bluuebunny/crossref_metadata_2025_split huggingface dataset:
Coupled Evolution of Deformation, Pore Fluid Pressure, and Fluid Flow in Shallow Subduction Forearcs
Authors: Sun Tianhaozhe , Ellis Susan , Saffer Demian 
Published: March 2020

AbstractDeformation and fluid flow in subduction zone forearcs are dynamically coupled, but our quantitative understanding of their coupling is incomplete. In this work, we investigate the hydrological and mechanical coupling in shallow forearcs, using a Lagrangian‐Eulerian finite element model that incorporates constitutive and transport properties of sediments and faults constrained by laboratory and field measurements. Wide‐ranging observations show that sediment thickness and composition, plate convergence rate, basement strength and roughness, and subducting slab dip angle vary between subduction zones. We therefore systematically study their effects on forearc stress and pore fluid pressure states, consolidation and dewatering patterns, and margin morphology. Our models, with the incorporation of a simple description of permeability enhancement along fault damage zones, yield a range of fault permeability (10−13–10−17 m2) consistent with previous estimates and describe the important role of upper plate splay faults in causing heterogeneous dewatering and consolidation patterns and in modulating effective normal stress on the plate interface. Spatial variations in tectonic loading and sediment consolidation can also be caused by subducting basement roughness such as a horst‐and‐graben structure. For typically observed relief and spacing, our models predict locally enhanced porosity reduction by up to 50% at the downdip edge of the horsts and anomalously high sediment porosity above the geometrical highs. At the margin scale, our results demonstrate that sediment permeability and thickness are dominant controls on fluid overpressure, sediment compaction, and megathrust strength. Rough and frictionally strong megathrusts produce similar effects in driving high wedge tapers.
Groundwater Management in the Borderlands of Mexico and Texas: The Beauty of the Unknown, the Negligence of the Present, and the Way Forward
Authors: Sanchez Rosario , Eckstein Gabriel 
Published: March 2020

AbstractOver the last decade, transboundary aquifers traversing the Mexico‐Texas border have generated growing interest of federal institutions on the Mexico side and state and federal institutions on the Texas side. Notwithstanding this, binational efforts to understand, assess, and manage shared groundwater resources remain limited and politically sensitive. On the Mexico side, long‐standing centralized groundwater governance structures have created institutional barriers at the local level to the expansion of knowledge and cooperation over these transboundary resources. On the Texas side, property rights related to groundwater resources limit the scope of options available for cooperative management of cross‐border aquifers. This paper examines stakeholders' perspectives on the borderland between Mexico and Texas through 44 surveys and personal interviews. Findings show that stakeholders appear to support a binational groundwater agreement as a means for assuring the sound long‐term management of transboundary groundwater resources in the border region; however, the majority of stakeholders also suggest that short‐term local or regional arrangements may be preferable over binational agreements as local/regional approaches may be more achievable or realistic. Second, participants identified leadership and individual personalities as key factors for success at the local level but noted that such influence had limited sustainability and limited regional‐systemic effects. Third, the stakeholders indicated that water quality, rather than water quantity, is the main driver of transboundary cooperation efforts in the region. Fourth, participants suggested that failures and successes in groundwater cooperation efforts are based more on fear and political lobbying than on understanding of scientific facts.
Improved Understanding of the Link Between Catchment‐Scale Vegetation Accessible Storage and Satellite‐Derived Soil Water Index
Authors: Bouaziz Laurène J. E. , Steele‐Dunne Susan C. , Schellekens Jaap , Weerts Albrecht H. , Stam Jasper , Sprokkereef Eric , Winsemius Hessel H. C. , Savenije Hubert H. G. , Hrachowitz Markus 
Published: March 2020

