bluuebunny/crossref_metadata_2025_split huggingface dataset:
Visualizing defect dynamics by assembling the colloidal graphene lattice
Authors: Swinkels Piet J. M. , Gong Zhe , Sacanna Stefano , Noya Eva G. , Schall Peter 
Published: March 2023

AbstractGraphene has been under intense scientific interest because of its remarkable optical, mechanical and electronic properties. Its honeycomb structure makes it an archetypical two-dimensional material exhibiting a photonic and phononic band gap with topologically protected states. Here, we assemble colloidal graphene, the analogue of atomic graphene using pseudo-trivalent patchy particles, allowing particle-scale insight into crystal growth and defect dynamics. We directly observe the formation and healing of common defects, like grain boundaries and vacancies using confocal microscopy. We identify a pentagonal defect motif that is kinetically favoured in the early stages of growth, and acts as seed for more extended defects in the later stages. We determine the conformational energy of the crystal from the bond saturation and bond angle distortions, and follow its evolution through the energy landscape upon defect rearrangement and healing. These direct observations reveal that the origins of the most common defects lie in the early stages of graphene assembly, where pentagons are kinetically favoured over the equilibrium hexagons of the honeycomb lattice, subsequently stabilized during further growth. Our results open the door to the assembly of complex 2D colloidal materials and investigation of their dynamical, mechanical and optical properties.
Cumulative burden of 144 conditions, critical care hospitalisation and premature mortality across 26 adult cancers
Authors: Chang Wai Hoong , Neal Richard D. , Forster Martin D. , Lai Alvina G. 
Published: March 2023

AbstractA comprehensive evaluation of the total burden of morbidity endured by cancer survivors remains unavailable. This study quantified the burden of 144 health conditions and critical care admissions across 26 adult cancers and treatment modalities in 243,767 adults. By age 60, top conditions ranked by fold difference (cumulative burden in survivors divided by cumulative burden in controls) were haematology, immunology/infection and pulmonary conditions. Patients who had all three forms of treatment (chemotherapy, radiotherapy and surgery) experienced a high cumulative burden of late morbidities compared with patients who received radiotherapy alone. The top five cancers with the highest cumulative burden of critical care admissions by age 60 were bone (12.4 events per 100 individuals [CI: 11.6-13.1]), brain (9.0 [7.5-10.5]), spinal cord and nervous system (7.2 [6.7-7.8]), testis (6.7 [4.9-8.4]) and Hodgkin lymphoma (4.4 [3.6-5.1]). Conditions that were associated with high excess years-of-life-lost were haematological conditions (9.6 years), pulmonary conditions (8.6 years) and immunological conditions or infections (7.8 years). As the population of cancer survivors continues to grow, our results indicate that it is important to tackle long-term health consequences through enacting data-driven policies.
Giant piezoresistivity in a van der Waals material induced by intralayer atomic motions
Authors: Tang Lingyun , Mao Zhongquan , Wang Chutian , Fu Qi , Wang Chen , Zhang Yichi , Shen Jingyi , Yin Yuefeng , Shen Bin , Tan Dayong , Li Qian , Wang Yonggang , Medhekar Nikhil V. , Wu Jie , Yuan Huiqiu , Li Yanchun , Fuhrer Michael S. , Zheng Changxi 
Published: March 2023

AbstractThe presence of the van der Waals gap in layered materials creates a wealth of intriguing phenomena different to their counterparts in conventional materials. For example, pressurization can generate a large anisotropic lattice shrinkage along the stacking orientation and/or a significant interlayer sliding, and many of the exotic pressure-dependent properties derive from these mechanisms. Here we report a giant piezoresistivity in pressurized β′-In2Se3. Upon compression, a six-orders-of-magnitude drop of electrical resistivity is obtained below 1.2 GPa in β′-In2Se3 flakes, yielding a giant piezoresistive gauge πp of −5.33 GPa−1. Simultaneously, the sample undergoes a semiconductor-to-semimetal transition without a structural phase transition. Surprisingly, linear dichroism study and theoretical first principles modelling show that these phenomena arise not due to shrinkage or sliding at the van der Waals gap, but rather are dominated by the layer-dependent atomic motions inside the quintuple layer, mainly from the shifting of middle Se atoms to their high-symmetric location. The atomic motions link to both the band structure modulation and the in-plane ferroelectric dipoles. Our work not only provides a prominent piezoresistive material but also points out the importance of intralayer atomic motions beyond van der Waals gap.
Highly selective electrocatalytic alkynol semi-hydrogenation for continuous production of alkenols
Authors: Bu Jun , Chang Siyu , Li Jinjin , Yang Sanyin , Ma Wenxiu , Liu Zhenpeng , An Siying , Wang Yanan , Li Zhen , Zhang Jian 
Published: March 2023

