bluuebunny/crossref_metadata_2025_split huggingface dataset:
Carbamylated erythropoietin regulates immune responses and promotes long-term kidney allograft survival through activation of PI3K/AKT signaling
Authors: Na Ning , Zhao Daqiang , Zhang Jinhua , Wu Jiaqing , Miao Bin , Li Heng , Luo Yingxun , Tang Zuofu , Zhang Wensheng , Bellanti Joseph A. , Zheng Song Guo 
Published: September 2020

AbstractModulation of alloimmune responses is critical to improving transplant outcome and promoting long-term graft survival. To determine mechanisms by which a nonhematopoietic erythropoietin (EPO) derivative, carbamylated EPO (CEPO), regulates innate and adaptive immune cells and affects renal allograft survival, we utilized a rat model of fully MHC-mismatched kidney transplantation. CEPO administration markedly extended the survival time of kidney allografts compared with the transplant alone control group. This therapeutic effect was inhibited when the recipients were given LY294002, a selective inhibitor of the phosphoinositide 3-kinase (PI3K)/protein kinase B (AKT) signaling pathway or anti-EPO receptor (EPOR) antibody, in addition to CEPO. In vitro, CEPO inhibited the differentiation and function of dendritic cells and modulated their production of pro-inflammatory and anti-inflammatory cytokines, along with activating the PI3K/AKT signaling pathway and increasing EPOR mRNA and protein expression by these innate immune cells. Moreover, after CD4+ T cells were exposed to CEPO the Th1/Th2 ratio decreased and the regulatory T cell (Treg)/Th17 ratio increased. These effects were abolished by LY294002 or anti-EPOR antibody, suggesting that CEPO regulates immune responses and promotes kidney allograft survival by activating the PI3K/AKT signaling pathway in an EPOR-dependent manner. The immunomodulatory and specific signaling pathway effects of CEPO identified in this study suggest a potential therapeutic approach to promoting kidney transplant survival.
Glioma-initiating cells at tumor edge gain signals from tumor core cells to promote their malignancy
Authors: Bastola Soniya , Pavlyukov Marat S. , Yamashita Daisuke , Ghosh Sadashib , Cho Heejin , Kagaya Noritaka , Zhang Zhuo , Minata Mutsuko , Lee Yeri , Sadahiro Hirokazu , Yamaguchi Shinobu , Komarova Svetlana , Yang Eddy , Markert James , Nabors Louis B. , Bhat Krishna , Lee James , Chen Qin , Crossman David K. , Shin-Ya Kazuo , Nam Do-Hyun , Nakano Ichiro 
Published: September 2020

AbstractIntratumor spatial heterogeneity facilitates therapeutic resistance in glioblastoma (GBM). Nonetheless, understanding of GBM heterogeneity is largely limited to the surgically resectable tumor core lesion while the seeds for recurrence reside in the unresectable tumor edge. In this study, stratification of GBM to core and edge demonstrates clinically relevant surgical sequelae. We establish regionally derived models of GBM edge and core that retain their spatial identity in a cell autonomous manner. Upon xenotransplantation, edge-derived cells show a higher capacity for infiltrative growth, while core cells demonstrate core lesions with greater therapy resistance. Investigation of intercellular signaling between these two tumor populations uncovers the paracrine crosstalk from tumor core that promotes malignancy and therapy resistance of edge cells. These phenotypic alterations are initiated by HDAC1 in GBM core cells which subsequently affect edge cells by secreting the soluble form of CD109 protein. Our data reveal the role of intracellular communication between regionally different populations of GBM cells in tumor recurrence.
Period multiplication cascade at the order-by-disorder transition in uniaxial random field XY magnets
Authors: Basak S. , Dahmen K. A. , Carlson E. W. 
Published: September 2020

AbstractUniaxial random field disorder induces a spontaneous transverse magnetization in the XY model. Adding a rotating driving field, we find a critical point attached to the number of driving cycles needed to complete a limit cycle, the first discovery of this phenomenon in a magnetic system. Near the critical drive, time crystal behavior emerges, in which the period of the limit cycles becomes an integer n > 1 multiple of the driving period. The period n can be engineered via specific disorder patterns. Because n generically increases with system size, the resulting period multiplication cascade is reminiscent of that occurring in amorphous solids subject to oscillatory shear near the onset of plastic deformation, and of the period bifurcation cascade near the onset of chaos in nonlinear systems, suggesting it is part of a larger class of phenomena in transitions of dynamical systems. Applications include magnets, electron nematics, and quantum gases.
Deregulated immune cell recruitment orchestrated by FOXM1 impairs human diabetic wound healing
Authors: Sawaya Andrew P. , Stone Rivka C. , Brooks Stephen R. , Pastar Irena , Jozic Ivan , Hasneen Kowser , O’Neill Katelyn , Mehdizadeh Spencer , Head Cheyanne R. , Strbo Natasa , Morasso Maria I. , Tomic-Canic Marjana 
Published: September 2020

