bluuebunny/crossref_metadata_2025_split huggingface dataset:
Atomic order of rare earth ions in a complex oxide: a path to magnetotaxial anisotropy
Authors: Kaczmarek Allison C. , Rosenberg Ethan R. , Song Yixuan , Ye Kevin , Winter Gavin A. , Penn Aubrey N. , Gomez-Bombarelli Rafael , Beach Geoffrey S. D. , Ross Caroline A. 
Published: June 2024

AbstractComplex oxides offer rich magnetic and electronic behavior intimately tied to the composition and arrangement of cations within the structure. Rare earth iron garnet films exhibit an anisotropy along the growth direction which has long been theorized to originate from the ordering of different cations on the same crystallographic site. Here, we directly demonstrate the three-dimensional ordering of rare earth ions in pulsed laser deposited (EuxTm1-x)3Fe5O12garnet thin films using both atomically-resolved elemental mapping to visualize cation ordering and X-ray diffraction to detect the resulting order superlattice reflection. We quantify the resulting ordering-induced ‘magnetotaxial’ anisotropy as a function of Eu:Tm ratio using transport measurements, showing an overwhelmingly dominant contribution from magnetotaxial anisotropy that reaches 30 kJ m−3for garnets with x = 0.5. Control of cation ordering on inequivalent sites provides a strategy to control matter on the atomic level and to engineer the magnetic properties of complex oxides.
Learning nonlinear operators in latent spaces for real-time predictions of complex dynamics in physical systems
Authors: Kontolati Katiana , Goswami Somdatta , Em Karniadakis George , Shields Michael D. 
Published: June 2024

AbstractPredicting complex dynamics in physical applications governed by partial differential equations in real-time is nearly impossible with traditional numerical simulations due to high computational cost. Neural operators offer a solution by approximating mappings between infinite-dimensional Banach spaces, yet their performance degrades with system size and complexity. We propose an approach for learning neural operators in latent spaces, facilitating real-time predictions for highly nonlinear and multiscale systems on high-dimensional domains. Our method utilizes the deep operator network architecture on a low-dimensional latent space to efficiently approximate underlying operators. Demonstrations on material fracture, fluid flow prediction, and climate modeling highlight superior prediction accuracy and computational efficiency compared to existing methods. Notably, our approach enables approximating large-scale atmospheric flows with millions of degrees, enhancing weather and climate forecasts. Here we show that the proposed approach enables real-time predictions that can facilitate decision-making for a wide range of applications in science and engineering.
The effector-triggered immunity landscape of tomato against Pseudomonas syringae
Authors: Lonjon Fabien , Lai Yan , Askari Nasrin , Aiyar Niharikaa , Bundalovic-Torma Cedoljub , Laflamme Bradley , Wang Pauline W. , Desveaux Darrell , Guttman David S. 
Published: June 2024

AbstractTomato (Solanum lycopersicum) is one of the world’s most important food crops, and as such, its production needs to be protected from infectious diseases that can significantly reduce yield and quality. Here, we survey the effector-triggered immunity (ETI) landscape of tomato against the bacterial pathogen Pseudomonas syringae. We perform comprehensive ETI screens in five cultivated tomato varieties and two wild relatives, as well as an immunodiversity screen on a collection of 149 tomato varieties that includes both wild and cultivated varieties. The screens reveal a tomato ETI landscape that is more limited than what was previously found in the model plant Arabidopsis thaliana. We also demonstrate that ETI eliciting effectors can protect tomato against P. syringae infection when the effector is delivered by a non-virulent strain either prior to or simultaneously with a virulent strain. Overall, our findings provide a snapshot of the ETI landscape of tomatoes and demonstrate that ETI can be used as a biocontrol treatment to protect crop plants.
High performance magnesium-based plastic semiconductors for flexible thermoelectrics
Authors: Li Airan , Wang Yuechu , Li Yuzheng , Yang Xinlei , Nan Pengfei , Liu Kai , Ge Binghui , Fu Chenguang , Zhu Tiejun 
Published: June 2024