AbstractThe spatiotemporal dynamics of water volumes stored in the unsaturated root zone are a key control on the response of terrestrial hydrological systems. Robust, catchment‐scale root‐zone soil moisture estimates are thus critical for reliable predictions of river flow, groundwater recharge, or evaporation. Satellites provide estimates of near‐surface soil moisture that can be used to approximate the moisture content in the entire unsaturated root zone through the Soil Water Index (SWI). The characteristic time length (T, in days), as only parameter in the SWI approach, characterizes the temporal variability of soil moisture. The factors controlling T are typically assumed to be related to soil properties and climate; however, no clear link has so far been established. In this study, we hypothesize that optimal T values (Topt) are linked to the interplay of precipitation and evaporation during dry periods, thus to catchment‐scale vegetation accessible water storage capacities in the unsaturated root zone. We identify Topt by matching modeled time series of root‐zone soil moisture from a calibrated process‐based hydrological model to SWI from several satellite‐based near‐surface soil moisture products in 16 contrasting catchments in the Meuse river basin. Topt values are strongly and positively correlated with vegetation accessible water volumes that can be stored in the root zone, here estimated for each study catchment both as model calibration parameter and from a water‐balance approach. Differences in Topt across catchments are also explained by land cover (% agriculture), soil texture (% silt), and runoff signatures (flashiness index).
From the Ground to Space: Using Solar‐Induced Chlorophyll Fluorescence to Estimate Crop Productivity
Authors: He Liyin , Magney Troy , Dutta Debsunder , Yin Yi , Köhler Philipp , Grossmann Katja , Stutz Jochen , Dold Christian , Hatfield Jerry , Guan Kaiyu , Peng Bin , Frankenberg Christian 
Published: March 2020

AbstractTimely and accurate monitoring of crops is essential for food security. Here, we examine how well solar‐induced chlorophyll fluorescence (SIF) can inform crop productivity across the United States. Based on tower‐level observations and process‐based modeling, we find highly linear gross primary production (GPP):SIF relationships for C4 crops, while C3 crops show some saturation of GPP at high light when SIF continues to increase. C4 crops yield higher GPP:SIF ratios (30–50%) primarily because SIF is most sensitive to the light reactions (does not account for photorespiration). Scaling to the satellite, we compare SIF from the TROPOspheric Monitoring Instrument (TROPOMI) against tower‐derived GPP and county‐level crop statistics. Temporally, TROPOMI SIF strongly agrees with GPP observations upscaled across a corn and soybean dominated cropland (R2 = 0.89). Spatially, county‐level TROPOMI SIF correlates with crop productivity (R2 = 0.72; 0.86 when accounting for planted area and C3/C4 contributions), highlighting the potential of SIF for reliable crop monitoring.
Validation of nomogram-revised risk index and comparison with other models for extranodal nasal-type NK/T-cell lymphoma in the modern chemotherapy era: indication for prognostication and clinical decision-making
Authors: Chen Si-Ye , Yang Yong , Qi Shu-Nan , Wang Ying , Hu Chen , He Xia , Zhang Li-Ling , Wu Gang , Qu Bao-Lin , Qian Li-Ting , Hou Xiao-Rong , Zhang Fu-Quan , Qiao Xue-Ying , Wang Hua , Li Gao-Feng , Zhang Yu-Jing , Zhu Yuan , Cao Jian-Zhong , Lan Sheng-Min , Wu Jun-Xin , Wu Tao , Zhu Su-Yu , Shi Mei , Xu Li-Ming , Yuan Zhi-Yong , Yahalom Joachim , Tsang Richard , Song Yu-Qin , Zhu Jun , Su Hang , Li Ye-Xiong 
Published: March 2020

AbstractDerived from our original nomogram study by using the risk variables from multivariable analyses in the derivation cohort of 1383 patients with extranodal NK/T-cell lymphoma, nasal-type (ENKTCL) who were mostly treated with anthracycline-based chemotherapy, we propose an easily used nomogram-revised risk index (NRI), validated it and compared with Ann Arbor staging, the International Prognostic Index (IPI), Korean Prognostic Index (KPI), and prognostic index of natural killer lymphoma (PINK) for overall survival (OS) prediction by examining calibration, discrimination, and decision curve analysis in a validation cohort of 1582 patients primarily treated with non-anthracycline-based chemotherapy. The calibration of the NRI showed satisfactory for predicting 3- and 5-year OS in the validation cohort. The Harrell’s C-index and integrated Brier score (IBS) of the NRI for OS prediction demonstrated a better performance than that of the Ann Arbor staging system, IPI, KPI, and PINK. Decision curve analysis of the NRI also showed a superior outcome. The NRI is a promising tool for stratifying patients with ENKTCL into risk groups for designing clinical trials and for selecting appropriate individualized treatment.
Direct molecular-level near-field plasmon and temperature assessment in a single plasmonic hotspot
Authors: Richard-Lacroix Marie , Deckert Volker 
Published: March 2020