AbstractDiabetic foot ulcers (DFUs) are a life-threatening disease that often result in lower limb amputations and a shortened lifespan. However, molecular mechanisms contributing to the pathogenesis of DFUs remain poorly understood. We use next-generation sequencing to generate a human dataset of pathogenic DFUs to compare to transcriptional profiles of human skin and oral acute wounds, oral as a model of “ideal” adult tissue repair due to accelerated closure without scarring. Here we identify major transcriptional networks deregulated in DFUs that result in decreased neutrophils and macrophages recruitment and overall poorly controlled inflammatory response. Transcription factors FOXM1 and STAT3, which function to activate and promote survival of immune cells, are inhibited in DFUs. Moreover, inhibition of FOXM1 in diabetic mouse models (STZ-induced and db/db) results in delayed wound healing and decreased neutrophil and macrophage recruitment in diabetic wounds in vivo. Our data underscore the role of a perturbed, ineffective inflammatory response as a major contributor to the pathogenesis of DFUs, which is facilitated by FOXM1-mediated deregulation of recruitment of neutrophils and macrophages, revealing a potential therapeutic strategy.
Potential impacts of mercury released from thawing permafrost
Authors: Schaefer Kevin , Elshorbany Yasin , Jafarov Elchin , Schuster Paul F. , Striegl Robert G. , Wickland Kimberly P. , Sunderland Elsie M. 
Published: September 2020

AbstractMercury (Hg) is a naturally occurring element that bonds with organic matter and, when converted to methylmercury, is a potent neurotoxicant. Here we estimate potential future releases of Hg from thawing permafrost for low and high greenhouse gas emissions scenarios using a mechanistic model. By 2200, the high emissions scenario shows annual permafrost Hg emissions to the atmosphere comparable to current global anthropogenic emissions. By 2100, simulated Hg concentrations in the Yukon River increase by 14% for the low emissions scenario, but double for the high emissions scenario. Fish Hg concentrations do not exceed United States Environmental Protection Agency guidelines for the low emissions scenario by 2300, but for the high emissions scenario, fish in the Yukon River exceed EPA guidelines by 2050. Our results indicate minimal impacts to Hg concentrations in water and fish for the low emissions scenario and high impacts for the high emissions scenario.
Structural lubricity in soft and hard matter systems
Authors: Vanossi Andrea , Bechinger Clemens , Urbakh Michael 
Published: September 2020

AbstractOver the recent decades there has been tremendous progress in understanding and controlling friction between surfaces in relative motion. However the complex nature of the involved processes has forced most of this work to be of rather empirical nature. Two very distinctive physical systems, hard two-dimensional layered materials and soft microscopic systems, such as optically or topographically trapped colloids, have recently opened novel rationally designed lines of research in the field of tribology, leading to a number of new discoveries. Here, we provide an overview of these emerging directions of research, and discuss how the interplay between hard and soft matter promotes our understanding of frictional phenomena.
Phase of firing coding of learning variables across the fronto-striatal network during feature-based learning
Authors: Voloh Benjamin , Oemisch Mariann , Womelsdorf Thilo 
Published: September 2020

AbstractThe prefrontal cortex and striatum form a recurrent network whose spiking activity encodes multiple types of learning-relevant information. This spike-encoded information is evident in average firing rates, but finer temporal coding might allow multiplexing and enhanced readout across the connected network. We tested this hypothesis in the fronto-striatal network of nonhuman primates during reversal learning of feature values. We found that populations of neurons encoding choice outcomes, outcome prediction errors, and outcome history in their firing rates also carry significant information in their phase-of-firing at a 10–25 Hz band-limited beta frequency at which they synchronize across lateral prefrontal cortex, anterior cingulate cortex and anterior striatum when outcomes were processed. The phase-of-firing code exceeds information that can be obtained from firing rates alone and is evident for inter-areal connections between anterior cingulate cortex, lateral prefrontal cortex and anterior striatum. For the majority of connections, the phase-of-firing information gain is maximal at phases of the beta cycle that were offset from the preferred spiking phase of neurons. Taken together, these findings document enhanced information of three important learning variables at specific phases of firing in the beta cycle at an inter-areally shared beta oscillation frequency during goal-directed behavior.
Epidemiological and phylogenetic analysis reveals Flavobacteriaceae as potential ancestral source of tigecycline resistance gene tet(X)
Authors: Zhang Rong , Dong Ning , Shen Zhangqi , Zeng Yu , Lu Jiauyue , Liu Congcong , Zhou Hongwei , Hu Yanyan , Sun Qiaoling , Cheng Qipeng , Shu Lingbing , Cai Jiachang , Chan Edward Wai-Chi , Chen Gongxiang , Chen Sheng 
Published: September 2020

