bluuebunny/crossref_metadata_2025_split huggingface dataset:
Latitudinal and Topographical Variabilities of Free Atmospheric Turbulence From High‐Resolution Radiosonde Data Sets
Authors: Zhang Jian , Zhang Shao Dong , Huang Chun Ming , Huang Kai Ming , Gong Yun , Gan Quan , Zhang Ye Hui 
Published: April 2019

AbstractThis study aims to determine the latitudinal and topographical dependencies of turbulent flow by applying Thorpe analysis to abundant high‐resolution radiosonde data sets. Results show that turbulent energy dissipation rates are lognormally distributed with average central values of 2.7 × 10−4 and 2.9 × 10−4 m2/s3 in the troposphere and stratosphere, respectively. Moreover, they exhibit similar vertical variations at different latitudes from the lower free troposphere up to the tropopause region. Dissipation rates are quantitatively comparable at all latitudes but do exhibit significant seasonal variability. Thus, these rates have apparent seasonal cycles at middle latitudes but weak cycles at low and high latitudes. The influence of terrain is an important feature of turbulent motions. Turbulent activities over mountainous topographies exhibit larger variances than those over flat terrains in the lower troposphere and more outstanding enhancements in the tropopause region. In general, these results are comparable with those of radars in terms of magnitude, and the differences between them can be related to different measurement principles.
The role of phosphate-containing medications and low dietary phosphorus-protein ratio in reducing intestinal phosphorus load in patients with chronic kidney disease
Authors: Li Jiameng , Wang Liya , Han Mei , Xiong Yuqin , Liao Ruoxi , Li Yupei , Sun Si , Maharjan Anil , Su Baihai 
Published: April 2019

AbstractChronic kidney disease-mineral and bone disorder (CKD-MBD) is a common complication in patients experiencing end-stage renal disease (ESRD). It includes abnormalities in bone and mineral metabolism and vascular calcification. Hyperphosphatemia is a major risk factor leading to morbidity and mortality in patients with chronic kidney disease. Increased mortality has been observed in patients with ESRD, with serum phosphorus levels of >5.5 mg/dL. Therefore, control of hyperphosphatemia is a major therapeutic goal in the prevention and treatment of CKD-MBD. The treatment of hyperphosphatemia includes decreasing intestinal phosphorus load and increasing renal phosphorus removal. Decreasing the intestinal load of phosphorus plays a major role in the prevention and treatment of CKD-MBD. Among the dietary sources of phosphorus, some of the commonly prescribed medications have also been reported to contain phosphorus. However, drugs are often ignored even though they act as a potential source of phosphorus. Similarly, although proteins are the major source of dietary phosphorus, reducing protein intake can increase mortality in patients with CKD. Recently, the importance of phosphorus/protein ratio in food have been reported to be a sensitive marker for controlling dietary intake of phosphorus. This review summarizes the progress in the research on phosphate content in drugs as an excipient and the various aspects of dietary management of hyperphosphatemia in patients with CKD, with special emphasis on dietary restriction of phosphorus with low dietary phosphate/protein ratio.
Co-expression network modeling identifies key long non-coding RNA and mRNA modules in altering molecular phenotype to develop stress-induced depression in rats
Authors: Wang Qingzhong , Roy Bhaskar , Dwivedi Yogesh 
Published: April 2019

AbstractLong non-coding RNAs (lncRNAs) have recently emerged as one of the critical epigenetic controllers, which participate in several biological functions by regulating gene transcription, mRNA splicing, protein interaction, etc. In a previous study, we reported that lncRNAs may play a role in developing depression pathophysiology. In the present study, we have examined how lncRNAs are co-expressed with gene transcripts and whether specific lncRNA/mRNA modules are associated with stress vulnerability or resiliency to develop depression. Differential regulation of lncRNAs and coding RNAs were determined in hippocampi of three group of rats comprising learned helplessness (LH, depression vulnerable), non-learned helplessness (NLH, depression resilient), and tested controls (TC) using a single-microarray-based platform. Weighted gene co-expression network analysis (WGCNA) was conducted to correlate the expression status of protein-coding transcripts with lncRNAs. The associated co-expression modules, hub genes, and biological functions were analyzed. We found signature co-expression networks as well as modules that underlie normal as well as aberrant response to stress. We also identified specific hub and driver genes associated with vulnerability and resilience to develop depression. Altogether, our study provides evidence that lncRNA associated complex trait-specific networks may play a crucial role in developing depression.
Inhibition of miR-155 reduces impaired autophagy and improves prognosis in an experimental pancreatitis mouse model
Authors: Wan Jianhua , Yang Xiaoyu , Ren Yuping , Li Xueyang , Zhu Yin , Haddock Ashley N , Ji Baoan , Xia Liang , Lu Nonghua 
Published: April 2019

