bluuebunny/crossref_metadata_2025_split huggingface dataset:
Biophysical Controls of Ecosystem‐Scale Methane Fluxes From a Subtropical Estuarine Mangrove: Multiscale, Nonlinearity, Asynchrony and Causality
Authors: Liu Jiangong , Valach Alex , Baldocchi Dennis , Lai Derrick Y. F. 
Published: May 2022

AbstractMangroves are complex ecosystems subject to periodic and irregular changes in meteorology, tides, water quality and biological factors. Methane dynamics in mangroves and their dependence on biogeochemical controls across scales are poorly characterized using traditional parametric statistics. We measured the ecosystem‐scale methane flux (FCH4) using an eddy covariance system in a subtropical estuarine mangrove for two years. A combination of nonparametric statistical approaches, including singular spectrum analysis and information theory, was used to isolate multiscale FCH4 variations and explore their variability and dominant controls at different time scales. FCH4 exhibited the largest variability at the diel scale (57%), followed by seasonal (25%) and multiday (18%) scales. Mutual information metrics suggested that variation in FCH4 was dominantly coupled to plant activities through synchronous processes at the diel scale. Moreover, fluctuations in atmospheric turbulence and soil temperature dominated multiday variation in FCH4 through asynchronous processes. Seasonally, soil temperature and water salinity were dominant variables leading to changes in FCH4 with a time lag of 12 and 17 days, respectively. Weak links between FCH4 and tidal heights were found across all the studied time scales. Transfer entropy metrics indicated that a super typhoon event substantially weakened causal links between biophysical variables and FCH4 by causing severe defoliation and disturbing the soil microbial community. The typhoon also temporarily decoupled the causal link between FCH4 and temperature. These findings call for the inclusion of the properties of scale emergence, nonlinearity, asynchrony and causality for comprehensively understanding and accurately predicting the interactions between mangrove FCH4 and its biophysical controls.
Detrital Carbonate Minerals in Earth's Element Cycles
Authors: Müller Gerrit , Börker Janine , Sluijs Appy , Middelburg Jack J. 
Published: May 2022

AbstractWe investigate if the commonly neglected riverine detrital carbonate fluxes might reconciliate several chemical mass balances of the global ocean. Particulate inorganic carbon (PIC) concentrations in riverine suspended sediments, that is, carbon contained by these detrital carbonate minerals, were quantified at the basin and global scale. Our approach is based on globally representative data sets of riverine suspended sediment composition, catchment properties, and a two‐step regression procedure. The present‐day global riverine PIC flux is estimated at 3.1 ± 0.3 Tmol C/y (13% of total inorganic carbon export and 4% of total carbon export) with a flux‐weighted mean concentration of 0.26 ± 0.03 wt%. The flux prior to damming was 4.1 ± 0.5 Tmol C/y. PIC fluxes are concentrated in limestone‐rich, rather dry and mountainous catchments of large rivers near Arabia, South East Asia, and Europe with 2.2 Tmol C/y (67.6%) discharged between 15°N and 45°N. Greenlandic and Antarctic meltwater discharge and ice‐rafting additionally contribute 0.8 ± 0.3 Tmol C/y. This amount of detrital carbonate minerals annually discharged into the ocean implies a significant contribution of calcium (∼4.75 Tmol Ca/y) and alkalinity fluxes (∼10 Tmol (eq)/y) to marine mass balances and moderate inputs of strontium (∼5 Gmol Sr/y) based on undisturbed riverine and cryospheric inputs and a dolomite/calcite ratio of 0.1. Magnesium fluxes (∼0.25 Tmol Mg/y), mostly hosted by less‐soluble dolomite, are rather negligible. These unaccounted fluxes help in elucidating respective marine mass balances and potentially alter conclusions based on these budgets.
Differences in Ozone and Particulate Matter Between Ground Level and 20 m Aloft are Frequent During Wintertime Surface‐Based Temperature Inversions in Fairbanks, Alaska
Authors: Cesler‐Maloney Meeta , Simpson William R. , Miles Tate , Mao Jingqiu , Law Kathy S. , Roberts Tjarda J. 
Published: May 2022

