bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sensitivity analysis of factors affecting motion reliability of manipulator and fault diagnosis based on kernel principal component analysis
Authors: Yang Jing , Jin Lingyan , Han Zejie , Zhao Deming , Hu Ming 
Published: December 2021

AbstractAs an important index to quantitatively measure the motion performance of a manipulator, motion reliability is affected by many factors, such as joint clearance. The present research utilized a UR10 manipulator as the research object. A factor mapping model for influencing the motion reliability was established. The link flexibility factor, joint flexibility factor, joint clearance factor, and Denavit–Hartenberg (DH) parameters were comprehensively considered in this model. The coupling relationship among the various factors was concisely expressed. Subsequently, the nonlinear response surface method was used to calculate the reliability and sensitivity of the manipulator, which provided an applicable reference for its trajectory planning and motion control. In addition, a data-driven fault diagnosis method based on the kernel principal component analysis (KPCA) was used to verify the motion accuracy and sensitivity of the manipulator, and joint rotation failure was considered as an example to verify the accuracy of the KPCA method. This study on the motion reliability of the manipulator is of great significance for the current motion performance, adjusting the control strategy and optimizing the completion effect of the motion task of a manipulator.
Association between enterovirus infection and clinical type 1 diabetes mellitus: systematic review and meta-analysis of observational studies
Authors: Yang Sen , Zhao BiYing , Zhang Zhen , Dai XiaoLin , Zhang YiLi , Cui LanWei 
Published: December 2021

Abstract
Numerous animal models and epidemiological and observational studies have demonstrated that enterovirus (EV) infection could be involved in the development of clinical type 1 diabetes mellitus (T1DM), but its aetiology is not fully understood. Therefore, we reviewed the association between EV infection and clinical T1DM. We searched PubMed and Embase from inception to April 2021 and reference lists of included studies without any language restrictions in only human studies. The correlation between EV infection and clinical T1DM was calculated as the pooled odds ratio (OR) and 95% confidence intervals (CIs), analysed using random-effects models. Subgroup and sensitivity analyses were performed to evaluate the robustness of the associations. A total of 25 articles (22 case–control studies and three nested case–control studies) met the inclusion criterion including 4854 participants (2948 cases and 1906 controls) with a high level of statistical heterogeneity (I2 = 80%, P < 0.001) mainly attributable to methods of EV detection, study type, age distribution, source of EV sample and control subjects. Meta-analysis showed a significant association between EV infection and clinical T1DM (OR 5.75, 95% CI 3.61–9.61). There is a clinically significant association between clinical T1DM and EV infection.
Social inequalities shape diet composition among urban Colombians: the Colombian Nutritional Profiles cross-sectional study
Authors: Quiroga-Padilla Pedro J , Gaete Paula V , Nieves-Barreto Luz D , Montaño Angélica , Betancourt Eddy C , Mendivil Carlos O 
Published: December 2021

AbstractObjective:To explore the influence of socio-economic position (SEP) on habitual dietary intake in Colombian cities.Design:We conducted a cross-sectional, population-based study in five Colombian cities. Dietary intake was assessed with a 157-item semi-quantitative FFQ previously developed for the Colombian population. Nutrient analysis was performed using national and international food composition tables. SEP was assessed with two indicators: a government-defined, asset-based, household-level index called socio-economic stratum (SES) and, among adults, highest educational level attained.Setting:The five main urban centers of Colombia: Bogotá, Medellin, Barranquilla, Cali and Bucaramanga.Participants:Probabilistic, multi-stage sample of 1865 participants (n 1491 for analyses on education).Results:For both sexes, increasing SES was associated with a lower consumption of energy (P-trend <0·001 in both sexes), carbohydrates (P-trend <0·001 in both sexes), Na (P-trend = 0·005 in males, <0·001 in females), SFA (P-trend <0·001 in both sexes) and among females, cholesterol (P-trend = 0·002). More educated men consumed significantly less energy and carbohydrates (P-trend = 0·036 and <0·001, respectively). Among men, intake of trans fats increased monotonically with educational level, being 21 % higher among college graduates relative to those with only elementary education (P-trend = 0·023). Among women, higher educational level was associated with higher MUFA intake (P-trend = 0·027).Conclusions:SES and educational level are strong correlates of the usual diet of urban Colombians. Economically deprived and less educated segments of society display dietary habits that make them vulnerable to chronic diseases and should be the primary target of public health nutrition policies.
Nordic Seas Heat Loss, Atlantic Inflow, and Arctic Sea Ice Cover Over the Last Century
Authors: Smedsrud Lars H. , Muilwijk Morven , Brakstad Ailin , Madonna Erica , Lauvset Siv K. , Spensberger Clemens , Born Andreas , Eldevik Tor , Drange Helge , Jeansson Emil , Li Camille , Olsen Are , Skagseth Øystein , Slater Donald A. , Straneo Fiamma , Våge Kjetil , Årthun Marius 
Published: December 2021

