bluuebunny/crossref_metadata_2025_split huggingface dataset:
High‐Resolution 3‐D P Wave Velocity Structures Under NE Taiwan and Their Tectonic Implications
Authors: Su Po‐Li , Chen Po‐Fei , Wang Chien‐Ying 
Published: October 2019

AbstractFirst P wave arrival‐time data from local earthquakes recorded by a dense geophone array deployed on the Ilan Plain and by existing permanent stations were combined to invert for high‐resolution P wave velocity structures under northeast Taiwan. With relatively high resolution, we were able to examine the structures in more detail and to investigate their significance and tectonic implications. We introduce two distinct groups of proposals for mechanisms of subduction polarity flipping in Taiwan, referred to as the “tear model” and “breakoff model.” While the predicted Philippine Sea Plate boundaries differ between the two models, those of the breakoff model and the related subducting indenter model are geodynamically similar. The surface junction and the west edge of the imaged high Vp anomalous Philippine Sea Plate comply with those predicted by the subducting indenter model and thus favor the breakoff model over the tear model. While the observed high Vp anomalous region in the mantle wedge can be explained as eclogitization of previously subducted crust, eclogitization of the overriding continental crustal roots cannot be ruled out. Those beneath the Taipei Basin and the Tatun Volcano Group exhibit a pattern potentially connected to the low Vp anomalies in the mantle wedge, suggesting the involvement of the Philippine Sea slab, either by asthenospheric upwelling due to extensional collapse or by fluid migration due to slab dehydration. Those beneath the Ilan Plain exhibit a low Vp pattern extending to deeper origins in the eastern offshore region, suggesting a connection with the opening of the Okinawa Trough.
Diagnostic kit for rice blight resistance
Authors: Eom Joon-Seob , Luo Dangping , Atienza-Grande Genelou , Yang Jungil , Ji Chonghui , Thi Luu Van , Huguet-Tapia José C. , Char Si Nian , Liu Bo , Nguyen Hanna , Schmidt Sarah Maria , Szurek Boris , Vera Cruz Casiana , White Frank F. , Oliva Ricardo , Yang Bing , Frommer Wolf B. 
Published: October 2019

AbstractBlight-resistant rice lines are the most effective solution for bacterial blight, caused byXanthomonas oryzaepv.oryzae(Xoo). Key resistance mechanisms involveSWEETgenes as susceptibility factors. Bacterial transcription activator-like (TAL) effectors bind to effector-binding elements (EBEs) inSWEETgene promoters and induceSWEETgenes. EBE variants that cannot be recognized by TAL effectors abrogate induction, causing resistance. Here we describe a diagnostic kit to enable analysis of bacterial blight in the field and identification of suitable resistant lines. Specifically, we include aSWEETpromoter database, RT–PCR primers for detectingSWEETinduction, engineered reporter rice lines to visualize SWEET protein accumulation and knock-out rice lines to identify virulence mechanisms in bacterial isolates. We also developed CRISPR–Cas9 genome-edited Kitaake rice to evaluate the efficacy of EBE mutations in resistance, software to predict the optimal resistance gene set for a specific geographic region, and two resistant ‘mega’ rice lines that will empower farmers to plant lines that are most likely to resist rice blight.
Roadkill and space use data predict vehicle-strike hotspots and mortality rates in a recovering bobcat (Lynx rufus) population
Authors: Bencin Heidi L. , Prange Suzanne , Rose Christa , Popescu Viorel D. 
Published: October 2019

AbstractRoadways pose challenges for conserving wide-ranging animal species. As bobcat (Lynx rufus) populations recover in Ohio, an accurate evaluation of population metrics is critical to understanding future population trajectories. In this study, we integrated multiple datasets to examine overall road mortality rates in Ohio. First, we utilized a long-term vehicle-strike dataset (1978–2017) to determine landscape and local predictors of road mortality. We found that bobcats were killed at higher rates on interstates regardless of surrounding landscape composition, but that landscape variables were useful at predicting mortality on lower-traffic roads. To explore road avoidance behaviors, we used GPS telemetry data from 18 individuals to compare road crossings along trajectory paths with random road crossings simulated using Correlated Random Walks. Bobcats exhibited avoidance of certain route types (county, municipal, and US routes). Finally, by integrating traffic volume data, road crossing behavior, and accounting for the proportion of each route type present in the study area, we estimated that a minimum of 6% and up to 18% of the bobcat population in Ohio is lost to vehicle-strikes annually. To fully understand the population level impacts of this mortality, we recommend further monitoring of age structure and sex of roadkill animals. Our results identify potential areas for mitigation of vehicle-strikes and emphasize the importance of accounting for road mortality when making management decisions for Ohio’s recovering bobcat population.
A quick test of cognitive speed can predict development of dementia in Parkinson’s disease
Authors: Jalakas Mattis , Palmqvist Sebastian , Hall Sara , Svärd Daniel , Lindberg Olof , Pereira Joana B. , van Westen Danielle , Hansson Oskar 
Published: October 2019