AbstractDuring winter in Fairbanks, Alaska, fine particulate matter (PM2.5) accumulates to large concentrations at breathing level; yet little is known about atmospheric composition aloft. To investigate vertical differences of pollutants, we measured PM2.5 and ozone (O3) at 3 and 20 m above ground level (AGL) in Fairbanks during winter (November 2019–March 2020). We measured temperature and PM2.5 at 3, 6, 9, and 11 m AGL on a tower to quantify surface‐based temperature inversions (SBIs) and near‐surface PM2.5 gradients. We defined SBIs as data with an 11 m minus 3 m temperature difference greater than 0.5°C. We observed the largest differences in PM2.5 and O3 when SBIs were present. During SBIs, PM2.5 accumulated to large concentrations at 3 m but to a lesser extent at 20 m, demonstrating reduced vertical mixing. During SBIs, the median PM2.5 concentration was 4.8 μg m−3 lower at 20 m than at 3 m. When PM2.5 concentrations were large at 3 m, O3 was often completely chemically removed (titrated) but was still present at 20 m. During SBIs, the O3 mixing ratio was more than 2 nmol mol−1 larger at 20 m than at 3 m in 48% of the data. Results show that during SBIs, pollution in Fairbanks is mixed to altitudes below 20 m AGL and that the oxidation regime of the atmosphere changes from 3 to 20 m AGL as large differences in O3 mixing ratios were measured during SBIs.
Stratosphere‐Troposphere Exchanges of Air Mass and Ozone Concentration in the Last Glacial Maximum
Authors: Wang Mingcheng , Fu Qiang , Solomon Susan , Alexander Becky , White Rachel H. 
Published: May 2022

AbstractStratosphere‐troposphere exchange (STE) of ozone represents a significant source term in the tropospheric ozone budget and can impact surface ozone concentrations, tropospheric oxidation capacity, and methane lifetime. Using the Whole Atmosphere Community Climate Model 6, changes in the air mass and ozone STEs in the Last Glacial Maximum (LGM) as compared with preindustrial (PI) climate are investigated. We use dynamic isentropic surfaces that are determined by fitting to the tropical tropopauses as the upper boundary of the lowermost stratosphere in a mass budget approach, a method particularly suitable for estimating air mass and ozone STEs across different climates. Relative to the PI, the magnitude of ozone STE in the LGM is decreased by 14%–19%, 18%–24%, 18%–23%, 16%–21%, and 15%–21% over the Northern hemisphere extratropics, Southern hemisphere extratropics, the tropics, the extratropics, and the globe, respectively. The extratropical and global decreases are mainly caused by decreased ozone in the extratropical lower stratosphere associated with a weakening of Brewer‐Dobson circulation, while changes in air mass fluxes play a minor role because the effects of weakening Brewer‐Dobson circulation and increased isentropic density partly cancel each other. Analysis of the modeled tropospheric ozone budget indicates that the ozone STE in the LGM is 28% of the tropospheric ozone production rate, as compared to about 9% in the modern climate (year 2000) and 19% in the PI.
Challenges in Scaling Up Greenhouse Gas Fluxes: Experience From the UK Greenhouse Gas Emissions and Feedbacks Program
Authors: Levy Peter , Clement Robert , Cowan Nick , Keane Ben , Myrgiotis Vasilis , van Oijen Marcel , Smallman T. Luke , Toet Sylvia , Williams Mathew 
Published: May 2022

AbstractThe role of greenhouse gases (GHGs) in global climate change is now well recognized and there is a clear need to measure emissions and verify the efficacy of mitigation measures. To this end, reliable estimates are needed of the GHG balance at the national scale and over long time periods, but these estimates are difficult to make accurately. Because measurement techniques are generally restricted to relatively small spatial and temporal scales, there is a fundamental problem in translating these into long‐term estimates on a regional scale. The key challenge lies in spatial and temporal upscaling of short‐term, point observations to estimate large‐scale annual totals, and quantify the uncertainty associated with this upscaling. Here, we review some approaches to this problem and synthesize the work in the recent UK Greenhouse Gas Emissions and Feedbacks Program, which was designed to identify and address these challenges. Approaches to the scaling problem included: instrumentation developments which mean that near‐continuous data sets can be produced with larger spatial coverage; geostatistical methods which address the problem of extrapolating to larger domains, using spatial information in the data; more rigorous statistical methods which characterize the uncertainty in extrapolating to longer time scales; analytical approaches to estimating model aggregation error; enhanced estimates of C flux measurement error; and novel uses of remote sensing data to calibrate process models for generating probabilistic regional C flux estimates.
Reconstructing Daily Discharge in a Megadelta Using Machine Learning Techniques
Authors: Thanh Hung Vo , Binh Doan Van , Kantoush Sameh A. , Nourani Vahid , Saber Mohamed , Lee Kang‐Kun , Sumi Tetsuya 
Published: May 2022

