929 ha), both cropping and permanent grassland paludiculture types are possible depending on administrative check. On 17% (28,827 ha), nature conservation restrictions allow only permanent grassland paludiculture. We recommend using this planning approach in all regions with high greenhouse gas emissions from drained peatlands to avoid land use conflicts.
LARGE-LOSS BEHAVIOR OF CONDITIONAL MEAN RISK SHARING
Authors: Denuit Michel , Robert Christian Y. 
Published: July 2020

AbstractWe consider the conditional mean risk allocation for an insurance pool, as defined by Denuit and Dhaene (2012). Precisely, we study the asymptotic behavior of the respective relative contributions of the participants as the total loss of the pool tends to infinity. The numerical illustration in Denuit (2019) suggests that the application of the conditional mean risk sharing rule may produce a linear sharing in the tail of the total loss distribution. This paper studies the validity of this empirical finding in the class of compound Panjer–Katz sums consisting of compound Binomial, compound Poisson, and compound Negative Binomial sums with either Gamma or Pareto severities. It is demonstrated that such a behavior does not hold in general since one term may dominate the other ones conditional of large total loss.
Case Nos. 2 BvR 2115/01, 2 BvR 2132/01, & 2 BvR 348/03.60 Neue Juristische Wochenschrift 499 (2007)
Authors: Bodansky Daniel , Gärditz Klaus Ferdinand 
Published: July 2020

Case Nos.2 BvR 2115/01, 2 BvR 2132/01, & 2 BvR 348/03.60 Neue Juristische Wochenschrift 499 (2007). At <http://www.bundesverfassungsgericht.de>.Bundesverfassungsgericht (Federal Constitutional Court of Germany), September 19, 2006.On September 19, 2006, the Federal Constitutional Court of Germany (Bundesverfassungsgericht) held in jointly decided Case Nos. 2 BvR 2115/01, 2 BvR 2132/01, & 2 BvR 348/03 that a failure to provide consular information to foreign nationals pursuant to Article 36 of the Vienna Convention on Consular Relations (VCCR) violates the guarantee of a fair trial as provided by the German Constitution (Grundgesetz). The result is in contrast to a recent U. S. Supreme Court decision in Sanchez-Llamas v. Oregon, a strikingly similar case.The defendants, two nationals of Turkey and two of Serbia-Montenegro, were arrested in the course of different criminal investigations. They were informed of their rights as defendants as guaranteed by Germany's law of criminal procedure. The prosecuting authorities failed, however, to provide information on the defendants’ right to contact the consular staffs of their own countries in compliance with the VCCR. Three defendants were found guilty of murder and sentenced to lifetime imprisonment by the district court (Landgericht) of Braunschweig. The district court of Hamburg found the fourth defendant guilty of a robbery that resulted in the death of a victim, and sentenced him to eleven years’ imprisonment. Since the defendants refused to make statements, the criminal courts relied, inter alia, on the testimony of the police officers questioning the defendants after their various arrests. During the subsequent criminal proceedings, the defendants, presumably out of ignorance, made no attempt to invoke their consular rights, and the district courts seemed to be equally unaware of those rights.
Distribution and impact of invasive alien plant species in Bardia National Park, western Nepal
Authors: Bhatta Suneeta , Joshi Laxmi Raj , Shrestha Bharat Babu 
Published: July 2020

SummaryInvasive alien plant species (IAPS) are spreading into protected areas worldwide; however, knowledge of these invasions and their impacts in Nepal’s protected areas is poor. Here, the spatial distribution pattern of IAPS in Bardia National Park (BNP), Nepal, was analysed using roadside surveys and grid sampling. The impacts of the most abundant IAPS, Lantana camara, on plant communities were analysed by comparing 60 pairs of non-invaded and invaded quadrats. Twelve IAPS, including two of the most prolific species globally, L. camara and Chromolaena odorata, were recorded from BNP. The Karnali floodplain in the south-western region of the park, a prime habitat of one-horned rhinoceros, was highly invaded by the IAPS. Tree canopy and distance to road, river and settlement were the major factors affecting IAPS occurrence. Lantana camara modified plant community structure and significantly reduced plant species richness and diversity; species richness of native plants was reduced to less than half in invaded plots. Plant invasions and impacts on native plant diversity have been increasing in BNP. We recommend management interventions involving immediate eradication of C. odorata and other species with single satellite populations and control measures for other widespread species such as L. camara and Ageratum houstonianum.
The effect of an instantaneous dependency rate on the social equitability of hybrid PAYG public pension schemes
Authors: Torricelli Lorenzo 
Published: July 2020