AbstractParkinson’s disease (PD) patients frequently develop cognitive impairment. There is a need for brief clinical assessments identifying PD patients at high risk of progressing to dementia. In this study, we look into predicting dementia in PD and underlying structural and functional correlates to cognitive decline in PD. We included 175 patients with PD, 30 with PD dementia, 51 neurologically healthy controls and 121 patients with Alzheimer’s disease (AD) from Skane University Hospital, BIOFINDER cohorts. All underwent cognitive tests, including MMSE, 10-word list delayed recall (ADAS-cog), A Quick Test of cognitive speed (AQT), Letter S fluency, Clock Drawing Test (CDT) and pentagon copying. In non-demented patients with PD, abnormal AQT and CDT results predicted an increased risk of subsequent development of dementia (hazard ratio 2.2 for both). When comparing the cognitive profile between PD and AD, decreased performance on AQT, which measures attention and processing speed, was more typical in PD. Lastly, we investigated the underlying structural and functional correlates for the PD-specific test AQT with magnetic resonance imaging. In PD patients, decreased performance on AQT was associated with i) cortical thinning in temporoparietal regions, ii) changes in diffusion MRI, especially in the cingulum tract, and iii) decreased functional connectivity in posterior brain networks.
Clonal expansion of a virulent Streptococcus suis serotype 9 lineage distinguishable from carriage subpopulations
Authors: Willemse Niels , van der Ark Kees C. H. , Stockhofe-Zurwieden Norbert , Smith Hilde , Picavet Daisy I. , van Solt-Smits Conny , Wisselink Henk J. , Schultsz Constance , de Greeff Astrid 
Published: October 2019

AbstractStreptococcus suis is a porcine pathogen, causing severe invasive infections. S. suis serotype 9 is increasingly causing disease in Dutch and Chinese pig herds, but it is unknown whether all serotype 9 isolates are equally virulent and markers that can identify virulent strains are not available. Therefore, discrimination between virulent isolates and carriage isolates typically not associated with disease, is currently not possible. We collected tonsillar S. suis isolates from 6 herds not previously diagnosed with S. suis infections, and clinical S. suis isolates of previously diseased pigs. We confirmed the virulence of a virulent type strain and one representative clinical isolate, and the lack of virulence of two carriage isolates, in a pig infection model. Phylogenetic analysis of whole genome sequences of 124 isolates resulted in 10 groups, of which two were almost uniquely populated by clinical isolates. The population structure of S. suis serotype 9 appears highly diverse. However, analysis of the capsule loci sequences showed variation in a single region which fully correlated with a virulent genotype. Transmission electron microscopy suggested differences in capsule thickness between carriage and clinical genotypes. In conclusion, we found that that the S. suis serotype 9 population in the Netherlands is diverse. A distinct virulence-associated lineage was identified and could be discriminated based on the capsule locus sequence. Whilst the difference in virulence cannot be directly attributed to the DNA sequence, the correlation of capsule locus sequence with virulence could be used in the development of diagnostic tests to identify potential virulent S. suis serotype 9 in pigs.
S-nitrosoglutathione inhibits adipogenesis in 3T3-L1 preadipocytes by S-nitrosation of CCAAT/enhancer-binding protein β
Authors: Mussbacher Marion , Stessel Heike , Pirker Teresa , Gorren Antonius C. F. , Mayer Bernd , Schrammel Astrid 
Published: October 2019