AbstractPoleward ocean heat transport is a key process in the earth system. We detail and review the northward Atlantic Water (AW) flow, Arctic Ocean heat transport, and heat loss to the atmosphere since 1900 in relation to sea ice cover. Our synthesis is largely based on a sea ice‐ocean model forced by a reanalysis atmosphere (1900–2018) corroborated by a comprehensive hydrographic database (1950–), AW inflow observations (1996–), and other long‐term time series of sea ice extent (1900–), glacier retreat (1984–), and Barents Sea hydrography (1900–). The Arctic Ocean, including the Nordic and Barents Seas, has warmed since the 1970s. This warming is congruent with increased ocean heat transport and sea ice loss and has contributed to the retreat of marine‐terminating glaciers on Greenland. Heat loss to the atmosphere is largest in the Nordic Seas (60% of total) with large variability linked to the frequency of Cold Air Outbreaks and cyclones in the region, but there is no long‐term statistically significant trend. Heat loss from the Barents Sea (∼30%) and Arctic seas farther north (∼10%) is overall smaller, but exhibit large positive trends. The AW inflow, total heat loss to the atmosphere, and dense outflow have all increased since 1900. These are consistently related through theoretical scaling, but the AW inflow increase is also wind‐driven. The Arctic Ocean CO2 uptake has increased by ∼30% over the last century—consistent with Arctic sea ice loss allowing stronger air‐sea interaction and is ∼8% of the global uptake.
Seasonal Variations of Solar‐Induced Fluorescence, Precipitation, and Carbon Dioxide Over the Amazon
Authors: Albright Ronald , Corbett Abigail , Jiang Xun , Creecy Ellen , Newman Sally , Li King‐Fai , Liang Mao‐Chang , Yung Yuk L. 
Published: December 2021

AbstractPrevious studies suggested that the Amazon, the largest rainforest on Earth, changes from a CO2 sink to a CO2 source during the dry/fire season. However, the biospheric contributions to atmospheric CO2 are not well understood during the two main seasons, the dry/fire season and the wet season. In this article, we utilize Orbiting Carbon Observatory 2 (OCO‐2) Solar‐Induced Fluorescence (SIF) to explore photosynthetic activity during the different seasons. The spatiotemporal variability of OCO‐2 SIF, OCO‐2 CO2, precipitation, and burned area are investigated over the Amazon from September 2014 to December 2019. Averaging over the entire Amazon region, we found a positive temporal correlation (0.94) between OCO‐2 SIF and Global Precipitation Climatology Project precipitation and a negative temporal correlation (−0.64) between OCO‐2 SIF and OCO‐2 CO2, consistent with the fact that precipitation enhances photosynthesis, which results in higher values for SIF and rate of removal of CO2 from the atmosphere above the Amazon region. We also observed seasonality in the spatial variability of these variables within the Amazon region. During the dry/fire (August–October) season, low SIF values, low precipitation, high vapor pressure deficit (VPD), large burned areas, and high atmospheric CO2 are mainly found over the southern Amazon region. In contrast, during the wet season (January–March), high SIF values, high precipitation, low VPD, smaller burned areas, and low CO2 are found over both the central and southern Amazon regions. The seasonal difference in SIF suggests that photosynthetic activity is reduced during the dry/fire season relative to the wet season as a result of low precipitation and high VPD, especially over the southern Amazon region, which will contribute to more CO2 in the atmosphere during the dry/fire season.
Depletion of NK6 Homeobox 3 (NKX6.3) causes gastric carcinogenesis through copy number alterations by inducing impairment of DNA replication and repair regulation
Authors: Yoon Jung Hwan , Eun Jung Woo , Ashktorab Hassan , Smoot Duane T. , Kim Jeong kyu , Nam Suk Woo , Park Won Sang 
Published: December 2021