AbstractThe defined convex combination (DCC) pay-as-you-go public pension systems recently introduced in the literature are a form of hybridization between defined benefit (DB) and defined contribution (DC) designed to maintain intergenerational social equitability by reacting to demographic shocks in an optimal way. In this paper, we augment DCC schemes with the assumption that the dependency ratio between pensioners and workers is driven by an exogenously modelled instantaneous stochastic rate of change. This assumption enjoys support from the empirical data and allows explicit solutions for the contribution and replacement rate processes which make transparent the nature of the dynamic evolution of a DCC system, as well as the role of the variables involved. The analysis of intergenerational social equitability measures under the assumption of an instantaneous dependency rate confirms the view expressed in previous literature that neither DB nor DC achieves social fairness, and that DCC plans have the potential to improve on both. We perform a calibration test, and our findings seem to indicate that in ageing economies the DC system might indeed be superior to the DB one in terms of intergenerational fairness.
Theresienstadt: A Geographical Picture of Transports, Demography, and Communicable Disease in a Jewish Camp-Ghetto, 1941–45
Authors: Smallman-Raynor Matthew R. , Cliff Andrew D. 
Published: July 2020

AbstractThe Nazi ghetto system was one of the principal vehicles for the persecution of Jewish and other peoples in German-occupied Europe in World War II. Transport and confinement—twin pillars of the ghetto system—were intrinsically geographical matters that operated on scales from the international to the local and that shaped the demographic and epidemiological character of ghettos across Eastern Europe. This article uses geographical techniques of map-based visualization and spatial analysis to portray the demographic and epidemic history of the Nazi “model” camp-ghetto at Theresienstadt (Terezín) in the former German Protectorate of Bohemia and Moravia, 1941–45. Our study reconstructs the space-time pattern and demographic structure of transports of Jewish prisoners to the ghetto and their association with substantial outbreaks of communicable diseases in the ghetto. The study highlights the importance of a geographical approach to an understanding of the demographic and public health impacts of both the Holocaust and other genocidal events.
Development of new predictive equations for basal metabolic rate in	Iranian healthy adults: negligible effect of sex
Authors: Nikooyeh Bahareh , Shariatzadeh Nastaran , Kalayi Ali , Zahedirad Maliheh , Neyestani Tirang R. 
Published: July 2020

Abstract. Some studies have reported inaccuracy of predicting basal metabolic rate (BMR) by using common equations for Asian people. Thus, this study was undertaken to develop new predictive equations for the Iranian community and also to compare their accuracy with the commonly used formulas. Anthropometric measures and thyroid function were evaluated for 267 healthy subjects (18–60 y). Indirect calorimetry (InCal) was performed only for those participants with normal thyroid function tests (n = 252). Comparison of predicted RMR (both kcal/d and kcal.kg.wt−1.d−1) using current predictive formulas and measured RMR revealed that Harris-Benedict and FAO/WHO/UNU significantly over-estimated and Mifflin-St. Jeor significantly under-estimated RMR as compared to InCal measurements. In stepwise regression analysis for developing new equations, the highest r2 (=0.89) was from a model comprising sex, height and weight. However, further analyses revealed that unlike the subjects under 30 y, the association between age and the measured RMR in subjects 30 y and plus was negative (r = −0.241, p = 0.001). As a result, two separate equations were developed for these two age groups. Over 80 percent of variations were covered by the new equations. In conclusion, there were statistical significant under- and over-estimation of RMR using common predictive equations in our subjects. Using the new equations, the accuracy of the calculated RMR increased remarkably.
Associations of movement behaviors and body mass index: comparison between a report-based and monitor-based method using Compositional Data Analysis
Authors: Kim Youngwon , Burns Ryan D. , Lee Duck-chul , Welk Gregory J. 
Published: July 2020