AbstractMurine 3T3-L1 adipocytes share many similarities with primary fat cells and represent a reliable in vitro model of adipogenesis. The aim of this study was to probe the effect of S-nitrosoglutathione (GSNO) on adipocyte differentiation. Adipogenesis was induced with a mixture of insulin, dexamethasone, and 3-isobutyl-1-methylxanthine in the absence and presence of increasing GSNO concentrations. Biochemical analysis after 7 days of differentiation showed a prominent anti-adipogenic effect of GSNO which was evident as reduced cellular triglycerides and total protein content as well as decreased mRNA and protein expression of late transcription factors (e.g. peroxisome proliferator activated receptor γ) and markers of terminal differentiation (e.g. leptin). By contrast, the nitrosothiol did not affect mRNA and protein expression of CCAAT/enhancer-binding protein β (C/EBPβ), which represents a pivotal early transcription factor of the adipogenic cascade. Differentiation was also inhibited by the NO donor (Z)-1-[2-(2-aminoethyl)-N-(2-ammonioethyl)amino]diazen-1-ium-1,2-diolate. Biotin switch experiments showed significantly increased S-nitrosation of C/EBPβ variants indicating that posttranslational S-nitrosative modification of this transcription factor accounts for the observed anti-adipogenic effect of NO. Our results suggest that S-nitrosation might represent an important physiological regulatory mechanism of fat cell maturation.
Artificial spinning of natural silk threads
Authors: Frydrych Martin , Greenhalgh Alexander , Vollrath Fritz 
Published: October 2019

AbstractSilk producing arthropods spin solid fibres from an aqueous protein feedstock apparently relying on the complex structure of the silk protein and its controlled aggregation by shear forces, alongside biochemical changes. This flow-induced phase-transition of the stored native silk molecules is irreversible, environmentally sound and remarkably energy efficient. The process seemingly relies on a self-assembling, fibrillation process. Here we test this hypothesis by biomimetically spinning a native-based silk feedstock, extracted by custom processes, into silk fibres that equal their natural models’ mechanical properties. Importantly, these filaments, which featured cross-section morphologies ranged from large crescent-like to small ribbon-like shapes, also had the slender cross-sectional areas of native fibres and their hierarchical nanofibrillar structures. The modulation of the post-draw conditions directly affected mechanical properties, correlated with the extent of fibre crystallinity, i.e. degree of molecular order. We believe our study contributes significantly to the understanding and development of artificial silks by demonstrating successful biomimetic spinning relies on appropriately designed feedstock properties. In addition, our study provides inspiration for low-energy routes to novel synthetic polymers.
Preventative effects of the partial RANKL peptide MHP1-AcN in a mouse model of imiquimod-induced psoriasis
Authors: Ju Nan , Shimamura Munehisa , Hayashi Hiroki , Ikeda Yuka , Yoshida Shota , Nakamura Ayumi , Morishita Ryuichi , Rakugi Hiromi , Nakagami Hironori 
Published: October 2019

AbstractWe recently developed a partial peptide of receptor activator of nuclear factor-кB ligand (RANKL) known as microglial healing peptide 1 (MHP1-AcN), that inhibits Toll-like receptor (TLR)-related inflammation through RANKL/RANK signaling in microglia and macrophages without promoting osteoclast activation. The abnormal activation of TLRs contributes to the initiation and maintenance of psoriasis, which is a chronic inflammatory skin disease that involves the aberrant expression of proinflammatory cytokines and the subsequent dermal γδ T cell and T helper 17 (Th17) cell responses. The inhibition of TLR-mediated inflammation provides an important strategy to treat psoriasis. Here, we examined the preventative effects of MHP1-AcN in a mouse model of imiquimod (a TLR 7/8 agonist)-induced psoriasis. Topical imiquimod application induced psoriasis-like skin lesions on the ear and dorsal skin. Systemic administration of MHP1-AcN by daily subcutaneous injection significantly prevented the development of skin lesions, including erythema, scaling and thickening. Mice treated with MHP1-AcN showed reduced levels of skin Il6 mRNA at 32 h and reduced levels of Il23 and Il17a mRNA at d9. Serum levels of IL-6 and IL-23 were reduced at 32 h, and IL-17A was reduced at d9. These results indicated that MHP1-AcN could decrease imiquimod-induced IL-6, IL-23 and IL-17A production. MHP1-AcN is potentially an alternative treatment for psoriasis.
Multiplexed in-gel microfluidic immunoassays: characterizing protein target loss during reprobing of benzophenone-modified hydrogels
Authors: Gopal Anjali , Herr Amy E. 
Published: October 2019