AbstractGenomic stability maintenance requires correct DNA replication, chromosome segregation, and DNA repair, while defects of these processes result in tumor development or cell death. Although abnormalities in DNA replication and repair regulation are proposed as underlying causes for genomic instability, the detailed mechanism remains unclear. Here, we investigated whether NKX6.3 plays a role in the maintenance of genomic stability in gastric epithelial cells. NKX6.3 functioned as a transcription factor for CDT1 and RPA1, and its depletion increased replication fork rate, and fork asymmetry. Notably, we showed that abnormal DNA replication by the depletion of NKX6.3 caused DNA damage and induced homologous recombination inhibition. Depletion of NKX6.3 also caused copy number alterations of various genes in the vast chromosomal region. Hence, our findings underscore NKX6.3 might be a crucial factor of DNA replication and repair regulation from genomic instability in gastric epithelial cells.
Ciliary Hedgehog signaling patterns the digestive system to generate mechanical forces driving elongation
Authors: Yang Ying , Paivinen Pekka , Xie Chang , Krup Alexis Leigh , Makela Tomi P. , Mostov Keith E. , Reiter Jeremy F. 
Published: December 2021

AbstractHow tubular organs elongate is poorly understood. We found that attenuated ciliary Hedgehog signaling in the gut wall impaired patterning of the circumferential smooth muscle and inhibited proliferation and elongation of developing intestine and esophagus. Similarly, ablation of gut-wall smooth muscle cells reduced lengthening. Disruption of ciliary Hedgehog signaling or removal of smooth muscle reduced residual stress within the gut wall and decreased activity of the mechanotransductive effector YAP. Removing YAP in the mesenchyme also reduced proliferation and elongation, but without affecting smooth muscle formation, suggesting that YAP interprets the smooth muscle-generated force to promote longitudinal growth. Additionally, we developed an intestinal culture system that recapitulates the requirements for cilia and mechanical forces in elongation. Pharmacologically activating YAP in this system restored elongation of cilia-deficient intestines. Thus, our results reveal that ciliary Hedgehog signaling patterns the circumferential smooth muscle to generate radial mechanical forces that activate YAP and elongate the gut.
Spatial control of avidity regulates initiation and progression of selective autophagy
Authors: Hollenstein David M. , Licheva Mariya , Konradi Nicole , Schweida David , Mancilla Hector , Mari Muriel , Reggiori Fulvio , Kraft Claudine 
Published: December 2021

AbstractAutophagosomes form at the endoplasmic reticulum in mammals, and between the vacuole and the endoplasmic reticulum in yeast. However, the roles of these sites and the mechanisms regulating autophagosome formation are incompletely understood. Vac8 is required for autophagy and recruits the Atg1 kinase complex to the vacuole. Here we show that Vac8 acts as a central hub to nucleate the phagophore assembly site at the vacuolar membrane during selective autophagy. Vac8 directly recruits the cargo complex via the Atg11 scaffold. In addition, Vac8 recruits the phosphatidylinositol 3-kinase complex independently of autophagy. Cargo-dependent clustering and Vac8-dependent sequestering of these early autophagy factors, along with local Atg1 activation, promote phagophore assembly site assembly at the vacuole. Importantly, ectopic Vac8 redirects autophagosome formation to the nuclear membrane, indicating that the vacuolar membrane is not specifically required. We propose that multiple avidity-driven interactions drive the initiation and progression of selective autophagy.
Cellular variability of nonsense-mediated mRNA decay
Authors: Sato Hanae , Singer Robert H. 
Published: December 2021

AbstractNonsense-mediated mRNA decay (NMD) is an mRNA degradation pathway that eliminates transcripts containing premature termination codons (PTCs). Half-lives of the mRNAs containing PTCs demonstrate that a small percent escape surveillance and do not degrade. It is not known whether this escape represents variable mRNA degradation within cells or, alternatively cells within the population are resistant. Here we demonstrate a single-cell approach with a bi-directional reporter, which expresses two β-globin genes with or without a PTC in the same cell, to characterize the efficiency of NMD in individual cells. We found a broad range of NMD efficiency in the population; some cells degraded essentially all of the mRNAs, while others escaped NMD almost completely. Characterization of NMD efficiency together with NMD regulators in single cells showed cell-to-cell variability of NMD reflects the differential level of surveillance factors, SMG1 and phosphorylated UPF1. A single-cell fluorescent reporter system that enabled detection of NMD using flow cytometry revealed that this escape occurred either by translational readthrough at the PTC or by a failure of mRNA degradation after successful translation termination at the PTC.
Simultaneous two-photon imaging of action potentials and subthreshold inputs in vivo
Authors: Bando Yuki , Wenzel Michael , Yuste Rafael 
Published: December 2021