AbstractTip-enhanced Raman spectroscopy (TERS) is currently widely recognized as an essential but still emergent technique for exploring the nanoscale. However, our lack of comprehension of crucial parameters still limits its potential as a user-friendly analytical tool. The tip’s surface plasmon resonance, heating due to near-field temperature rise, and spatial resolution are undoubtedly three challenging experimental parameters to unravel. However, they are also the most fundamentally relevant parameters to explore, because they ultimately influence the state of the investigated molecule and consequently the probed signal. Here we propose a straightforward and purely experimental method to access quantitative information of the plasmon resonance and near-field temperature experienced exclusively by the molecules directly contributing to the TERS signal. The detailed near-field optical response, both at the molecular level and as a function of time, is evaluated using standard TERS experimental equipment by simultaneously probing the Stokes and anti-Stokes spectral intensities. Self-assembled 16-mercaptohexadodecanoic acid monolayers covalently bond to an ultra-flat gold surface were used as a demonstrator. Observation of blinking lines in the spectra also provides crucial information on the lateral resolution and indication of atomic-scale thermally induced morphological changes of the tip during the experiment. This study provides access to unprecedented molecular-level information on physical parameters that crucially affect experiments under TERS conditions. The study thereby improves the usability of TERS in day-to-day operation. The obtained information is of central importance for any experimental plasmonic investigation and for the application of TERS in the field of nanoscale thermometry.
Carbon monoxide: a critical physiological regulator sensitive to light
Authors: Oren Dan A. , Sit Dorothy K. , Goudarzi Sohrab H. , Wisner Katherine L. 
Published: March 2020

AbstractThe mechanism by which humans absorb therapeutic light in winter seasonal and nonseasonal depression is unknown. Bright-light-induced release and generation of blood-borne gasotransmitters such as carbon monoxide (CO) may be one mechanism. Here, 24 healthy female volunteers had peripheral blood samples drawn. Samples were collected in a dimly lit room and protected from light exposure. Samples were analyzed for CO concentrations by gas chromatography after 2 h of continuous exposure to darkness vs. bright white light. In a similar confirmatory study, 11 additional volunteers had samples analyzed for CO concentrations after 2 h of continuous exposure to gentle rocking in darkness vs. in bright white light. In the first study, light-unexposed peripheral blood had a mean CO concentration of 1.8 ± 0.4 SD ppm/g. Identically treated samples with 2 h of rocking and exposure to bright white light at illuminance 10,000 lux had a mean CO of 3.6 ± 1.2 ppm/g (p < 0.0001). Post hoc analysis of that study showed that time of day was significantly inversely associated with increase in CO concentration under bright light vs. dark (p < 0.04). In a smaller confirmatory study of 11 healthy female volunteers, after 2 h of rocking, light-unexposed peripheral blood had a mean CO of 1.4 ± 0.5 SD ppm/g. Identically treated blood samples with 2 h of exposure to bright white light at illuminance 10,000 lux had a mean CO of 2.8 ± 1.7 ppm/g (p < 0.02). In conclusion, bright-light exposure robustly increases human blood CO in vitro. This supports the putative role of CO as a physiological regulator of circadian rhythms and light’s antidepressant effects. This human evidence replicates earlier data from a preclinical in vivo model. This effect may be stronger in the morning than in the afternoon.
Once- versus twice-weekly carfilzomib in relapsed and refractory multiple myeloma by select patient characteristics: phase 3 A.R.R.O.W. study subgroup analysis
Authors: Dimopoulos Meletios A. , Niesvizky Ruben , Weisel Katja , Siegel David S. , Hajek Roman , Mateos María-Victoria , Cavo Michele , Huang Mei , Zahlten-Kumeli Anita , Moreau Philippe 
Published: March 2020

AbstractThe phase 3 A.R.R.O.W. study demonstrated that treatment with once-weekly carfilzomib (70 mg/m2) and dexamethasone (once-weekly Kd70 mg/m2) improved progression-free survival compared with twice-weekly carfilzomib (27 mg/m2) and dexamethasone (twice-weekly Kd27 mg/m2) in patients with relapsed and refractory multiple myeloma (RRMM; median, 11.2 versus 7.6 months; hazard ratio [HR] = 0.69; 95% confidence interval, 0.54–0.88; P = 0.0029). Once-weekly dosing also improved response rates and depth of response. We performed a subgroup analysis from A.R.R.O.W. according to age (<65, 65–74, or ≥75 years), renal function (creatinine clearance <50, ≥50–<80, or ≥80 mL/min), number of prior therapies (2 or 3), and bortezomib-refractory status (yes or no). Compared with twice-weekly Kd27 mg/m2, once-weekly Kd70 mg/m2 reduced the risk of progression or death (HR = 0.60–0.85) and increased overall response rates in nearly all the examined subgroups, consistent with reports in the overall A.R.R.O.W. population. The safety profiles of once-weekly Kd70 mg/m2 across subgroups were also generally consistent with those in the overall population. Findings from this subgroup analysis generally demonstrate a favorable benefit–risk profile of once-weekly Kd70 mg/m2, further supporting once-weekly carfilzomib dosing as an appropriate treatment option for patients with RRMM, regardless of baseline patient and disease characteristics.
The cartilage matrisome in adolescent idiopathic scoliosis
Authors: Wise Carol A. , Sepich Diane , Ushiki Aki , Khanshour Anas M. , Kidane Yared H. , Makki Nadja , Gurnett Christina A. , Gray Ryan S. , Rios Jonathan J. , Ahituv Nadav , Solnica-Krezel Lila 
Published: March 2020