AbstractLow-cost thermoelectric materials with simultaneous high performance and superior plasticity at room temperature are urgently demanded due to the lack of ever-lasting power supply for flexible electronics. However, the inherent brittleness in conventional thermoelectric semiconductors and the inferior thermoelectric performance in plastic organics/inorganics severely limit such applications. Here, we report low-cost inorganic polycrystalline Mg3Sb0.5Bi1.498Te0.002, which demonstrates a remarkable combination of large strain (~ 43%) and high figure of merit zT (~ 0.72) at room temperature, surpassing both brittle Bi2(Te,Se)3 (strain ≤ 5%) and plastic Ag2(Te,Se,S) and organics (zT ≤ 0.4). By revealing the inherent high plasticity in Mg3Sb2 and Mg3Bi2, capable of sustaining over 30% compressive strain in polycrystalline form, and the remarkable deformability of single-crystalline Mg3Bi2 under bending, cutting, and twisting, we optimize the Bi contents in Mg3Sb2-xBix (x = 0 to 1) to simultaneously boost its room-temperature thermoelectric performance and plasticity. The exceptional plasticity of Mg3Sb2-xBix is further revealed to be brought by the presence of a dense dislocation network and the persistent Mg-Sb/Bi bonds during slipping. Leveraging its high plasticity and strength, polycrystalline Mg3Sb2-xBix can be easily processed into micro-scale dimensions. As a result, we successfully fabricate both in-plane and out-of-plane flexible Mg3Sb2-xBix thermoelectric modules, demonstrating promising power density. The inherent remarkable plasticity and high thermoelectric performance of Mg3Sb2-xBix hold the potential for significant advancements in flexible electronics and also inspire further exploration of plastic inorganic semiconductors.
High performance TadA-8e derived cytosine and dual base editors with undetectable off-target effects in plants
Authors: Fan Tingting , Cheng Yanhao , Wu Yuechao , Liu Shishi , Tang Xu , He Yao , Liao Shanyue , Zheng Xuelian , Zhang Tao , Qi Yiping , Zhang Yong 
Published: June 2024

AbstractCytosine base editors (CBEs) and adenine base editors (ABEs) enable precise C-to-T and A-to-G edits. Recently, ABE8e, derived from TadA-8e, enhances A-to-G edits in mammalian cells and plants. Interestingly, TadA-8e can also be evolved to confer C-to-T editing. This study compares engineered CBEs derived from TadA-8e in rice and tomato cells, identifying TadCBEa, TadCBEd, and TadCBEd_V106W as efficient CBEs with high purity and a narrow editing window. A dual base editor, TadDE, promotes simultaneous C-to-T and A-to-G editing. Multiplexed base editing with TadCBEa and TadDE is demonstrated in transgenic rice, with no off-target effects detected by whole genome and transcriptome sequencing, indicating high specificity. Finally, two crop engineering applications using TadDE are shown: introducing herbicide resistance alleles in OsALS and creating synonymous mutations in OsSPL14 to resist OsMIR156-mediated degradation. Together, this study presents TadA-8e derived CBEs and a dual base editor as valuable additions to the plant editing toolbox.
Mechanistic patterns and clinical implications of oncogenic tyrosine kinase fusions in human cancers
Authors: Cheong Taek-Chin , Jang Ahram , Wang Qi , Leonardi Giulia C. , Ricciuti Biagio , Alessi Joao V. , Di Federico Alessandro , Awad Mark M. , Lehtinen Maria K. , Harris Marian H. , Chiarle Roberto 
Published: June 2024

AbstractTyrosine kinase (TK) fusions are frequently found in cancers, either as initiating events or as a mechanism of resistance to targeted therapy. Partner genes and exons in most TK fusions are followed typical recurrent patterns, but the underlying mechanisms and clinical implications of these patterns are poorly understood. By developing Functionally Active Chromosomal Translocation Sequencing (FACTS), we discover that typical TK fusions involving ALK, ROS1, RET and NTRK1 are selected from pools of chromosomal rearrangements by two major determinants: active transcription of the fusion partner genes and protein stability. In contrast, atypical TK fusions that are rarely seen in patients showed reduced protein stability, decreased downstream oncogenic signaling, and were less responsive to inhibition. Consistently, patients with atypical TK fusions were associated with a reduced response to TKI therapies. Our findings highlight the principles of oncogenic TK fusion formation and selection in cancers, with clinical implications for guiding targeted therapy.
Electrical detection of mobile skyrmions with 100% tunneling magnetoresistance in a racetrack-like device
Authors: Zhao Mengqi , Chen Aitian , Huang Pei-Yuan , Liu Chen , Shen Laichuan , Liu Jiahao , Zhao Le , Fang Bin , Yue Wen-Cheng , Zheng Dongxing , Wang Ledong , Bai Hao , Shen Ka , Zhou Yan , Wang Shasha , Liu Enlong , He Shikun , Wang Yong-Lei , Zhang Xixiang , Jiang Wanjun 
Published: June 2024