AbstractTo better understand the input-output computations of neuronal populations, we developed ArcLight-ST, a genetically-encoded voltage indicator, to specifically measure subthreshold membrane potentials. We combined two-photon imaging of voltage and calcium, and successfully discriminated subthreshold inputs and spikes with cellular resolution in vivo. We demonstrate the utility of the method by mapping epileptic seizures progression through cortical circuits, revealing divergent sub- and suprathreshold dynamics within compartmentalized epileptic micronetworks. Two-photon, two-color imaging of calcium and voltage enables mapping of inputs and outputs in neuronal populations in living animals.
Genetic determinants of endophytism in the Arabidopsis root mycobiome
Authors: Mesny Fantin , Miyauchi Shingo , Thiergart Thorsten , Pickel Brigitte , Atanasova Lea , Karlsson Magnus , Hüttel Bruno , Barry Kerrie W. , Haridas Sajeet , Chen Cindy , Bauer Diane , Andreopoulos William , Pangilinan Jasmyn , LaButti Kurt , Riley Robert , Lipzen Anna , Clum Alicia , Drula Elodie , Henrissat Bernard , Kohler Annegret , Grigoriev Igor V. , Martin Francis M. , Hacquard Stéphane 
Published: December 2021

AbstractThe roots of Arabidopsis thaliana host diverse fungal communities that affect plant health and disease states. Here, we sequence the genomes of 41 fungal isolates representative of the A. thaliana root mycobiota for comparative analysis with other 79 plant-associated fungi. Our analyses indicate that root mycobiota members evolved from ancestors with diverse lifestyles and retain large repertoires of plant cell wall-degrading enzymes (PCWDEs) and effector-like small secreted proteins. We identify a set of 84 gene families associated with endophytism, including genes encoding PCWDEs acting on xylan (family GH10) and cellulose (family AA9). Transcripts encoding these enzymes are also part of a conserved transcriptional program activated by phylogenetically-distant mycobiota members upon host contact. Recolonization experiments with individual fungi indicate that strains with detrimental effects in mono-association with the host colonize roots more aggressively than those with beneficial activities, and dominate in natural root samples. Furthermore, we show that the pectin-degrading enzyme family PL1_7 links aggressiveness of endophytic colonization to plant health.
From amino acid mixtures to peptides in liquid sulphur dioxide on early Earth
Authors: Sauer Fabian , Haas Maren , Sydow Constanze , Siegle Alexander F. , Lauer Christoph A. , Trapp Oliver 
Published: December 2021

AbstractThe formation of peptide bonds is one of the most important biochemical reaction steps. Without the development of structurally and catalytically active polymers, there would be no life on our planet. However, the formation of large, complex oligomer systems is prevented by the high thermodynamic barrier of peptide condensation in aqueous solution. Liquid sulphur dioxide proves to be a superior alternative for copper-catalyzed peptide condensations. Compared to water, amino acids are activated in sulphur dioxide, leading to the incorporation of all 20 proteinogenic amino acids into proteins. Strikingly, even extremely low initial reactant concentrations of only 50 mM are sufficient for extensive peptide formation, yielding up to 2.9% of dialanine in 7 days. The reactions carried out at room temperature and the successful use of the Hadean mineral covellite (CuS) as a catalyst, suggest a volcanic environment for the formation of the peptide world on early Earth.
Interdependent iron and phosphorus availability controls photosynthesis through retrograde signaling
Authors: Nam Hye-In , Shahzad Zaigham , Dorone Yanniv , Clowez Sophie , Zhao Kangmei , Bouain Nadia , Lay-Pruitt Katerina S. , Cho Huikyong , Rhee Seung Y. , Rouached Hatem 
Published: December 2021