AbstractAcute pancreatitis (AP) is a common digestive disease characterized by inflammation of the pancreas. MiR-155 plays a role in promoting inflammation and inhibiting the activation of anti-inflammatory pathways. Impaired autophagy could promote zymogen activation, abnormal acinar cell secretion, cell death, and the inflammatory response to aggravate AP. The aim of this study was to ascertain the effect of silencing miR-155 on AP through its effects on inflammation and impaired autophagy in vivo. In this study, AAV(adeno-associated virus)-mediated miR-155 and miR-155 sponge were injected through the tail vein of mice. After 3 weeks, AP was induced by intraperitoneal (IP) injections of cerulein. Pancreatic and pulmonary tissues were analyzed after 24 h. Silencing of miR-155 ameliorated pancreas and lung damage in three AP models of mice by preventing accumulation of autophagosomes that are unable to fuse with lysosomes and decreasing pancreatic inflammation by targeting TAB2. 3-MA could reduce the aberrant accumulation of autophagosomes, which alleviates the pancreas damage that was aggravated by increasing miR-155 levels. These findings demonstrate that the inhibition of miR-155 holds promise for limiting pancreatitis.
Core fucosylated glycan-dependent inhibitory effect of QSOX1-S on invasion and metastasis of hepatocellular carcinoma
Authors: Zhang Xiao-Fei , Wang Ji , Jia Hu-Liang , Zhu Wen-Wei , Lu Lu , Ye Qing-Hai , Nelson Peter J. , Qin Yi , Gao Dong-Mei , Zhou Hai-Jun , Qin Lun-Xiu 
Published: April 2019

AbstractThe goal of the present study was to identify glycoproteins associated with the postoperative relapse of hepatocellular carcinoma (HCC) and to investigate their potential role in HCC metastasis. A method for quantitating N-glycoproteome was used to screen for, and identify, recurrence-related N-linked glycoproteins from 100 serum samples taken from patients with early-stage HCC. The prognostic significance of candidate glycoproteins was then validated in 193 HCC tissues using immunohistochemical staining. Serum core fucosylated quiescin sulfhydryl oxidase 1 (cf-QSOX1) was identified as a leading prognostic glycoprotein that significantly correlated with HCC recurrence. Patients with high serum cf-QSOX1 levels had a significantly longer time to recurrence (TTR) as compared with those with low serum cf-QSOX1. As was seen with serum cf-QSOX1, QSOX1 in HCC tissues was further shown to be significantly associated with good patient outcome. Gain-functional and loss-functional analyses of QSOX1-S were performed in vitro and in vivo. QSOX1-S overexpression significantly increased in vitro apoptosis, but decreased the invasive capacity of HCC cells, and reduced lung metastasis in nude mice models bearing human HCC. Furthermore, overexpression of a mutant version of QSOX1-S, which had eliminated the core-fucosylated glycan at Asn-130, showed no demonstrable effect on invasion or metastasis of HCC cells. Our study suggests that serum cf-QSOX1-S and tumor QSOX1 levels are helpful for predicting recurrence in HCC patients, and its core-fucosylated glycan at Asn-130 is critical for the inhibitory effects of QSOX1-S on invasion and metastasis of HCC
Metascape provides a biologist-oriented resource for the analysis of systems-level datasets
Authors: Zhou Yingyao , Zhou Bin , Pache Lars , Chang Max , Khodabakhshi Alireza Hadj , Tanaseichuk Olga , Benner Christopher , Chanda Sumit K. 
Published: April 2019