AbstractMagnetic skyrmions are topological spin textures that are regarded as promising information carriers for next-generation spintronic memory and computing devices. For practical applications, their deterministic generation, manipulation, and efficient detection are the most critical aspects. Although the generation and manipulation of skyrmions have been extensively studied, efficient electrical detection of mobile skyrmions by using techniques that are compatible with modern magnetic memory technology, remains to be adequately addressed. Here, through integrating magnetic multilayers that host nanoscale skyrmions, together with the magnetic tunnel junctions (MTJ), we demonstrate the electrical detection of skyrmions by using the tunneling magnetoresistance (TMR) effect with a TMR ratio that reaches over 100% at room temperature. By building prototype three-terminal racetrack-like devices, we further show the electrical detection of mobile skyrmions by recording the time-dependent TMR ratios. Along with many recent developments, our results could advance the development of skyrmionic memory and logic devices.
Efficient removal of allicin from the stalk of Allium fistulosum for dietary fiber production
Authors: Li Ye , Ma Jiayin , Cao Yubin , Yang Dong 
Published: June 2024

AbstractThe stalk of Allium fistulosum contains dietary fibers with complicated monosaccharide composition and glycosidic bond linkages, which renders it a better dietary fiber supplement. However, the unfavorable odor, majorly contributed by allicin, limits its applications. Although many physical and chemical methods have been developed to remove allicin, there is currently no comparison between their efficiencies. Here, we comprehensively compare all these methods of eliminating allicin in the Allium stalk by starting with optimization of the allicin extraction method. Results indicate that incubation of the chopped Allium stalk with water for 20 min and extraction with 75% ethanol reached a maximal extraction yield. Different methods of allicin elimination are examined, and physical removal of allicin by blanching at 100 °C reaches a maximal clearance rate of 73.3%, rendering it the most efficient and effective method eliminating allicin from the stalk of Allium fistulosum for the preparation of a totally green dietary fiber.
Chromosomal integration of the pSOL1 megaplasmid of Clostridium acetobutylicum for continuous and stable advanced biofuels production
Authors: Ehsaan Muhammad , Yoo Minyeong , Kuit Wouter , Foulquier Céline , Soucaille Philippe , Minton Nigel P. 
Published: June 2024

AbstractBiofuel production by Clostridium acetobutylicum is compromised by strain degeneration due to loss of its pSOL1 megaplasmid. Here we used engineering biology to stably integrate pSOL1 into the chromosome together with a synthetic isopropanol pathway. In a membrane bioreactor continuously fed with glucose mineral medium, the final strain produced advanced biofuels, n-butanol and isopropanol, at high yield (0.31 g g−1), titre (15.4 g l−1) and productivity (15.5 g l−1 h−1) without degeneration.
Recovering true FRET efficiencies from smFRET investigations requires triplet state mitigation
Authors: Pati Avik K. , Kilic Zeliha , Martin Maxwell I. , Terry Daniel S. , Borgia Alessandro , Bar Sukanta , Jockusch Steffen , Kiselev Roman , Altman Roger B. , Blanchard Scott C. 
Published: June 2024

AbstractSingle-molecule fluorescence resonance energy transfer (smFRET) methods employed to quantify time-dependent compositional and conformational changes within biomolecules require elevated illumination intensities to recover robust photon emission streams from individual fluorophores. Here we show that outside the weak-excitation limit, and in regimes where fluorophores must undergo many rapid cycles of excitation and relaxation, non-fluorescing, excitation-induced triplet states with lifetimes orders of magnitude longer lived than photon-emitting singlet states degrade photon emission streams from both donor and acceptor fluorophores resulting in illumination-intensity-dependent changes in FRET efficiency. These changes are not commonly taken into consideration; therefore, robust strategies to suppress excited state accumulations are required to recover accurate and precise FRET efficiency, and thus distance, estimates. We propose both robust triplet state suppression and data correction strategies that enable the recovery of FRET efficiencies more closely approximating true values, thereby extending the spatial and temporal resolution of smFRET.
Jujubae Fructus extract prolongs lifespan and improves stress tolerance in Caenorhabditis elegans dependent on DAF-16/SOD-3
Authors: Zhang Zhi , Li Jiajia , Li Feng , Wang Tao , Luo Xiaoyan , Li Bing , You Yilin , Wu Changjing , Liu Xiaomeng 
Published: June 2024