Abstract
Background/objectives
Evidence on the associations between lifestyle movement behaviors and obesity has been established without taking into account the time-constrained nature of categorized, time-based lifestyle behaviors. We examined the associations of sleep, sedentary behavior (SED), light-intensity physical activity (LPA), and moderate-to-vigorous PA (MVPA) with body mass index (BMI) using Compositional Data Analysis (CoDA), and compared the associations between a report-based method (24-h Physical Activity Recall; 24PAR) and a monitor-based method (SenseWear Armband; SWA).

Subjects/methods
Replicate data from a representative sample of 1247 adults from the Physical Activity Measurement Survey (PAMS) were used in the study. Participants completed activity monitoring on two randomly selected days, each of which required wearing a SWA for a full day, and then completing a telephone-administered 24PAR the following day. Relationships among behavioral compositional parts and BMI were analyzed using CoDA via multiple linear regression models with both 24PAR and SWA data.

Results
Using 24PAR, time spent in sleep (γ = −3.58, p = 0.011), SED (γ = 3.70, p = 0.002), and MVPA (γ = −0.53, p = 0.018) was associated with BMI. Using SWA, time spent in sleep (γ = −5.10, p < 0.001), SED (γ = 8.93, p < 0.001), LPA (γ = −3.12, p < 0.001), and MVPA (γ = −1.43, p < 0.001) was associated with BMI. The SWA models explained more variance in BMI (R2 = 0.28) compared with the 24PAR models (R2 = 0.07). The compositional isotemporal substitution models revealed reductions in BMI when replacing SED by MVPA, LPA (not with 24PAR) or sleep for both 24PAR and SWA, but the effect estimates were larger with SWA.

Conclusions
Favorable levels of relative time spent in lifestyle movement behaviors were, in general, associated with decreased BMI. The observed associations were stronger using the monitor-based SWA method compared with the report-based 24PAR method.
Signal-transducing adapter protein-1 is required for maintenance of leukemic stem cells in CML
Authors: Toda Jun , Ichii Michiko , Oritani Kenji , Shibayama Hirohiko , Tanimura Akira , Saito Hideaki , Yokota Takafumi , Motooka Daisuke , Okuzaki Daisuke , Kitai Yuichi , Muromoto Ryuta , Kashiwakura Jun-ichi , Matsuda Tadashi , Hosen Naoki , Kanakura Yuzuru 
Published: July 2020

AbstractThe family of signal-transducing adapter proteins (STAPs) has been reported to be involved in a variety of intracellular signaling pathways and implicated as transcriptional factors. We previously cloned STAP-2 as a c-Fms interacting protein and explored its effects on chronic myeloid leukemia (CML) leukemogenesis. STAP-2 binds to BCR-ABL, upregulates BCR-ABL phosphorylation, and activates its downstream molecules. In this study, we evaluated the role of STAP-1, another member of the STAP family, in CML pathogenesis. We found that the expression of STAP-1 is aberrantly upregulated in CML stem cells (LSCs) in patients’ bone marrow. Using experimental model mice, deletion of STAP-1 prolonged the survival of CML mice with inducing apoptosis of LSCs. The impaired phosphorylation status of STAT5 by STAP-1 ablation leads to downregulation of antiapoptotic genes, Bcl-2 and Bcl-xL. Interestingly, transcriptome analyses indicated that STAP-1 affects several signaling pathways related to BCR-ABL, JAK2, and PPARγ. This adapter protein directly binds to not only BCR-ABL, but also STAT5 proteins, showing synergistic effects of STAP-1 inhibition and BCR-ABL or JAK2 tyrosine kinase inhibition. Our results identified STAP-1 as a regulator of CML LSCs and suggested it to be a potential therapeutic target for CML.
Insights into the dynamics between viruses and their hosts in a hot spring microbial mat
Authors: Jarett Jessica K , Džunková Mária , Schulz Frederik , Roux Simon , Paez-Espino David , Eloe-Fadrosh Emiley , Jungbluth Sean P , Ivanova Natalia , Spear John R , Carr Stephanie A , Trivedi Christopher B , Corsetti Frank A , Johnson Hope A , Becraft Eric , Kyrpides Nikos , Stepanauskas Ramunas , Woyke Tanja 
Published: July 2020