AbstractA critical component in the interpretation of systems-level studies is the inference of enriched biological pathways and protein complexes contained within OMICs datasets. Successful analysis requires the integration of a broad set of current biological databases and the application of a robust analytical pipeline to produce readily interpretable results. Metascape is a web-based portal designed to provide a comprehensive gene list annotation and analysis resource for experimental biologists. In terms of design features, Metascape combines functional enrichment, interactome analysis, gene annotation, and membership search to leverage over 40 independent knowledgebases within one integrated portal. Additionally, it facilitates comparative analyses of datasets across multiple independent and orthogonal experiments. Metascape provides a significantly simplified user experience through a one-click Express Analysis interface to generate interpretable outputs. Taken together, Metascape is an effective and efficient tool for experimental biologists to comprehensively analyze and interpret OMICs-based studies in the big data era.
Perinatal factors affect the gut microbiota up to four years after birth
Authors: Fouhy Fiona , Watkins Claire , Hill Cian J. , O’Shea Carol-Anne , Nagle Brid , Dempsey Eugene M. , O’Toole Paul W. , Ross R. Paul , Ryan C. Anthony , Stanton Catherine 
Published: April 2019

AbstractPerinatal factors impact gut microbiota development in early life, however, little is known on the effects of these factors on microbes in later life. Here we sequence DNA from faecal samples of children over the first four years and reveal a perpetual evolution of the gut microbiota during this period. The significant impact of gestational age at birth and delivery mode on gut microbiota progression is evident in the first four years of life, while no measurable effects of antibiotics are found in the first year. Microbiota profiles are also characteristic in children dependant on gestational age and maturity. Full term delivery is characterised byBacteroides(year one),Parabacteroides(year two) andChristensenellaceae (year four). Preterm delivery is characterised byLactobacillus(year one),Streptococcus(year two) andCarnobacterium(year four). This study reveals that the gut retains distinct microbial profiles of perinatal factors up to four years of age.
The photospheric origin of the Yonetoku relation in gamma-ray bursts
Authors: Ito Hirotaka , Matsumoto Jin , Nagataki Shigehiro , Warren Donald C. , Barkov Maxim V. , Yonetoku Daisuke 
Published: April 2019

AbstractLong duration gamma-ray bursts (GRBs), the brightest events since the Big Bang itself, are believed to originate in an ultra-relativistic jet breaking out from a massive stellar envelope. Despite decades of study, there is still no consensus on their emission mechanism. One unresolved question is the origin of the tight correlation between the spectral peak energy and peak luminosity discovered in observations. This Yonetoku relation is the tightest correlation found in the properties of the prompt phase of GRB emission, providing the best diagnostic for the radiation mechanism. Here we present three-dimensional hydrodynamical simulations, and post-process radiation transfer calculations, of photospheric emission from a relativistic jet. Our simulations reproduce the Yonetoku relation as a natural consequence of viewing angle. Although jet dynamics depend sensitively on luminosity, the correlation holds regardless. This result strongly suggests that photospheric emission is the dominant component in the prompt phase of GRBs.
Assessment of corneal substrate biomechanics and its effect on epithelial stem cell maintenance and differentiation
Authors: Gouveia Ricardo M. , Lepert Guillaume , Gupta Suneel , Mohan Rajiv R. , Paterson Carl , Connon Che J. 
Published: April 2019

AbstractWhilst demonstrated extensively in vitro, the control of cell behaviour via modulation of substrate compliance in live tissues has not been accomplished to date. Here we propose that stem cells can be regulated solely through in situ modulation of tissue biomechanics. By first establishing, via high-resolution Brillouin spectro-microscopy, that the outer edge (limbus) of live human corneas has a substantially lower bulk modulus compared to their centre, we then demonstrate that this difference is associated with limbal epithelial stem cell (LESC) residence and YAP-dependent mechanotransduction. This phenotype-through-biomechanics correlation is further explored in vivo using a rabbit alkali burn model. Specifically, we show that treating the burnt surface of the cornea with collagenase effectively restores the tissue’s mechanical properties and its capacity to support LESCs through mechanisms involving YAP suppression. Overall, these findings have extended implications for understanding stem cell niche biomechanics and its impact on tissue regeneration.
Mechanical stretch induces hair regeneration through the alternative activation of macrophages
Authors: Chu Szu-Ying , Chou Chih-Hung , Huang Hsien-Da , Yen Meng-Hua , Hong Hsiao-Chin , Chao Po-Han , Wang Yu-Hsuan , Chen Po-Yu , Nian Shi-Xin , Chen Yu-Ru , Liou Li-Ying , Liu Yu-Chen , Chen Hui-Mei , Lin Feng-Mao , Chang Yun-Ting , Chen Chih-Chiang , Lee Oscar K. 
Published: April 2019