AbstractAlkynols semi-hydrogenation is a critical industrial process as the product, alkenols, have extensive applications in chemistry and life sciences. However, this class of reactions is plagued by the use of high-pressure hydrogen, Pd-based catalysts, and low efficiency of the contemporary thermocatalytic process. Here, we report an electrocatalytic approach for selectively hydrogenating alkynols to alkenols under ambient conditions. For representative 2-methyl-3-butene-2-ol, Cu nanoarrays derived electrochemically from CuO, achieve a high partial current density of 750 mA cm−2 and specific selectivity of 97% at −0.88 V vs. reversible hydrogen electrode in alkaline solution. Even in a large two-electrode flow electrolyser, the Cu nanoarrays deliver a single-pass alkynol conversion of 93% with continuous production of 2-methyl-3-butene-2-ol at a rate of ~169 g gCu−1 h−1. Theoretical and in situ electrochemical infrared investigations reveal that the semi-hydrogenation performance is enhanced by exothermic alkynol adsorption and alkenol desorption on the Cu surfaces. Furthermore, this electrocatalytic semi-hydrogenation strategy is shown to be applicable to a variety of alkynol substrates.
The RRM-mediated RNA binding activity in T. brucei RAP1 is essential for VSG monoallelic expression
Authors: Gaurav Amit Kumar , Afrin Marjia , Yang Xian , Saha Arpita , Sayeed S. K. Abdus , Pan Xuehua , Ji Zeyang , Wong Kam-Bo , Zhang Mingjie , Zhao Yanxiang , Li Bibo 
Published: March 2023

AbstractTrypanosoma brucei is a protozoan parasite that causes human African trypanosomiasis. Its major surface antigen VSG is expressed from subtelomeric loci in a strictly monoallelic manner. We previously showed that the telomere protein TbRAP1 binds dsDNA through its 737RKRRR741 patch to silence VSGs globally. How TbRAP1 permits expression of the single active VSG is unknown. Through NMR structural analysis, we unexpectedly identify an RNA Recognition Motif (RRM) in TbRAP1, which is unprecedented for RAP1 homologs. Assisted by the 737RKRRR741 patch, TbRAP1 RRM recognizes consensus sequences of VSG 3’UTRs in vitro and binds the active VSG RNA in vivo. Mutating conserved RRM residues abolishes the RNA binding activity, significantly decreases the active VSG RNA level, and derepresses silent VSGs. The competition between TbRAP1’s RNA and dsDNA binding activities suggests a VSG monoallelic expression mechanism in which the active VSG’s abundant RNA antagonizes TbRAP1’s silencing effect, thereby sustaining its full-level expression.
Decoupling body shape and mass distribution in birds and their dinosaurian ancestors
Authors: Macaulay Sophie , Hoehfurtner Tatjana , Cross Samuel R. R. , Marek Ryan D. , Hutchinson John R. , Schachner Emma R. , Maher Alice E. , Bates Karl T. 
Published: March 2023

AbstractIt is accepted that non-avian theropod dinosaurs, with their long muscular tails and small forelimbs, had a centre-of-mass close to the hip, while extant birds, with their reduced tails and enlarged wings have their mass centred more cranially. Transition between these states is considered crucial to two key innovations in the avian locomotor system: crouched bipedalism and powered flight. Here we use image-based models to challenge this dichotomy. Rather than a phylogenetic distinction between ‘dinosaurian’ and ‘avian’ conditions, we find terrestrial versus volant taxa occupy distinct regions of centre-of-mass morphospace consistent with the disparate demands of terrestrial bipedalism and flight. We track this decoupled evolution of body shape and mass distribution through bird evolution, including the origin of centre-of-mass positions more advantageous for flight and major reversions coincident with terrestriality. We recover modularity in the evolution of limb proportions and centre-of-mass that suggests fully crouched bipedalism evolved after powered flight.
Physics guided deep learning for generative design of crystal materials with symmetry constraints
Authors: Zhao Yong , Siriwardane Edirisuriya M. Dilanga , Wu Zhenyao , Fu Nihang , Al-Fahdi Mohammed , Hu Ming , Hu Jianjun 
Published: March 2023