AbstractThe human spinal column is a dynamic, segmented, bony, and cartilaginous structure that protects the neurologic system and simultaneously provides balance and flexibility. Children with developmental disorders that affect the patterning or shape of the spine can be at risk of neurologic and other physiologic dysfunctions. The most common developmental disorder of the spine is scoliosis, a lateral deformity in the shape of the spinal column. Scoliosis may be part of the clinical spectrum that is observed in many developmental disorders, but typically presents as an isolated symptom in otherwise healthy adolescent children. Adolescent idiopathic scoliosis (AIS) has defied understanding in part due to its genetic complexity. Breakthroughs have come from recent genome-wide association studies (GWAS) and next generation sequencing (NGS) of human AIS cohorts, as well as investigations of animal models. These studies have identified genetic associations with determinants of cartilage biogenesis and development of the intervertebral disc (IVD). Current evidence suggests that a fraction of AIS cases may arise from variation in factors involved in the structural integrity and homeostasis of the cartilaginous extracellular matrix (ECM). Here, we review the development of the spine and spinal cartilages, the composition of the cartilage ECM, the so-called “matrisome” and its functions, and the players involved in the genetic architecture of AIS. We also propose a molecular model by which the cartilage matrisome of the IVD contributes to AIS susceptibility.
Imatinib in combination with phosphoinositol kinase inhibitor buparlisib in patients with gastrointestinal stromal tumour who failed prior therapy with imatinib and sunitinib: a Phase 1b, multicentre study
Authors: Gelderblom Hans , Jones Robin L. , George Suzanne , Valverde Morales Claudia , Benson Charlotte , Jean-Yves Blay  , Renouf Daniel J. , Doi Toshihiko , Le Cesne Axel , Leahy Michael , Hertle Sabine , Aimone Paola , Brandt Ulrike , Schӧffski Patrick 
Published: March 2020

Abstract
Background
The majority of patients with advanced gastrointestinal stromal tumours (GISTs) develop resistance to imatinib and sunitinib, the standard of care for these patients. This study evaluated the combination of buparlisib, an oral phosphoinositide 3-kinase (PI3K) inhibitor, with imatinib in patients with advanced GIST, who have failed prior therapy with imatinib and sunitinib.

Methods
This Phase 1b, multicentre, open-label study aimed to determine the maximum tolerated dose (MTD) and/or a recommended Phase 2 dose of buparlisib in combination with 400 mg of imatinib through a dose-escalation part and a dose-expansion part, and also evaluated the clinical profile of the combination.

Results
Sixty patients were enrolled, including 25 in the dose-escalation part and 35 in the dose-expansion part. In the combination, MTD of buparlisib was established as 80 mg. No partial or complete responses were observed. The estimated median progression-free survival was 3.5 months in the expansion phase. Overall, 98.3% of patients had treatment-related adverse events (AEs), including 45% with grade 3 or 4 AEs.

Conclusions
Buparlisib in combination with imatinib provided no additional benefit compared with currently available therapies. Due to the lack of objective responses, further development of this combination was not pursued for third-line/fourth-line advanced/metastatic GIST.