Abstract
Our current knowledge of host–virus interactions in biofilms is limited to computational predictions based on laboratory experiments with a small number of cultured bacteria. However, natural biofilms are diverse and chiefly composed of uncultured bacteria and archaea with no viral infection patterns and lifestyle predictions described to date. Herein, we predict the first DNA sequence-based host–virus interactions in a natural biofilm. Using single-cell genomics and metagenomics applied to a hot spring mat of the Cone Pool in Mono County, California, we provide insights into virus–host range, lifestyle and distribution across different mat layers. Thirty-four out of 130 single cells contained at least one viral contig (26%), which, together with the metagenome-assembled genomes, resulted in detection of 59 viruses linked to 34 host species. Analysis of single-cell amplification kinetics revealed a lack of active viral replication on the single-cell level. These findings were further supported by mapping metagenomic reads from different mat layers to the obtained host–virus pairs, which indicated a low copy number of viral genomes compared to their hosts. Lastly, the metagenomic data revealed high layer specificity of viruses, suggesting limited diffusion to other mat layers. Taken together, these observations indicate that in low mobility environments with high microbial abundance, lysogeny is the predominant viral lifestyle, in line with the previously proposed “Piggyback-the-Winner” theory.
Defective endoplasmic reticulum-mitochondria contacts and bioenergetics in SEPN1-related myopathy
Authors: Filipe Anne , Chernorudskiy Alexander , Arbogast Sandrine , Varone Ersilia , Villar-Quiles Rocío-Nur , Pozzer Diego , Moulin Maryline , Fumagalli Stefano , Cabet Eva , Dudhal Swati , De Simoni Maria-Grazia , Denis Raphaël , Vadrot Nathalie , Dill Corinne , Giovarelli Matteo , Szweda Luke , De Palma Clara , Pinton Paolo , Giorgi Carlotta , Viscomi Carlo , Clementi Emilio , Missiroli Sonia , Boncompagni Simona , Zito Ester , Ferreiro Ana 
Published: July 2020

AbstractSEPN1-related myopathy (SEPN1-RM) is a muscle disorder due to mutations of the SEPN1 gene, which is characterized by muscle weakness and fatigue leading to scoliosis and life-threatening respiratory failure. Core lesions, focal areas of mitochondria depletion in skeletal muscle fibers, are the most common histopathological lesion. SEPN1-RM underlying mechanisms and the precise role of SEPN1 in muscle remained incompletely understood, hindering the development of biomarkers and therapies for this untreatable disease. To investigate the pathophysiological pathways in SEPN1-RM, we performed metabolic studies, calcium and ATP measurements, super-resolution and electron microscopy on in vivo and in vitro models of SEPN1 deficiency as well as muscle biopsies from SEPN1-RM patients. Mouse models of SEPN1 deficiency showed marked alterations in mitochondrial physiology and energy metabolism, suggesting that SEPN1 controls mitochondrial bioenergetics. Moreover, we found that SEPN1 was enriched at the mitochondria-associated membranes (MAM), and was needed for calcium transients between ER and mitochondria, as well as for the integrity of ER-mitochondria contacts. Consistently, loss of SEPN1 in patients was associated with alterations in body composition which correlated with the severity of muscle weakness, and with impaired ER-mitochondria contacts and low ATP levels. Our results indicate a role of SEPN1 as a novel MAM protein involved in mitochondrial bioenergetics. They also identify a systemic bioenergetic component in SEPN1-RM and establish mitochondria as a novel therapeutic target. This role of SEPN1 contributes to explain the fatigue and core lesions in skeletal muscle as well as the body composition abnormalities identified as part of the SEPN1-RM phenotype. Finally, these results point out to an unrecognized interplay between mitochondrial bioenergetics and ER homeostasis in skeletal muscle. They could therefore pave the way to the identification of biomarkers and therapeutic drugs for SEPN1-RM and for other disorders in which muscle ER-mitochondria cross-talk are impaired.
Antiviral immunity and nucleic acid sensing in haematopoietic stem cell gene engineering
Authors: Piras Francesco , Kajaste-Rudnitski Anna 
Published: July 2020