AbstractIn this study, six machine learning (ML) models, namely, random forest (RF), Gaussian process regression (GPR), support vector regression (SVR), decision tree (DT), least squares support vector machine (LSSVM), and multivariate adaptive regression spline (MARS) models, were employed to reconstruct the missing daily‐averaged discharge in a mega‐delta from 1980 to 2015 using upstream‐downstream multi‐station data. The performance and accuracy of each ML model were assessed and compared with the stage‐discharge rating curves (RCs) using four statistical indicators, Taylor diagrams, violin plots, scatter plots, time‐series plots, and heatmaps. Model input selection was performed using mutual information and correlation coefficient methods after three data pre‐processing steps: normalization, Fourier series fitting, and first‐order differencing. The results showed that the ML models are superior to their RC counterparts, and MARS and RF are the most reliable algorithms, although MARS achieves marginally better performance than RF. Compared to RC, MARS and RF reduced the root mean square error (RMSE) by 135% and 141% and the mean absolute error by 194% and 179%, respectively, using year‐round data. However, the performance of MARS and RF developed for the climbing (wet season) and recession (dry season) limbs separately worsened slightly compared to that developed using the year‐round data. Specifically, the RMSE of MARS and RF in the falling limb was 856 and 1,040 m3/s, respectively, while that obtained using the year‐round data was 768 and 789 m3/s, respectively. In this study, the DT model is not recommended, while the GPR and SVR models provide acceptable results.
Identification of Unstable Glacier Flow in the Western Tibetan Plateau and Karakoram Using Machine Learning
Authors: Zhu Q. H. , Ke C. Q. , Li H. L. , Yu X. N. 
Published: May 2022

AbstractA novel method was developed for rapidly and accurately identifying unstable glacier flows, including pulse and surge events. The identification method was based on machine learning and high‐frequency glacier velocities derived from short time interval Sentinel‐1 Synthetic Aperture Radar (SAR) data. The method was built and tested using 32 glaciers in the eastern Pamir Plateau and applied it to 13 glaciers in western Karakoram. The test results showed that the success rate of identifying speedup events was more than 90% compared to manual interpretation results derived using velocity change maps and DEM differencing. The application results showed that there were some neglected pulse events, including two pulses on the Kukuar Glacier in 2017 and 2019, one pulse on the Karambar Glacier in 2017, and one pulse on the Ghulkin Glacier in 2016. Moreover, a complete surge event with multiple scattered pulses on the Shispare Glacier in 2018–2019 was also detected. The speedup events of the Shispare Glacier indicated the possibility of mutual transformation between pulse and surge events due to the influence of glacier basal roughness. In all unstable flows occurring within the test and application areas, pulse events could be observed on the nonsurging glaciers during the active phase and quiescent phase of the surge‐type glaciers, which might suggest the randomness of pulse events. Machine learning method made it possible to identify glacier speedup events in large areas with high efficiency and low manpower.
RUNX2 recruits the NuRD(MTA1)/CRL4B complex to promote breast cancer progression and bone metastasis
Authors: Yin Xin , Teng Xu , Ma Tianyu , Yang Tianshu , Zhang Jingyao , Huo Miaomiao , Liu Wei , Yang Yunkai , Yuan Baowen , Yu Hefen , Huang Wei , Wang Yan 
Published: May 2022

AbstractRunt-related transcription factor 2 (RUNX2) is an osteogenesis-related transcription factor that has emerged as a prominent transcription repressing factor in carcinogenesis. However, the role of RUNX2 in breast cancer metastasis remains poorly understood. Here, we show that RUNX2 recruits the metastasis-associated 1 (MTA1)/NuRD and the Cullin 4B (CUL4B)-Ring E3 ligase (CRL4B) complex to form a transcriptional-repressive complex, which catalyzes the histone deacetylation and ubiquitylation. Genome-wide analysis of the RUNX2/NuRD(MTA1)/CRL4B complex targets identified a cohort of genes including peroxisome proliferator-activated receptor alpha (PPARα) and superoxide dismutase 2 (SOD2), which are critically involved in cell growth, epithelial-to-mesenchymal transition (EMT) and invasion. We demonstrate that the RUNX2/NuRD(MTA1)/CRL4B complex promotes the proliferation, invasion, tumorigenesis, bone metastasis, cancer stemness of breast cancer in vitro and in vivo. Strikingly, RUNX2 expression is upregulated in multiple human carcinomas, including breast cancer. Our study suggests that RUNX2 is a promising potential target for the future treatment strategies of breast cancer.
Spatiotemporal bio-shielding of bacteria through consolidated geometrical structuring
Authors: Rajasekharan Satish Kumar , Shemesh Moshe 
Published: May 2022