Trial registration number
NCT01468688.
Resolving Dirac electrons with broadband high-resolution NMR
Authors: Papawassiliou Wassilios , Jaworski Aleksander , Pell Andrew J. , Jang Jae Hyuck , Kim Yeonho , Lee Sang-Chul , Kim Hae Jin , Alwahedi Yasser , Alhassan Saeed , Subrati Ahmed , Fardis Michael , Karagianni Marina , Panopoulos Nikolaos , Dolinšek Janez , Papavassiliou Georgios 
Published: March 2020

AbstractDetecting the metallic Dirac electronic states on the surface of Topological Insulators (TIs) is critical for the study of important surface quantum properties (SQPs), such as Majorana zero modes, where simultaneous probing of the bulk and edge electron states is required. However, there is a particular shortage of experimental methods, showing at atomic resolution how Dirac electrons extend and interact with the bulk interior of nanoscaled TI systems. Herein, by applying advanced broadband solid-state 125Te nuclear magnetic resonance (NMR) methods on Bi2Te3 nanoplatelets, we succeeded in uncovering the hitherto invisible NMR signals with magnetic shielding that is influenced by the Dirac electrons, and we subsequently showed how the Dirac electrons spread inside the nanoplatelets. In this way, the spin and orbital magnetic susceptibilities induced by the bulk and edge electron states were simultaneously measured at atomic scale resolution, providing a pertinent experimental approach in the study of SQPs.
Diffuse X-ray scattering from correlated motions in a protein crystal
Authors: Meisburger Steve P. , Case David A. , Ando Nozomi 
Published: March 2020

AbstractProtein dynamics are integral to biological function, yet few techniques are sensitive to collective atomic motions. A long-standing goal of X-ray crystallography has been to combine structural information from Bragg diffraction with dynamic information contained in the diffuse scattering background. However, the origin of macromolecular diffuse scattering has been poorly understood, limiting its applicability. We present a finely sampled diffuse scattering map from triclinic lysozyme with unprecedented accuracy and detail, clearly resolving both the inter- and intramolecular correlations. These correlations are studied theoretically using both all-atom molecular dynamics and simple vibrational models. Although lattice dynamics reproduce most of the diffuse pattern, protein internal dynamics, which include hinge-bending motions, are needed to explain the short-ranged correlations revealed by Patterson analysis. These insights lay the groundwork for animating crystal structures with biochemically relevant motions.
A progesterone biosensor derived from microbial screening
Authors: Grazon Chloé , Baer R C. , Kuzmanović Uroš , Nguyen Thuy , Chen Mingfu , Zamani Marjon , Chern Margaret , Aquino Patricia , Zhang Xiaoman , Lecommandoux Sébastien , Fan Andy , Cabodi Mario , Klapperich Catherine , Grinstaff Mark W. , Dennis Allison M. , Galagan James E. 
Published: March 2020

AbstractBacteria are an enormous and largely untapped reservoir of biosensing proteins. We describe an approach to identify and isolate bacterial allosteric transcription factors (aTFs) that recognize a target analyte and to develop these TFs into biosensor devices. Our approach utilizes a combination of genomic screens and functional assays to identify and isolate biosensing TFs, and a quantum-dot Förster Resonance Energy Transfer (FRET) strategy for transducing analyte recognition into real-time quantitative measurements. We use this approach to identify a progesterone-sensing bacterial aTF and to develop this TF into an optical sensor for progesterone. The sensor detects progesterone in artificial urine with sufficient sensitivity and specificity for clinical use, while being compatible with an inexpensive and portable electronic reader for point-of-care applications. Our results provide proof-of-concept for a paradigm of microbially-derived biosensors adaptable to inexpensive, real-time sensor devices.
Nanocrystal facet modulation to enhance transferrin binding and cellular delivery
Authors: Qi Yu , Zhang Tong , Jing Chuanyong , Liu Sijin , Zhang Chengdong , Alvarez Pedro J. J. , Chen Wei 
Published: March 2020

AbstractBinding of biomolecules to crystal surfaces is critical for effective biological applications of crystalline nanomaterials. Here, we present the modulation of exposed crystal facets as a feasible approach to enhance specific nanocrystal–biomolecule associations for improving cellular targeting and nanomaterial uptake. We demonstrate that facet-engineering significantly enhances transferrin binding to cadmium chalcogenide nanocrystals and their subsequent delivery into cancer cells, mediated by transferrin receptors, in a complex biological matrix. Competitive adsorption experiments coupled with theoretical calculations reveal that the (100) facet of cadmoselite and (002) facet of greenockite preferentially bind with transferrin via inner-sphere thiol complexation. Molecular dynamics simulation infers that facet-dependent transferrin binding is also induced by the differential affinity of crystal facets to water molecules in the first solvation shell, which affects access to exposed facets. Overall, this research underlines the promise of facet engineering to improve the efficacy of crystalline nanomaterials in biological applications.