AbstractTissues and cells in organism are continuously exposed to complex mechanical cues from the environment. Mechanical stimulations affect cell proliferation, differentiation, and migration, as well as determining tissue homeostasis and repair. By using a specially designed skin-stretching device, we discover that hair stem cells proliferate in response to stretch and hair regeneration occurs only when applying proper strain for an appropriate duration. A counterbalance between WNT and BMP-2 and the subsequent two-step mechanism are identified through molecular and genetic analyses. Macrophages are first recruited by chemokines produced by stretch and polarized to M2 phenotype. Growth factors such as HGF and IGF-1, released by M2 macrophages, then activate stem cells and facilitate hair regeneration. A hierarchical control system is revealed, from mechanical and chemical signals to cell behaviors and tissue responses, elucidating avenues of regenerative medicine and disease control by demonstrating the potential to manipulate cellular processes through simple mechanical stimulation.
Dynamic vulnerability revealed in the collapse of an Arctic tidewater glacier
Authors: Nuth Christopher , Gilbert Adrien , Köhler Andreas , McNabb Robert , Schellenberger Thomas , Sevestre Heïdi , Weidle Christian , Girod Luc , Luckman Adrian , Kääb Andreas 
Published: April 2019

AbstractGlacier flow instabilities can rapidly increase sea level through enhanced ice discharge. Surge-type glacier accelerations often occur with a decadal to centennial cyclicity suggesting internal mechanisms responsible. Recently, many surging tidewater glaciers around the Arctic Barents Sea region question whether external forces such as climate can trigger dynamic instabilities. Here, we identify a mechanism in which climate change can instigate surges of Arctic tidewater glaciers. Using satellite and seismic remote sensing observations combined with three-dimensional thermo-mechanical modeling of the January 2009 collapse of the Nathorst Glacier System (NGS) in Svalbard, we show that an underlying condition for instability was basal freezing and associated friction increase under the glacier tongue. In contrast, continued basal sliding further upstream increased driving stresses until eventual and sudden till failure under the tongue. The instability propagated rapidly up-glacier, mobilizing the entire 450 km2 glacier basin over a few days as the till entered an unstable friction regime. Enhanced mass loss during and after the collapse (5–7 fold compared to pre-collapse mass losses) combined with regionally rising equilibrium line altitudes strongly limit mass replenishment of the glacier, suggesting irreversible consequences. Climate plays a paradoxical role as cold glacier thinning and retreat promote basal freezing which increases friction at the tongue by stabilizing an efficient basal drainage system. However, with some of the most intense atmospheric warming on Earth occurring in the Arctic, increased melt water can reduce till strength under tidewater glacier tongues to orchestrate a temporal clustering of surges at decadal timescales, such as those observed in Svalbard at the end of the Little Ice Age. Consequently, basal terminus freezing promotes a dynamic vulnerability to climate change that may be present in many Arctic tidewater glaciers.
Impact of drought stress on simultaneously occurring pathogen infection in field-grown chickpea
Authors: Sinha Ranjita , Irulappan Vadivelmurugan , Mohan-Raju Basavaiah , Suganthi Angappan , Senthil-Kumar Muthappa 
Published: April 2019