AbstractThe probiotic bacterium Lactobacillus plantarum is often reckoned as a ‘generalist’ for its ability to adapt and survive in diverse ecological niches. The genomic signatures of L. plantarum have shown its intricate evolutionary ancestry and dynamic lifestyles. Here, we report on a unique geometrical arrangement of the multicellular population of L. plantarum cells. Prominently, a phenomenon of the cone-shaped colony formation and V-shaped cell chaining are discovered in response to the acidic-pH environment. Moreover, subsequent cold stress response triggers an unusual cellular arrangement of consolidated bundles, which appeared to be independently governed by a small heat shock protein (HSP 1). We further report that the V-shaped L. plantarum chaining demonstrates potent antagonistic activity against Candida albicans, a pathogenic yeast, both in vitro and in a Caenorhabditis elegans co-infection model. Finally, we deduce that the multifaceted traits manifested by this probiotic bacterium is an outcome of its dynamic flexibility and cellular heterogeneity.
PAM50 subtyping and ROR score add long-term prognostic information in premenopausal breast cancer patients
Authors: Lundgren Christine , Bendahl Pär-Ola , Church Sarah E. , Ekholm Maria , Fernö Mårten , Forsare Carina , Krüger Ute , Nordenskjöld Bo , Stål Olle , Rydén Lisa 
Published: May 2022

AbstractPAM50 intrinsic subtyping and risk of recurrence (ROR) score are approved for risk profiling in postmenopausal women. We aimed to examine their long-term prognostic value in terms of breast cancer-free interval (BCFi) and overall survival (OS) (n = 437) in premenopausal women randomised to 2 years of tamoxifen versus no systemic treatment irrespective of hormone-receptor status. Intrinsic subtyping added independent prognostic information in patients with oestrogen receptor-positive/human epidermal growth factor 2-negative tumours for BCFi and OS after maximum follow-up (overall P-value 0.02 and 0.006, respectively) and those with high versus low ROR had worse prognosis (maximum follow-up: hazard ratio (HR)BCFi: 1.70, P = 0.04). The prognostic information by ROR was similar regarding OS and in multivariable analysis. These results support that PAM50 subtyping and ROR score provide long-term prognostic information in premenopausal women. Moreover, tamoxifen reduced the incidence of breast cancer events only in patients with Luminal APAM50 tumours (0–10 years: HRBCFi(Luminal A): 0.41, HRBCFi(Luminal B): 1.19, Pinteraction = 0.02).Trial registration: This trial is registered in the ISRCTN database, trial ID: ISRCTN12474687.
Claudin18.2-specific CAR T cells in gastrointestinal cancers: phase 1 trial interim results
Authors: Qi Changsong , Gong Jifang , Li Jian , Liu Dan , Qin Yanru , Ge Sai , Zhang Miao , Peng Zhi , Zhou Jun , Cao Yanshuo , Zhang Xiaotian , Lu Zhihao , Lu Ming , Yuan Jiajia , Wang Zhenghang , Wang Yakun , Peng Xiaohui , Gao Huiping , Liu Zhen , Wang Huamao , Yuan Daijing , Xiao Jun , Ma Hong , Wang Wei , Li Zonghai , Shen Lin 
Published: May 2022

Abstract
Despite success in hematologic malignancies, the treatment landscape of chimeric antigen receptor (CAR) T cell therapy for solid tumors remains limited. Claudin18.2 (CLDN18.2)-redirected CAR T cells showed promising efficacy against gastric cancer (GC) in a preclinical study. Here we report the interim analysis results of an ongoing, open-label, single-arm, phase 1 clinical trial of CLDN18.2-targeted CAR T cells (CT041) in patients with previously treated, CLDN18.2-positive digestive system cancers (NCT03874897). The primary objective was safety after CT041 infusion; secondary objectives included CT041 efficacy, pharmacokinetics and immunogenicity. We treated 37 patients with one of three CT041 doses: 2.5 × 108, 3.75 × 108 or 5.0 × 108 cells. All patients experienced a grade 3 or higher hematologic toxicity. Grade 1 or 2 cytokine release syndrome (CRS) occurred in 94.6% of patients. No grade 3 or higher CRS or neurotoxicities, treatment-related deaths or dose-limiting toxicities were reported. The overall response rate (ORR) and disease control rate (DCR) reached 48.6% and 73.0%, respectively. The 6-month duration of response rate was 44.8%. In patients with GC, the ORR and DCR reached 57.1% and 75.0%, respectively, and the 6-month overall survival rate was 81.2%. These initial results suggest that CT041 has promising efficacy with an acceptable safety profile in patients with heavily pretreated, CLDN18.2-positive digestive system cancers, particularly in those with GC.
Precision size and refractive index analysis of weakly scattering nanoparticles in polydispersions
Authors: Kashkanova Anna D. , Blessing Martin , Gemeinhardt André , Soulat Didier , Sandoghdar Vahid 
Published: May 2022