AbstractFrom whole tissues to single-cell lysate, heterogeneous immunoassays are widely utilized for analysis of protein targets in complex biospecimens. Recently, benzophenone-functionalized hydrogel scaffolds have been used to immobilize target protein for immunoassay detection with fluorescent antibody probes. In benzophenone-functionalized hydrogels, multiplex target detection occurs via serial rounds of chemical stripping (incubation with sodium-dodecyl-sulfate (SDS) and β-mercaptoethanol at 50–60 °C for ≥1 h), followed by reprobing (interrogation with additional antibody probes). Although benzophenone facilitates covalent immobilization of proteins to the hydrogel, we observe 50% immunoassay signal loss of immobilized protein targets during stripping rounds. Here, we identify and characterize signal loss mechanisms during stripping and reprobing. We posit that loss of immobilized target is responsible for ≥50% of immunoassay signal loss, and that target loss is attributable to disruption of protein immobilization by denaturing detergents (SDS) and incubation at elevated temperatures. Furthermore, our study suggests that protein losses under non-denaturing conditions are more sensitive to protein structure (i.e., hydrodynamic radius), than to molecular mass (size). We formulate design guidance for multiplexed in-gel immunoassays, including that low-abundance proteins be immunoprobed first, even when targets are covalently immobilized to the gel. We also recommend careful scrutiny of the order of proteins targets detected via multiple immunoprobing cycles, based on the protein immobilization buffer composition.
Modeling Snyder-Robinson Syndrome in multipotent stromal cells reveals impaired mitochondrial function as a potential cause for deficient osteogenesis
Authors: Ramsay Ashley L. , Alonso-Garcia Vivian , Chaboya Cutter , Radut Brian , Le Bryan , Florez Jose , Schumacher Cameron , Fierro Fernando A. 
Published: October 2019

AbstractPatients with Snyder-Robinson Syndrome (SRS) exhibit deficient Spermine Synthase (SMS) gene expression, which causes neurodevelopmental defects and osteoporosis, often leading to extremely fragile bones. To determine the underlying mechanism for impaired bone formation, we modelled the disease by silencing SMS in human bone marrow - derived multipotent stromal cells (MSCs) derived from healthy donors. We found that silencing SMS in MSCs led to reduced cell proliferation and deficient bone formation in vitro, as evidenced by reduced mineralization and decreased bone sialoprotein expression. Furthermore, transplantation of MSCs in osteoconductive scaffolds into immune deficient mice shows that silencing SMS also reduces ectopic bone formation in vivo. Tag-Seq Gene Expression Profiling shows that deficient SMS expression causes strong transcriptome changes, especially in genes related to cell proliferation and metabolic functions. Similarly, metabolome analysis by mass spectrometry, shows that silencing SMS strongly impacts glucose metabolism. This was consistent with observations using electron microscopy, where SMS deficient MSCs show high levels of mitochondrial fusion. In line with these findings, SMS deficiency causes a reduction in glucose consumption and increase in lactate secretion. Our data also suggests that SMS deficiency affects iron metabolism in the cells, which we hypothesize is linked to deficient mitochondrial function. Altogether, our studies suggest that SMS deficiency causes strong transcriptomic and metabolic changes in MSCs, which are likely associated with the observed impaired osteogenesis both in vitro and in vivo.
Mutation of two key aspartate residues alters stoichiometry of the NhaB Na+/H+ exchanger from Klebsiella pneumoniae
Authors: Patiño-Ruiz Miyer , Fendler Klaus , Călinescu Octavian 
Published: October 2019

AbstractBacterial NhaB Na+/H+ exchangers belonging to the Ion Transporter superfamily are poorly characterized in contrast to Na+/H+ exchangers of the Cation Proton Antiporter superfamily which have NhaA from Escherichia coli as a prominent member. For a more detailed understanding of the intricacies of the exchanger’s transport mechanism, mutational studies are essential. Therefore, we mutated two protonatable residues present in the putative transmembrane region of NhaB from Klebsiella pneumoniae (KpNhaB), which could serve as substrate binding sites, Asp146 and Asp404, to either glutamate or alanine and analyzed transport function and stability of the mutants using electrophysiological and fluorimetric techniques. While mutation of either Asp residue to Glu only had slight to moderate effects on the transport activity of the exchanger, the mutations D404A and D146A, in particular, had more profound effects on the transport function. Furthermore, a double mutant, D146A/D404A, exhibited a remarkable behavior at alkaline pH, where recorded electrical currents changed polarity, showing steady-state transport with a stoichiometry of H+:Na+ < 1, as opposed to the H+:Na+ > 1 stoichiometry of the WT. Thus, we showed that Asp146 and Asp404 are part of the substrate binding site(s) of KpNhaB and engineered a Na+/H+ exchanger with a variable stoichiometry.
Metabolism of the predominant human milk oligosaccharide fucosyllactose by an infant gut commensal
Authors: James Kieran , Bottacini Francesca , Contreras Jose Ivan Serrano , Vigoureux Mariane , Egan Muireann , Motherway Mary O’connell , Holmes Elaine , van Sinderen Douwe 
Published: October 2019