AbstractIron deficiency hampers photosynthesis and is associated with chlorosis. We recently showed that iron deficiency-induced chlorosis depends on phosphorus availability. How plants integrate these cues to control chlorophyll accumulation is unknown. Here, we show that iron limitation downregulates photosynthesis genes in a phosphorus-dependent manner. Using transcriptomics and genome-wide association analysis, we identify two genes,PHT4;4encoding a chloroplastic ascorbate transporter andbZIP58, encoding a nuclear transcription factor, which prevent the downregulation of photosynthesis genes leading to the stay-green phenotype under iron-phosphorus deficiency. Joint limitation of these nutrients induces ascorbate accumulation by activating expression of an ascorbate biosynthesis gene,VTC4, which requires bZIP58. Furthermore, we demonstrate that chloroplastic ascorbate transport prevents the downregulation of photosynthesis genes under iron-phosphorus combined deficiency through modulation of ROS homeostasis. Our study uncovers a ROS-mediated chloroplastic retrograde signaling pathway to adapt photosynthesis to nutrient availability.
A Mo5N6 electrocatalyst for efficient Na2S electrodeposition in room-temperature sodium-sulfur batteries
Authors: Ye Chao , Jin Huanyu , Shan Jieqiong , Jiao Yan , Li Huan , Gu Qinfen , Davey Kenneth , Wang Haihui , Qiao Shi-Zhang 
Published: December 2021

AbstractMetal sulfides electrodeposition in sulfur cathodes mitigates the shuttle effect of polysulfides to achieve high Coulombic efficiency in secondary metal-sulfur batteries. However, fundamental understanding of metal sulfides electrodeposition and kinetics mechanism remains limited. Here using room-temperature sodium-sulfur cells as a model system, we report a Mo5N6 cathode material that enables efficient Na2S electrodeposition to achieve an initial discharge capacity of 512 mAh g−1 at a specific current of 1 675 mA g−1, and a final discharge capacity of 186 mAh g−1 after 10,000 cycles. Combined analyses from synchrotron-based spectroscopic characterizations, electrochemical kinetics measurements and density functional theory computations confirm that the high d-band position results in a low Na2S2 dissociation free energy for Mo5N6. This promotes Na2S electrodeposition, and thereby favours long-term cell cycling performance.
A machine learning approach to Bayesian parameter estimation
Authors: Nolan Samuel , Smerzi Augusto , Pezzè Luca 
Published: December 2021

AbstractBayesian estimation is a powerful theoretical paradigm for the operation of the approach to parameter estimation. However, the Bayesian method for statistical inference generally suffers from demanding calibration requirements that have so far restricted its use to systems that can be explicitly modeled. In this theoretical study, we formulate parameter estimation as a classification task and use artificial neural networks to efficiently perform Bayesian estimation. We show that the network’s posterior distribution is centered at the true (unknown) value of the parameter within an uncertainty given by the inverse Fisher information, representing the ultimate sensitivity limit for the given apparatus. When only a limited number of calibration measurements are available, our machine-learning-based procedure outperforms standard calibration methods. Our machine-learning-based procedure is model independent, and is thus well suited to “black-box sensors”, which lack simple explicit fitting models. Thus, our work paves the way for Bayesian quantum sensors that can take advantage of complex nonclassical quantum states and/or adaptive protocols. These capabilities can significantly enhance the sensitivity of future devices.
Combined effects of glycan chain length and linkage type on the immunogenicity of glycoconjugate vaccines
Authors: Anish Chakkumkal , Beurret Michel , Poolman Jan 
Published: December 2021

AbstractThe development and use of antibacterial glycoconjugate vaccines have significantly reduced the occurrence of potentially fatal childhood and adult diseases such as bacteremia, bacterial meningitis, and pneumonia. In these vaccines, the covalent linkage of bacterial glycans to carrier proteins augments the immunogenicity of saccharide antigens by triggering T cell-dependent B cell responses, leading to high-affinity antibodies and durable protection. Licensed glycoconjugate vaccines either contain long-chain bacterial polysaccharides, medium-sized oligosaccharides, or short synthetic glycans. Here, we discuss factors that affect the glycan chain length in vaccines and review the available literature discussing the impact of glycan chain length on vaccine efficacy. Furthermore, we evaluate the available clinical data on licensed glycoconjugate vaccine preparations with varying chain lengths against two bacterial pathogens, Haemophilus influenzae type b and Neisseria meningitidis group C, regarding a possible correlation of glycan chain length with their efficacy. We find that long-chain glycans cross-linked to carrier proteins and medium-sized oligosaccharides end-linked to carriers both achieve high immunogenicity and efficacy. However, end-linked glycoconjugates that contain long untethered stretches of native glycan chains may induce hyporesponsiveness by T cell-independent activation of B cells, while cross-linked medium-sized oligosaccharides may suffer from suboptimal saccharide epitope accessibility.