AbstractDiscovering new materials is a challenging task in materials science crucial to the progress of human society. Conventional approaches based on experiments and simulations are labor-intensive or costly with success heavily depending on experts’ heuristic knowledge. Here, we propose a deep learning based Physics Guided Crystal Generative Model (PGCGM) for efficient crystal material design with high structural diversity and symmetry. Our model increases the generation validity by more than 700% compared to FTCP, one of the latest structure generators and by more than 45% compared to our previous CubicGAN model. Density Functional Theory (DFT) calculations are used to validate the generated structures with 1869 materials out of 2000 are successfully optimized and deposited into the Carolina Materials Database www.carolinamatdb.org, of which 39.6% have negative formation energy and 5.3% have energy-above-hull less than 0.25 eV/atom, indicating their thermodynamic stability and potential synthesizability.
Autonomous electrochemical system for ammonia oxidation reaction measurements at the International Space Station
Authors: Morales-Navas Camila , Martínez-Rodríguez Roberto A. , Vidal-Iglesias Francisco J. , Peña Armando , Soto-Pérez Joesene J. , Trinidad Pedro , Solla-Gullón José , Tzvetkov Toshko , Doan Jonathan , Smotkin Eugene S. , Nicolau Eduardo , Feliu Juan M. , Cabrera Carlos R. 
Published: March 2023

AbstractAn autonomous electrochemical system prototype for ammonia oxidation reaction (AOR) measurements was efficiently done inside a 4'' x 4'' x 8'' 2U Nanoracks module at the International Space Station (ISS). This device, the Ammonia Electrooxidation Lab at the ISS (AELISS), included an autonomous electrochemical system that complied with NASA ISS nondisclosure agreements, power, safety, security, size constrain, and material compatibility established for space missions. The integrated autonomous electrochemical system was tested on-ground and deployed to the International Space Station as a “proof-of-concept” ammonia oxidation reaction testing space device. Here are discussed the results of cyclic voltammetry and chronoamperometry measurements done at the ISS with a commercially available channel flow-cell with eight screen-printed electrodes, including Ag quasi-reference (Ag QRE) and carbon counter electrodes. Pt nanocubes in Carbon Vulcan XC-72R were used as the catalyst for the AOR and 2 μL drop of Pt nanocubes/ Carbon Vulcan XC-72R, 20 wt%, ink was placed on the carbon working electrodes and allowed to dry in air. After the AELISS was prepared for launch to the ISS, a 4 days delayed (2 days in the space vehicle Antares and 2 days space transit to the ISS) cause a slight shift on the Ag QRE potential. Nevertheless, the AOR cyclic voltametric peak was observed in the ISS and showed ca. 70% current density decrease due to the buoyancy effect in agreement with previous microgravity experiments done at the zero-g aircraft.
Head-to-head comparison of 6 plasma biomarkers in early multiple system atrophy
Authors: Guo Yu , Shen Xue-Ning , Huang Shu-Yi , Chen Shu-Fen , Wang Hui-Fu , Zhang Wei , Zhang Ya-Ru , Cheng Wei , Cui Mei , Dong Qiang , Yu Jin-Tai 
Published: March 2023

AbstractThere is a dire need for reliable biomarkers to solidify an early and accurate diagnosis of multiple system atrophy (MSA). We sought to compare the ability of emerging plasma markers in distinguishing MSA from its mimics and healthy controls in early disease stages, and to evaluate their performance in detecting disease severity and brain atrophy. Plasma neurofilament light (NfL), glial fibrillary acidic protein (GFAP), phosphorylated tau181, amyloid-β (Aβ)42, and Aβ40 were measured using ultrasensitive Simoa in early-stage patients with MSA (n = 73), spinocerebellar ataxia (SCA, n = 29), Parkinson’s disease (PD, n = 28), and healthy controls (n = 100). We observed that elevated NfL outperformed other biomarkers in distinguishing MSA and its subtypes (AUC = 0.9) versus controls. Intriguingly, when separating MSA from its mimics, increased GFAP (AUC = 0.717) in MSA-C and decreased Aβ40 (AUC = 0.807) in MSA-P best discriminated from SCA and PD respectively. Plasma levels were comparable between MSA-C and MSA-P and the differentiation by plasma index alone was poor. Combining plasma markers noticeably improved the discriminatory efficacy. Of note, among MSA patients, higher GFAP and NfL were correlated with the atrophy of brain regions vulnerable to MSA (e.g., cerebellum, pons, or putamen). They could also aggravate the severity of MSA, and this association was partially mediated by cerebral volumes. In contrast, no obvious associations of phosphorylated tau and Aβ with disease severity were observed. Collectively, plasma biomarkers, especially in combination, are useful to facilitate the discriminatory work-up of MSA at early stages. Moreover, NfL and GFAP may be promising biomarkers to monitor the disease severity of MSA.
Critical parametric quantum sensing
Authors: Di Candia R. , Minganti F. , Petrovnin K. V. , Paraoanu G. S. , Felicetti S. 
Published: March 2023