AbstractA number of bifidobacterial species are found at a particularly high prevalence and abundance in faecal samples of healthy breastfed infants, a phenomenon that is believed to be, at least partially, due to the ability of bifidobacteria to metabolize Human Milk Oligosaccharides (HMOs). In the current study, we isolated a novel strain of Bifidobacterium kashiwanohense, named APCKJ1, from the faeces of a four-week old breastfed infant, based on the ability of the strain to utilise the HMO component fucosyllactose. We then determined the full genome sequence of this strain, and employed the generated data to analyze fucosyllactose metabolism in B. kashiwanohense APCKJ1. Transcriptomic and growth analyses, combined with metabolite analysis, in vitro hydrolysis assays and heterologous expression, allowed us to elucidate the pathway for fucosyllactose metabolism in B. kashiwanohense APCKJ1. Homologs of the key genes for this metabolic pathway were identified in particular in infant-derived members of the Bifdobacterium genus, revealing the apparent niche-specific nature of this pathway, and allowing a broad perspective on bifidobacterial fucosyllactose and L-fucose metabolism.
Projecting Suitability and Climate Vulnerability of Bhutanitis thaidina (Blanchard) (Lepidoptera: Papilionidae) with Conservation Implications
Authors: Hu Shao-Ji , Xing Dong-Hui , Gong Zhi-Xian , Hu Jin-Ming 
Published: October 2019

AbstractBhutanitis thaidina is an endemic, rare, and protected swallowtail in China. Deforestation, habitat fragmentation, illegal commercialised capture, and exploitation of larval food plants are believed to be the four major causes of population decline of B. thaidina in the recent decade. However, little attention was paid to the impact of climate change. This study used ecological niche factor analysis and species distribution model to analyse the current suitable areas for B. thaidina with BioClim variables as well as its future suitable areas under four future climate scenarios (represented by four Representative Concentration Pathways: RCP2.6, RCP4.5, RCP6.0, and RCP8.5). Statistical analysis was carried out to compare the possible area and altitude changes to the distribution of B. thaidina under changing climate. Our analyses showed that the suitable areas for B. thaidina are fragmented under the current climate, with four suitable centres in northwestern Yunnan, northeastern Yunnan and northwestern Guizhou, the western margin of Sichuan Basin, and Qinling mountains. Apart from further habitat fragmentation under climate change, slight range expansion (average 6.0–8.9%) was detected under the RCP2.6 and RCP4.5 scenarios, while more range contraction (average 1.3–26.9%) was detected under the RCP6.0 and RCP8.5 scenarios, with the two southern suitable centres suffering most. Also, a tendency of contraction (2,500–3,500 m) and upslope shift (~600 m) in suitable altitude range were detected. The findings of this study supported the climate-vulnerable hypothesis of B. thaidina, especially under future climate like the RCP6.0 and RCP8.5 scenarios, in terms of contraction in suitable areas and altitude ranges. Conservation priority should be given to northwestern Yunnan, northeastern Yunnan, and northwestern Guizhou to alleviate the stress of massive habitat loss and extinction. Refugial areas should be established in all four suitable centres to maintain genetic diversity of B. thaidina in China.
The signalling role of ROS in the regulation of seed germination and dormancy
Authors: Bailly Christophe 
Published: October 2019

Abstract
Reactive oxygen species (ROS) are versatile compounds which can have toxic or signalling effects in a wide range living organisms, including seeds. They have been reported to play a pivotal role in the regulation of seed germination and dormancy but their mechanisms of action are still far from being fully understood. In this review, we sum-up the major findings that have been carried out this last decade in this field of research and which altogether shed a new light on the signalling roles of ROS in seed physiology. ROS participate in dormancy release during seed dry storage through the direct oxidation of a subset of biomolecules. During seed imbibition, the controlled generation of ROS is involved in the perception and transduction of environmental conditions that control germination. When these conditions are permissive for germination, ROS levels are maintained at a level which triggers cellular events associated with germination, such as hormone signalling. Here we propose that the spatiotemporal regulation of ROS production acts in concert with hormone signalling to regulate the cellular events involved in cell expansion associated with germination.