AbstractDrought stress and pathogen infection simultaneously occur in the field. In this study, the interaction of these two stresses with chickpea, their individual and combined effect and the net impact on plant growth and yield traits were systematically assessed under field and confined pot experiments. The field experiments were conducted for four consecutive years from 2014–15 to 2017–18 at different locations of India. Different irrigation regimes were maintained to impose mild to severe drought stress, and natural incidence of the pathogen was considered as pathogen stress. We observed an increased incidence of fungal diseases namely, dry root rot (DRR) caused by Rhizoctonia bataticola, black root rot (BRR) caused by Fusarium solani under severe drought stress compared to well-irrigated field condition. Similar to field experiments, pot experiments also showed severe disease symptoms of DRR and BRR in the presence of drought compared to pathogen only stress. Overall, the results from this study not only showed the impact of combined drought and DRR stress but also provided systematic data, first of its kind, for the use of researchers.
Warm hole in Pacific Arctic sea ice cover forced mid-latitude Northern Hemisphere cooling during winter 2017–18
Authors: Tachibana Yoshihiro , Komatsu Kensuke K. , Alexeev Vladimir A. , Cai Lei , Ando Yuta 
Published: April 2019

AbstractIn North America and Asia, extreme cold weather characterized the winter of 2017–18. At the same time, the Pacific, the Bering Sea, and the Atlantic Arctic regions experienced anomalously low sea ice extent in the early winter. The jet stream dividing cold Arctic air from warm air deviated from normal zonal patterns northward into the ice-free areas north of the Bering Strait. Large southward jet stream pathways formed over Asia and America, allowing cold air to spread into Asia and the southern areas of North America. We hypothesise that the late autumn Bering Strait sea-ice anomaly and Pacific atmospheric rivers were partially responsible for the cold winter. We used data analyses and numerical experiments to test this hypothesis. We propose a positive feedback mechanism between the sea ice anomaly and atmospheric river activity, with anomalous south winds toward the sea ice anomaly potentially leading to more warm water injected by the wind-driven current through the Bering Strait. Our findings suggest that Poleward propagation of the atmospheric rivers made upper air warm, leading to their upgliding, which further heated the overlying air, causing poleward jet meanders. As a part of this response the jet stream meandered southward over Asia and North America, resulting in cold intrusions. We speculate that the positive feedback mechanism observed during the 2017–18 winter could recur in future years when the sea-ice reduction in the Pacific Arctic interacts with enhanced atmospheric river activity.
In vitro neuronal network activity as a new functional diagnostic system to detect effects of Cerebrospinal fluid from autoimmune encephalitis patients
Authors: Koch Henner , Niturad Cristina E. , Theiss Stephan , Bien Christian G. , Elger Christian , Wandinger Klaus-Peter , Vincent Angela , Malter Michael , Körtvelyessy Peter , Lerche Holger , Dihné Marcel 
Published: April 2019

AbstractThe intent of this study was to investigate if cerebrospinal fluid (CSF) from autoimmune encephalitis (AE) patients regulates in vitro neuronal network activity differentially to healthy human control CSF (hCSF). To this end, electrophysiological effects of CSF from AE patients or hCSF were measured by in vitro neuronal network activity (ivNNA) recorded with microelectrode arrays (MEA). CSF from patients with either N-methyl-D-aspartate-receptor-antibody (pCSFNMDAR, n = 7) or Leucine-rich-glioma-inactivated-1-Ab (pCSFLGI1, n = 6) associated AE suppressed global spiking activity of neuronal networks by a factor of 2.17 (p < 0.05) or 2.42 (p < 0.05) compared to hCSF. The former also suppressed synchronous network bursting by a factor of 1.93 (p < 0.05) in comparison to hCSF (n = 13). As a functional diagnostic test, this parameter reached a sensitivity of 86% for NMDAR-Ab- and 100% for LGI1-Ab-associated AE vs. hCSF at a specificity of 85%. To explore if modulation at the NMDAR influences effects of hCSF or pathological CSF, we applied the NMDAR-antagonist 2-Amino-5-phosphono-pentanoic acid (AP5). In CSF from NMDAR-Ab-associated AE patients, spike rate reduction by AP5 was more than 2-fold larger than in hCSF (p < 0.05), and network burst rate reduction more than 18-fold (p < 0.01). Recording ivNNA might help discriminating between functional effects of CSF from AE patients and hCSF, and thus could be used as a functional diagnostic test in AE. The pronounced suppression of ivNNA by CSF from NMDAR-Ab-associated AE patients and simultaneous antagonism at the NMDAR by AP5, particularly in burst activity, compared to hCSF plus AP5, confirms that the former contains additional ivNNA-suppressing factors.