AbstractCritical quantum systems are a promising resource for quantum metrology applications, due to the diverging susceptibility developed in proximity of phase transitions. Here, we assess the metrological power of parametric Kerr resonators undergoing driven-dissipative phase transitions. We fully characterize the quantum Fisher information for frequency estimation, and the Helstrom bound for frequency discrimination. By going beyond the asymptotic regime, we show that the Heisenberg precision can be achieved with experimentally reachable parameters. We design protocols that exploit the critical behavior of nonlinear resonators to enhance the precision of quantum magnetometers and the fidelity of superconducting qubit readout.
Myoscaffolds reveal laminin scarring is detrimental for stem cell function while sarcospan induces compensatory fibrosis
Authors: Stearns-Reider Kristen M. , Hicks Michael R. , Hammond Katherine G. , Reynolds Joseph C. , Maity Alok , Kurmangaliyev Yerbol Z. , Chin Jesse , Stieg Adam Z. , Geisse Nicholas A. , Hohlbauch Sophia , Kaemmer Stefan , Schmitt Lauren R. , Pham Thanh T. , Yamauchi Ken , Novitch Bennett G. , Wollman Roy , Hansen Kirk C. , Pyle April D. , Crosbie Rachelle H. 
Published: March 2023

AbstractWe developed an on-slide decellularization approach to generate acellular extracellular matrix (ECM) myoscaffolds that can be repopulated with various cell types to interrogate cell-ECM interactions. Using this platform, we investigated whether fibrotic ECM scarring affected human skeletal muscle progenitor cell (SMPC) functions that are essential for myoregeneration. SMPCs exhibited robust adhesion, motility, and differentiation on healthy muscle-derived myoscaffolds. All SPMC interactions with fibrotic myoscaffolds from dystrophic muscle were severely blunted including reduced motility rate and migration. Furthermore, SMPCs were unable to remodel laminin dense fibrotic scars within diseased myoscaffolds. Proteomics and structural analysis revealed that excessive collagen deposition alone is not pathological, and can be compensatory, as revealed by overexpression of sarcospan and its associated ECM receptors in dystrophic muscle. Our in vivo data also supported that ECM remodeling is important for SMPC engraftment and that fibrotic scars may represent one barrier to efficient cell therapy.
Optimization of nutrient utilization efficiency and productivity for algal cultures under light and dark cycles using genome-scale model process control
Authors: Li Chien-Ting , Eng Richard , Zuniga Cristal , Huang Kai-Wen , Chen Yiqun , Zengler Karsten , Betenbaugh Michael J. 
Published: March 2023

AbstractAlgal cultivations are strongly influenced by light and dark cycles. In this study, genome-scale metabolic models were applied to optimize nutrient supply during alternating light and dark cycles of Chlorella vulgaris. This approach lowered the glucose requirement by 75% and nitrate requirement by 23%, respectively, while maintaining high final biomass densities that were more than 80% of glucose-fed heterotrophic culture. Furthermore, by strictly controlling glucose feeding during the alternating cycles based on model-input, yields of biomass, lutein, and fatty acids per gram of glucose were more than threefold higher with cycling compared to heterotrophic cultivation. Next, the model was incorporated into open-loop and closed-loop control systems and compared with traditional fed-batch systems. Closed-loop systems which incorporated a feed-optimizing algorithm increased biomass yield on glucose more than twofold compared to standard fed-batch cultures for cycling cultures. Finally, the performance was compared to conventional proportional-integral-derivative (PID) controllers. Both simulation and experimental results exhibited superior performance for genome-scale model process control (GMPC) compared to traditional PID systems, reducing the overall measured value and setpoint error by 80% over 8 h. Overall, this approach provides researchers with the capability to enhance nutrient utilization and productivity of cell factories systematically by combining genome-scale models and controllers into an integrated platform with superior performance to conventional fed-batch and PID methodologies.
Booster vaccination with Ad26.COV2.S or an Omicron-adapted vaccine in pre-immune hamsters protects against Omicron BA.2
Authors: Swart Maarten , van der Lubbe Joan , Schmit-Tillemans Sonja , van Huizen Ella , Verspuij Johan , Gil Ana Izquierdo , Choi Ying , Daal Chenandly , Perkasa Aditya , de Wilde Adriaan , Claassen Erwin , de Jong Rineke , Wiese Katrin E. , Cornelissen Lisette , van Es Marieke , van Heerden Marjolein , Kourkouta Eleni , Tahiri Issam , Mulders Michel , Vreugdenhil Jessica , Feddes - de Boer Karin , Muchene Leacky , Tolboom Jeroen , Dekking Liesbeth , Juraszek Jarek , Vellinga Jort , Custers Jerome , Bos Rinke , Schuitemaker Hanneke , Wegmann Frank , Roozendaal Ramon , Kuipers Harmjan , Zahn Roland 
Published: March 2023