AbstractCharacterization of the size and material properties of particles in liquid suspensions is in very high demand, for example, in the analysis of colloidal samples or of bodily fluids such as urine or blood plasma. However, existing methods are limited in their ability to decipher the constituents of realistic samples. Here we introduce iNTA as a new method that combines interferometric detection of scattering with nanoparticle tracking analysis to reach unprecedented sensitivity and precision in determining the size and refractive index distributions of nanoparticles in suspensions. After benchmarking iNTA with samples of colloidal gold, we present its remarkable ability to resolve the constituents of various multicomponent and polydisperse samples of known origin. Furthermore, we showcase the method by elucidating the refractive index and size distributions of extracellular vesicles from Leishmania parasites and human urine. The current performance of iNTA already enables advances in several important applications, but we also discuss possible improvements.
Comparative proteome analysis of the tegument of male and female adult Schistosoma mansoni
Authors: Winkelmann Franziska , Gesell Salazar Manuela , Hentschker Christian , Michalik Stephan , Macháček Tomáš , Scharf Christian , Reisinger Emil C. , Völker Uwe , Sombetzki Martina 
Published: May 2022

AbstractThe tegument, as the surface layer of adult male and female Schistosoma spp. represents the protective barrier of the worms to the hostile environment of the host bloodstream. Here we present the first comparative analysis of sex-specific tegument proteins of paired or virgin Schistosoma mansoni. We applied a new and highly sensitive workflow, allowing detection of even low abundance proteins. Therefore, a streptavidin–biotin affinity purification technique in combination with single pot solid-phase enhanced sample preparation was established for subsequent LC–MS/MS analysis. We were able to identify 1519 tegument proteins for male and female virgin and paired worms and categorized them by sex. Bioinformatic analysis revealed an involvement of female-specific tegument proteins in signaling pathways of cellular processes and antioxidant mechanisms. Male-specific proteins were found to be enriched in processes linked to phosphorylation and signal transduction. This suggests a task sharing between the sexes that might be necessary for survival in the host. Our datasets provide a basis for further studies to understand and ultimately decipher the strategies of the two worm sexes to evade the immune system.
Experimental validation of a voxel-based finite element model simulating femoroplasty of lytic lesions in the proximal femur
Authors: Sas Amelie , Sermon An , van Lenthe G. Harry 
Published: May 2022

AbstractFemoroplasty is a procedure where bone cement is injected percutaneously into a weakened proximal femur. Uncertainty exists whether femoroplasty provides sufficient mechanical strengthening to prevent fractures in patients with femoral bone metastases. Finite element models are promising tools to evaluate the mechanical effectiveness of femoroplasty, but a thorough validation is required. This study validated a voxel-based finite element model against experimental data from eight pairs of human cadaver femurs with artificial metastatic lesions. One femur from each pair was left untreated, while the contralateral femur was augmented with bone cement. Finite element models accurately predicted the femoral strength in the defect (R2 = 0.96) and augmented (R2 = 0.93) femurs. The modelled surface strain distributions showed a good qualitative match with results from digital image correlation; yet, quantitatively, only moderate correlation coefficients were found for the defect (mean R2 = 0.78) and augmented (mean R2 = 0.76) femurs. This was attributed to the presence of vessel holes in the femurs and the jagged surface representation of our voxel-based models. Despite some inaccuracies in the surface measurements, the FE models accurately predicted the global bone strength and qualitative deformation behavior, both before and after femoroplasty. Hence, they can offer a useful biomechanical tool to assist clinicians in assessing the need for prophylactic augmentation in patients with metastatic bone disease, as well as in identifying suitable patients for femoroplasty.