AbstractJujubae Fructus, the fruit of Ziziphus jujuba Mill has been used as one of the medicine food homology species for thousands of years in China. Studies have shown that the active ingredients of Jujubae Fructus have a variety of biological effects, but its role in the aging process still lacks knowledge. Here, we investigated the effect of Jujubae Fructus extract (JE) on Caenorhabditis elegans lifespan and its potential mechanism. The lifespan of C. elegans treated with JE was signifificantly increased in a dose-dependent manner. In addition, JE treatment prolonged the reproductive period and increased normal activity during aging in C. elegans. Similarly, JE supplementation also enhanced the resistance to heat and oxidative stress in C. elegans. Furthermore, the mutant worms' lifespan assays demonstrated that JE requires daf-16 to prolong lifespan. DAF-16::GFP analysis of TJ356 showed that JE treatment translocates DAF-16::GFP to nucleus in transgenic worms. By analyzing the downstream of daf-16, we identify that JE may regulate sod3 downstream of daf-16. Mutant worms' lifespan and transgenic reporter gene expression assays revealed that increasing SOD-3 expression was critical for extending longevity in C. elegans with JE therapy. Collectively, these data indicate that JE may have an important role in C. elegans longevity that is dependent on DAF-16 and SOD-3.
Synthesis of novel aryl-substituted 2-aminopyridine derivatives by the cascade reaction of 1,1-enediamines with vinamidinium salts to develop novel anti-Alzheimer agents
Authors: Loori Sama , Pourtaher Hormoz , Mehranpour Abdolmohammad , Hasaninejad Alireza , Eftekharian Mohammadreza , Iraji Aida 
Published: June 2024

AbstractAlzheimer’s disease (AD), a severe neurodegenerative disorder, imposes socioeconomic burdens and necessitates innovative therapeutic strategies. Current therapeutic interventions are limited and underscore the need for novel inhibitors of acetylcholinesterase (AChE) and butyrylcholinesterase (BChE), enzymes implicated in the pathogenesis of AD. In this study, we report a novel synthetic strategy for the generation of 2-aminopyridine derivatives via a two-component reaction converging aryl vinamidinium salts with 1,1-enediamines (EDAMs) in a dimethyl sulfoxide (DMSO) solvent system, catalyzed by triethylamine (Et3N). The protocol introduces a rapid, efficient, and scalable synthetic pathway, achieving good to excellent yields while maintaining simplistic workup procedures. Seventeen derivatives were synthesized and subsequently screened for their inhibitory activity against AChE and BChE. The most potent derivative, 3m, exhibited an IC50 value of 34.81 ± 3.71 µM against AChE and 20.66 ± 1.01 µM against BChE compared to positive control donepezil with an IC50 value of 0.079 ± 0.05 µM against AChE and 10.6 ± 2.1 µM against BChE. Also, detailed kinetic studies were undertaken to elucidate their modes of enzymatic inhibition of the most potent compounds against both AChE and BChE. The promising compound was then subjected to molecular docking and dynamics simulations, revealing significant binding affinities and favorable interaction profiles against AChE and BChE. The in silico ADMET assessments further determined the drug-like properties of 3m, suggesting it as a promising candidate for further pre-clinical development.
De novo genome assembly and transcriptome sequencing in foot and mantle tissues of Megaustenia siamensis reveals components of adhesive substances
Authors: Chetruengchai Wanna , Jirapatrasilp Parin , Srichomthong Chalurmpon , Assawapitaksakul Adjima , Pholyotha Arthit , Tongkerd Piyoros , Shotelersuk Vorasuk , Panha Somsak 
Published: June 2024

AbstractThe semislug Megaustenia siamensis, commonly found in Thailand, is notable for its exceptional capacity to produce biological adhesives, enabling it to adhere to tree leaves even during heavy rainfall. In this study, we generated the first reference genome for M. siamensis using a combination of three sequencing technologies: Illumina’s short-read, Pac-Bio’s HIFI long-read, and Hi-C. The assembled genome size was 2593 billion base pairs (bp), containing 34,882 protein-coding genes. Our analysis revealed positive selection in pathways associated with the ubiquitin–proteasome system. Furthermore, RNA sequencing of foot and mantle tissues unveiled the primary constituents of the adhesive, including lectin-like proteins (C-lectin, H-lectin, and C1q) and matrilin-like proteins (VWA and EGF). Additionally, antimicrobial peptides were identified. The comprehensive M. siamensis genome and tissue-specific transcriptomic data provided here offer valuable resources for understanding its biology and exploring potential medical applications.
Attention and sentiment of Chinese public toward rural landscape based on Sina Weibo
Authors: Zhang Jinji , Jin Guanghu , Liu Yang , Xue Xiyue 
Published: June 2024