AbstractSince the original outbreak of the SARS-CoV-2 virus, several rapidly spreading SARS-CoV-2 variants of concern (VOC) have emerged. Here, we show that a single dose of Ad26.COV2.S (based on the Wuhan-Hu-1 spike variant) protects against the Gamma and Delta variants in naive hamsters, supporting the observed maintained vaccine efficacy in humans against these VOC. Adapted spike-based booster vaccines targeting Omicron variants have now been authorized in the absence of human efficacy data. We evaluated the immunogenicity and efficacy of Ad26.COV2.S.529 (encoding a stabilized Omicron BA.1 spike) in naive mice and in hamsters with pre-existing immunity to the Wuhan-Hu-1 spike. In naive mice, Ad26.COV2.S.529 elicited higher neutralizing antibody titers against SARS-CoV-2 Omicron BA.1 and BA.2, compared with Ad26.COV2.S. However, neutralizing titers against the SARS-CoV-2 B.1 (D614G) and Delta variants were lower after primary vaccination with Ad26.COV2.S.529 compared with Ad26.COV2.S. In contrast, we found comparable Omicron BA.1 and BA.2 neutralizing titers in hamsters with pre-existing Wuhan-Hu-1 spike immunity after vaccination with Ad26.COV2.S, Ad26.COV2.S.529 or a combination of the two vaccines. Moreover, all three vaccine modalities induced equivalent protection against Omicron BA.2 challenge in these animals. Overall, our data suggest that an Omicron BA.1-based booster in rodents does not improve immunogenicity and efficacy against Omicron BA.2 over an Ad26.COV2.S booster in a setting of pre-existing immunity to SARS-CoV-2.
PF-D-Trimer, a protective SARS-CoV-2 subunit vaccine: immunogenicity and application
Authors: Zhang Zhihao , Zhou Jinhu , Ni Peng , Hu Bing , Jolicoeur Normand , Deng Shuang , Xiao Qian , He Qian , Li Gai , Xia Yan , Liu Mei , Wang Cong , Fang Zhizheng , Xia Nan , Zhang Zhe-Rui , Zhang Bo , Cai Kun , Xu Yan , Liu Binlei 
Published: March 2023

AbstractThe COVID-19 pandemic, caused by the SARS-CoV-2 virus, has had and continues to have a significant impact on global public health. One of the characteristics of SARS-CoV-2 is a surface homotrimeric spike protein, which is primarily responsible for the host immune response upon infection. Here we present the preclinical studies of a broadly protective SARS-CoV-2 subunit vaccine developed from our trimer domain platform using the Delta spike protein, from antigen design through purification, vaccine evaluation and manufacturability. The pre-fusion trimerized Delta spike protein, PF-D-Trimer, was highly expressed in Chinese hamster ovary (CHO) cells, purified by a rapid one-step anti-Trimer Domain monoclonal antibody immunoaffinity process and prepared as a vaccine formulation with an adjuvant. Immunogenicity studies have shown that this vaccine candidate induces robust immune responses in mouse, rat and Syrian hamster models. It also protects K18-hACE2 transgenic mice in a homologous viral challenge. Neutralizing antibodies induced by this vaccine show cross-reactivity against the ancestral WA1, Delta and several Omicrons, including BA.5.2. The formulated PF-D Trimer is stable for up to six months without refrigeration. The Trimer Domain platform was proven to be a key technology in the rapid production of PF-D-Trimer vaccine and may be crucial to accelerate the development and accessibility of updated versions of SARS-CoV-2 vaccines.