AbstractEmergence of tigecycline-resistance tet(X) gene orthologues rendered tigecycline ineffective as last-resort antibiotic. To understand the potential origin and transmission mechanisms of these genes, we survey the prevalence of tet(X) and its orthologues in 2997 clinical E. coli and K. pneumoniae isolates collected nationwide in China with results showing very low prevalence on these two types of strains, 0.32% and 0%, respectively. Further surveillance of tet(X) orthologues in 3692 different clinical Gram-negative bacterial strains collected during 1994–2019 in hospitals in Zhejiang province, China reveals 106 (2.7%) tet(X)-bearing strains with Flavobacteriaceae being the dominant (97/376, 25.8%) bacteria. In addition, tet(X)s are found to be predominantly located on the chromosomes of Flavobacteriaceae and share similar GC-content as Flavobacteriaceae. It also further evolves into different orthologues and transmits among different species. Data from this work suggest that Flavobacteriaceae could be the potential ancestral source of the tigecycline resistance gene tet(X).
Haploinsufficiency of RREB1 causes a Noonan-like RASopathy via epigenetic reprogramming of RAS-MAPK pathway genes
Authors: Kent Oliver A. , Saha Manipa , Coyaud Etienne , Burston Helen E. , Law Napoleon , Dadson Keith , Chen Sujun , Laurent Estelle M. , St-Germain Jonathan , Sun Ren X. , Matsumoto Yoshinori , Cowen Justin , Montgomery-Song Aaryn , Brown Kevin R. , Ishak Charles , Rose Jose La , De Carvalho Daniel D. , He Housheng Hansen , Raught Brian , Billia Filio , Kannu Peter , Rottapel Robert 
Published: September 2020

AbstractRAS-MAPK signaling mediates processes critical to normal development including cell proliferation, survival, and differentiation. Germline mutation of RAS-MAPK genes lead to the Noonan-spectrum of syndromes. Here, we present a patient affected by a 6p-interstitial microdeletion with unknown underlying molecular etiology. Examination of 6p-interstitial microdeletion cases reveals shared clinical features consistent with Noonan-spectrum disorders including short stature, facial dysmorphia and cardiovascular abnormalities. We find the RAS-responsive element binding protein-1 (RREB1) is the common deleted gene in multiple 6p-interstitial microdeletion cases. Rreb1 hemizygous mice display orbital hypertelorism and cardiac hypertrophy phenocopying the human syndrome. Rreb1 haploinsufficiency leads to sensitization of MAPK signaling. Rreb1 recruits Sin3a and Kdm1a to control H3K4 methylation at MAPK pathway gene promoters. Haploinsufficiency of SIN3A and mutations in KDM1A cause syndromes similar to RREB1 haploinsufficiency suggesting genetic perturbation of the RREB1-SIN3A-KDM1A complex represents a new category of RASopathy-like syndromes arising through epigenetic reprogramming of MAPK pathway genes.
Ultralong purely organic aqueous phosphorescence supramolecular polymer for targeted tumor cell imaging
Authors: Zhou Wei-Lei , Chen Yong , Yu Qilin , Zhang Haoyang , Liu Zhi-Xue , Dai Xian-Yin , Li Jing-Jing , Liu Yu 
Published: September 2020