Abstract
Rural landscapes, as products of the interaction between humans and nature, not only reflect the history and culture of rural areas but also symbolize economic and social progress. This study proposes a deep learning-based model for Weibo data analysis aimed at exploring the development direction of rural landscapes from the perspective of the Chinese public. The research reveals that the Chinese public’s attention to rural landscapes has significantly increased with the evolution of government governance concepts. Most people express a high level of satisfaction and happiness with the existing rural landscapes, while a minority harbor negative emotions towards unreasonable new rural construction. Through the analysis of public opinion regarding rural landscapes, this study will assist decision-makers in understanding the mechanisms of public discourse on social media. It will also aid relevant scholars and designers in providing targeted solutions, which hold significant importance for policy formulation and the exploration of specific development patterns.
No effects of post-activation performance enhancement in elite male volleyball players under complex training
Authors: Masel Sebastian , Maciejczyk Marcin 
Published: June 2024

AbstractThe aim of this study was to establish reliability of post-activation performance enhancement in three manners: (1) interday morning and afternoon reliability; (2) intraday morning and afternoon reliability; (3) intraday set-to-set reliability. Twelve elite male volleyball players experienced in resistance training performed four identical experimental sessions—two in the morning and two in the afternoon. During each session participants performed a mini complex training session—three sets of a conditioning activity (CA) (3 repetitions of a trap bar deadlift at 80% 1RM with 15% of accommodating resistance) and 90 s after a CA performed squat jump (SJ) with 4 min intra-set rest interval. The ANOVA with repeated measures was used to assess significance of the effect of a CA and ICC to assess reliability of measurements. The PAPE protocol was found to be ineffective to subsequently enhance JH on various occasions. Also, the results of this study suggest that the practitioners may effectively implement appropriately organized complex training as both intraday set-to-set (0.87 and 0.82 for morning sessions; 0.83 and 0.58 for afternoon sessions) and interday morning (0.67) and afternoon (0.8) reliabilities seem to be acceptable. However, introducing two CT sessions within one day is highly questionable as at the moment intraday morning and afternoon reliability is vague (0.88 and 0.48).
Development of a novel precision applicator for spot treatment of granular agrochemical in wild blueberry
Authors: MacEachern Craig B. , Esau Travis J. , Zaman Qamar U. , White Scott N. , Farooque Aitazaz A. 
Published: June 2024

AbstractWhile spot spraying has gained increasing popularity in recent years, spot application of granule agrochemical has seen little development. Despite the potential for the technology, there currently exists no commercially available granular applicators capable of spot application. Therefore, the goal of this study was to design, build, and lab evaluate a precision applicator for spot applying granular agrochemical in wild blueberry. The design incorporated a John Deere RC2000 with a custom control box, recirculation system, and electrically actuated valves. All components were modified to fit a Valmar 1255 Twin-Roller. The system receives inputs from a predeveloped prescription map and can actuate each of the twelve valves separately to provide individual orifice control. Casoron® G4 was used as the testing agrochemical and in cycling the product pneumatically for 1 hour incurred no significant product degradation (p = 0.110). In lab evaluations, the applicator encountered zero errors in reading prescription maps and actuating the correct valves accordingly. Further, the granule recycling system had zero instances where product built up in the lines or jammed the valves. In all, this project represents the first successful development of a precision granular spot applicator for any cropping system.
Artificial intelligence-based real-time histopathology of gastric cancer using confocal laser endomicroscopy
Authors: Cho Haeyon , Moon Damin , Heo So Mi , Chu Jinah , Bae Hyunsik , Choi Sangjoon , Lee Yubin , Kim Dongmin , Jo Yeonju , Kim Kyuyoung , Hwang Kyungmin , Lee Dakeun , Choi Heung-Kook , Kim Seokhwi 
Published: June 2024

AbstractThere has been a persistent demand for an innovative modality in real-time histologic imaging, distinct from the conventional frozen section technique. We developed an artificial intelligence-driven real-time evaluation model for gastric cancer tissue using confocal laser endomicroscopic system. The remarkable performance of the model suggests its potential utilization as a standalone modality for instantaneous histologic assessment and as a complementary tool for pathologists’ interpretation.