AbstractThe low gene manipulation efficiency of human hematopoietic stem and progenitor cells (HSPC) remains a major hurdle for sustainable and broad clinical application of innovative therapies for a wide range of disorders. Given that all current and emerging gene transfer and editing technologies are bound to expose HSPC to exogenous nucleic acids and most often also to viral vectors, we reason that host antiviral factors and nucleic acid sensors play a pivotal role in the efficacy of HSPC genetic manipulation. Here, we review recent progress in our understanding of vector–host interactions and innate immunity in HSPC upon gene engineering and discuss how dissecting this crosstalk can guide the development of more stealth and efficient gene therapy approaches in the future.
Neural circuits in the mouse retina support color vision in the upper visual field
Authors: Szatko Klaudia P. , Korympidou Maria M. , Ran Yanli , Berens Philipp , Dalkara Deniz , Schubert Timm , Euler Thomas , Franke Katrin 
Published: July 2020

AbstractColor vision is essential for an animal’s survival. It starts in the retina, where signals from different photoreceptor types are locally compared by neural circuits. Mice, like most mammals, are dichromatic with two cone types. They can discriminate colors only in their upper visual field. In the corresponding ventral retina, however, most cones display the same spectral preference, thereby presumably impairing spectral comparisons. In this study, we systematically investigated the retinal circuits underlying mouse color vision by recording light responses from cones, bipolar and ganglion cells. Surprisingly, most color-opponent cells are located in the ventral retina, with rod photoreceptors likely being involved. Here, the complexity of chromatic processing increases from cones towards the retinal output, where non-linear center-surround interactions create specific color-opponent output channels to the brain. This suggests that neural circuits in the mouse retina are tuned to extract color from the upper visual field, aiding robust detection of predators and ensuring the animal’s survival.
Deep learning for genomics using Janggu
Authors: Kopp Wolfgang , Monti Remo , Tamburrini Annalaura , Ohler Uwe , Akalin Altuna 
Published: July 2020

AbstractIn recent years, numerous applications have demonstrated the potential of deep learning for an improved understanding of biological processes. However, most deep learning tools developed so far are designed to address a specific question on a fixed dataset and/or by a fixed model architecture. Here we present Janggu, a python library facilitates deep learning for genomics applications, aiming to ease data acquisition and model evaluation. Among its key features are special dataset objects, which form a unified and flexible data acquisition and pre-processing framework for genomics data that enables streamlining of future research applications through reusable components. Through a numpy-like interface, these dataset objects are directly compatible with popular deep learning libraries, including keras or pytorch. Janggu offers the possibility to visualize predictions as genomic tracks or by exporting them to the bigWig format as well as utilities for keras-based models. We illustrate the functionality of Janggu on several deep learning genomics applications. First, we evaluate different model topologies for the task of predicting binding sites for the transcription factor JunD. Second, we demonstrate the framework on published models for predicting chromatin effects. Third, we show that promoter usage measured by CAGE can be predicted using DNase hypersensitivity, histone modifications and DNA sequence features. We improve the performance of these models due to a novel feature in Janggu that allows us to include high-order sequence features. We believe that Janggu will help to significantly reduce repetitive programming overhead for deep learning applications in genomics, and will enable computational biologists to rapidly assess biological hypotheses.