AbstractPurely organic room-temperature phosphorescence has attracted attention for bioimaging but can be quenched in aqueous systems. Here we report a water-soluble ultralong organic room-temperature phosphorescent supramolecular polymer by combining cucurbit[n]uril (CB[7], CB[8]) and hyaluronic acid (HA) as a tumor-targeting ligand conjugated to a 4-(4-bromophenyl)pyridin-1-ium bromide (BrBP) phosphor. The result shows that CB[7] mediated pseudorotaxane polymer CB[7]/HA–BrBP changes from small spherical aggregates to a linear array, whereas complexation with CB[8] results in biaxial pseudorotaxane polymer CB[8]/HA–BrBP which transforms to relatively large aggregates. Owing to the more stable 1:2 inclusion complex between CB[8] and BrBP and the multiple hydrogen bonds, this supramolecular polymer has ultralong purely organic RTP lifetime in water up to 4.33 ms with a quantum yield of 7.58%. Benefiting from the targeting property of HA, this supramolecular polymer is successfully applied for cancer cell targeted phosphorescence imaging of mitochondria.
Aberrant electronic and structural alterations in pressure tuned perovskite NaOsO3
Authors: Sereika Raimundas , Liu Peitao , Kim Bongjae , Kim Sooran , Zhang Jianbo , Chen Bijuan , Yamaura Kazunari , Park Changyong , Franchini Cesare , Ding Yang , Mao Ho-kwang 
Published: September 2020

AbstractThe perovskite NaOsO3 has a metal–insulator transition at temperature 410 K, which is delicate, intriguing, and provokes a lot of debate on its nature. Our combined electrical resistance, Raman, and synchrotron x-ray diffraction experiments show that the insulating ground state in this osmate endures under high pressure up to at least 35 GPa. In this pressure range, compression reveals hidden hysteretic resistance properties with a transient metallic state near 200 K, manifested three electronic character anomalies (at 1.7, 9.0, and 25.5 GPa), and a structural transition to the singular polar phase (at ~18 GPa). We distinguish NaOsO3 from the regular crystallographic behavior of perovskites, though the electrical specificities resemble iridates and nickelates. The theoretical first-principle band structure and lattice dynamics calculations demonstrate that the magnetically itinerant Lifshitz-type mechanism with spin–orbit and spin–phonon interactions is responsible for these pressure-induced changes. Our findings provide another new playground for the emergence of new states in 5d materials by using high-pressure methods.
Mechanisms of indigo naturalis on treating ulcerative colitis explored by GEO gene chips combined with network pharmacology and molecular docking
Authors: Gu Sizhen , Xue Yan , Gao Yang , Shen Shuyang , Zhang Yuli , Chen Kanjun , Xue Shigui , Pan Ji , Tang Yini , Zhu Hui , Wu Huan , Dou Danbo 
Published: September 2020

AbstractOral administration of indigo naturalis (IN) can induce remission in ulcerative colitis (UC); however, the underlying mechanism remains unknown. The main active components and targets of IN were obtained by searching three traditional Chinese medicine network databases such as TCMSP and five Targets fishing databases such as PharmMapper. UC disease targets were obtained from three disease databases such as DrugBank,combined with four GEO gene chips. IN-UC targets were identified by matching the two. A protein–protein interaction network was constructed, and the core targets were screened according to the topological structure. GO and KEGG enrichment analysis and bioGPS localization were performed,and an Herbs-Components-Targets network, a Compound Targets-Organs location network, and a Core Targets-Signal Pathways network were established. Molecular docking technology was used to verify the main compounds-targets. Ten core active components and 184 compound targets of IN-UC, of which 43 were core targets, were enriched and analyzed by bioGPS, GO, and KEGG. The therapeutic effect of IN on UC may involve activation of systemic immunity, which is involved in the regulation of nuclear transcription, protein phosphorylation, cytokine activity, reactive oxygen metabolism, epithelial cell proliferation, and cell apoptosis through Th17 cell differentiation, the Jak-STAT and IL-17 signaling pathways, toll-like and NOD-like receptors, and other cellular and innate immune signaling pathways. The molecular mechanism underlying the effect of IN on inducing UC remission was predicted using a network pharmacology method, thereby providing a theoretical basis for further study of the effective components and mechanism of IN in the treatment of UC.
Climatic variability at Gangtok and Tadong weather observatories in Sikkim, India, during 1961–2017
Authors: Kumar Parvendra , Sharma Milap Chand , Saini Rakesh , Singh Girish Kumar 
Published: September 2020

AbstractThe present study documents the long-term trends in the temperature and precipitation of a poorly represented region, the Sikkim, eastern Himalaya using the Mann–Kendall non-parametric test and the Sen’s slope estimator. Additionally, the normal distribution curves and Cusum charts have been used to identify the shifts in extreme events and to detect the points of change in the climatic data series for robust analysis. The minimum temperatures recorded a positive trend in Gangtok (0.036 ˚C year−1 from 1961 to 2017) as well as in Tadong (0.065 ˚C year−1 from 1981 to 2010) stations, while the maximum temperatures showed no trend in Tadong station from 1981 to 2010 which is consistent with the trend in Gangtok station for the overlapped period. However, it was negative for the overall assessed period (− 0.027 ˚C year−1 from 1961 to 2017) in Gangtok. The average temperatures in Gangtok recorded no trend whereas a positive trend (0.035 ˚C year−1 from 1981 to 2010) was observed at Tadong station. A similar positive trend in the average temperatures has been detected at Gangtok also for the overlapped period. Accelerated warming was noticed during the last two decades with an increase in the probability of extreme events of temperatures (minimum, maximum, average) at the higher end. Precipitation was found to be more variable across the observed period and suggested no trend in the study area.
Identifying risk factors for mortality among patients previously hospitalized for a suicide attempt
Authors: Doshi Riddhi P. , Chen Kun , Wang Fei , Schwartz Harold , Herzog Alfred , Aseltine Robert H. 
Published: September 2020

AbstractAge-adjusted suicide rates in the US have increased over the past two decades across all age groups. The ability to identify risk factors for suicidal behavior is critical to selected and indicated prevention efforts among those at elevated risk of suicide. We used widely available statewide hospitalization data to identify and test the joint predictive power of clinical risk factors associated with death by suicide for patients previously hospitalized for a suicide attempt (N = 19,057). Twenty-eight clinical factors from the prior suicide attempt were found to be significantly associated with the hazard of subsequent suicide mortality. These risk factors and their two-way interactions were used to build a joint predictive model via stepwise regression, in which the predicted individual survival probability was found to be a valid measure of risk for later suicide death. A high-risk group with a four-fold increase in suicide mortality risk was identified based on the out-of-sample predicted survival probabilities. This study demonstrates that the combination of state-level hospital discharge and mortality data can be used to identify suicide attempters who are at high risk of subsequent suicide death.
Predicting the influence of particle size on the glass transition temperature and viscosity of secondary organic material
Authors: Petters Markus , Kasparoglu Sabin 
Published: September 2020

AbstractAtmospheric aerosols can assume liquid, amorphous semi-solid or glassy, and crystalline phase states. Particle phase state plays a critical role in understanding and predicting aerosol impacts on human health, visibility, cloud formation, and climate. Melting point depression increases with decreasing particle diameter and is predicted by the Gibbs–Thompson relationship. This work reviews existing data on the melting point depression to constrain a simple parameterization of the process. The parameter $$\xi $$
ξ
describes the degree to which particle size lowers the melting point and is found to vary between 300 and 1800 K nm for a wide range of particle compositions. The parameterization is used together with existing frameworks for modeling the temperature and RH dependence of viscosity to predict the influence of particle size on the glass transition temperature and viscosity of secondary organic aerosol formed from the oxidation of $$\alpha $$
α
-pinene. Literature data are broadly consistent with the predictions. The model predicts a sharp decrease in viscosity for particles less than 100 nm in diameter. It is computationally efficient and suitable for inclusion in models to evaluate the potential influence of the phase change on atmospheric processes. New experimental data of the size-dependence of particle viscosity for atmospheric aerosol mimics are needed to thoroughly validate the predictions.
Transcriptomic profile analysis of the halophyte Suaeda rigida response and tolerance under NaCl stress
Authors: Han Zhan-Jiang , Sun Yang , Zhang Min , Zhai Jun-Tuan 
Published: September 2020

AbstractSuaeda rigida is a lignified, true haplotype that predominantly grows in the Tarim basin, China. It has significant economic and ecological value. Herein, with aim to determine the genes associated with salt tolerance, transcriptome sequencing was performed on its stem, leaves and root over three set NaCl gradients regimens at treatment intervals of 3 h and 5 days. From our findings, we identified 829,095 unigenes, with 331,394 being successfully matched to at least one annotation database. In roots, under 3 h treatment, no up-regulated DEGs were identified in 100 and 500 mM NaCl treated samples. Under 5 days treatment, 97, 60 and 242 up-regulated DEGs were identified in 100, 300, 500 mM NaCl treated samples, respectively. We identified 50, 22 and 255 down-regulated DEGs in 100, 300, 500 mM NaCl treated samples, respectively. GO biological process enrichment analysis established that down-regulated DEGs were associated with nitrogen compound transport, organic substance transport and intracellular protein transport while the up-regulated genes were enriched in cell wall biogenesis, such as plant-type cell wall biogenesis, cell wall assembly, extracellular matrix organization and plant-type cell wall organization. These findings provide valuable knowledge on genes associated with salt tolerance of Suaeda rigida, and can be applied in other downstream haplotype studies.