bluuebunny/crossref_metadata_2025_split huggingface dataset:
Investigation of Oil Well Blowouts Triggered by Wastewater Injection in the Permian Basin, USA
Authors: Karanam Vamshi , Lu Zhong , Kim Jin‐Woo 
Published: July 2024

AbstractAged hydrocarbon wells, if proper care is not ensured, can crack, get corroded, and leak subsurface fluids. Permian Basin in Texas, home to thousands of such wells, has seen numerous blowouts and wastewater leaks. Our study employs surface deformation derived from satellite observations, and injection well records to investigate these events. The results reveal an over‐pressurized wastewater aquifer producing a surface uplift of 20 cm/yr, likely due to wastewater being injected tens of kilometers away. Focusing on a January 2022 blowout resulting in 3 cm subsidence in 2 weeks, our geophysical model suggests aquifer over‐pressurization as the cause. With an excess pressure of over 3 MPa in the aquifer, several more such blowouts are possible in the near future. This research highlights the urgent need to better understand the impact of subsurface fluid injection and calls for prompt action to mitigate the environmental effects of oil and gas production.
Joint association of sleep quality and physical activity with metabolic dysfunction-associated fatty liver disease: a population-based cross-sectional study in Western China
Authors: Wang Ying , Zhao Qian , Yang Jialu , Wang Yushan , Deng Lei , Xieyire Hamulati , Gulijiehere Tuerxun , Munire Mutalifu , Liu Fen , Li Xiaomei , Xia Min , Liu Yan , Yang Yining 
Published: July 2024

Abstract
Background
Metabolic dysfunction-associated fatty liver disease (MAFLD) is a growing threat leading to substantial disease burden globally. Poor sleep and physical inactivity are common in modern societies and independently associated with MAFLD, however, their joint effects on MAFLD remains unclear.

Methods
This population-based cross-sectional study was conducted in Xinjiang Uygur Autonomous Region, China, between July 2019 and September 2021. Self-reported sleep behaviors and physical activity (PA) were assessed using validated questionnaires. The primary outcome was radiological diagnosis of MAFLD.

Results
Of the 10 089 participants aged 47.0 (9.1) years (51.6% men), 3854 (38.2%) individuals had MAFLD. Poor sleep quality and physical inactivity were independently and jointly associated with an increased prevalence of MAFLD, independent of traditional risk factors (P < 0.05). Compared to subjects with guideline-recommended moderate-to-vigorous PA (MVPA) and good sleep quality, individuals with no recommended MVPA and poor sleep had the highest possibility of MAFLD (odds ratio = 2.36, 95% confidence interval: 1.81 – 3.08). Enhancing sleep quality substantially attenuated MAFLD prevalence regardless of the volume of PA, whereas, engaging in PA well above current guidelines did not adequately counteract the adverse impacts of poor sleep on MAFLD.

Conclusions
Public health awareness and strategies concurrently targeting both sleep quality and PA should be encouraged to curb the climbing prevalence of MAFLD.
Atypical cellular responses mediated by intracellular constitutive active TrkB (NTRK2) kinase domains and a solely intracellular NTRK2-fusion oncogene
Authors: Gupta Rohini , Dittmeier Melanie , Wohlleben Gisela , Nickl Vera , Bischler Thorsten , Luzak Vanessa , Wegat Vanessa , Doll Dennis , Sodmann Annemarie , Bady Elena , Langlhofer Georg , Wachter Britta , Havlicek Steven , Gupta Jahnve , Horn Evi , Lüningschrör Patrick , Villmann Carmen , Polat Bülent , Wischhusen Jörg , Monoranu Camelia M. , Kuper Jochen , Blum Robert 
Published: July 2024

AbstractTrk (NTRK) receptor and NTRK gene fusions are oncogenic drivers of a wide variety of tumors. Although Trk receptors are typically activated at the cell surface, signaling of constitutive active Trk and diverse intracellular NTRK fusion oncogenes is barely investigated. Here, we show that a high intracellular abundance is sufficient for neurotrophin-independent, constitutive activation of TrkB kinase domains. In HEK293 cells, constitutive active TrkB kinase and an intracellular NTRK2-fusion oncogene (SQSTM1-NTRK2) reduced actin filopodia dynamics, phosphorylated FAK, and altered the cell morphology. Atypical cellular responses could be mimicked with the intracellular kinase domain, which did not activate the Trk-associated MAPK/ERK pathway. In glioblastoma-like U87MG cells, expression of TrkB or SQSTM1-NTRK2 reduced cell motility and caused drastic changes in the transcriptome. Clinically approved Trk inhibitors or mutating Y705 in the kinase domain, blocked the cellular effects and transcriptome changes. Atypical signaling was also seen for TrkA and TrkC. Moreover, hallmarks of atypical pTrk kinase were found in biopsies of Nestin-positive glioblastoma. Therefore, we suggest Western blot-like immunoassay screening of NTRK-related (brain) tumor biopsies to identify patients with atypical panTrk or phosphoTrk signals. Such patients could be candidates for treatment with NTRK inhibitors such as Larotrectinhib or Entrectinhib.
Gene drives: an alternative approach to malaria control?
Authors: Naidoo Kubendran , Oliver Shüné V. 
Published: July 2024

Abstract
Genetic modification for the control of mosquitoes is frequently touted as a solution for a variety of vector-borne diseases. There has been some success using non-insecticidal methods like sterile or incompatible insect techniques to control arbovirus diseases. However, control by genetic modifications to reduce mosquito populations or create mosquitoes that are refractory to infection with pathogens are less developed. The advent of CRISPR-Cas9-mediated gene drives may advance this mechanism of control. In this review, use and progress of gene drives for vector control, particularly for malaria, is discussed. A brief history of population suppression and replacement gene drives in mosquitoes, rapid advancement of the field over the last decade and how genetic modification fits into the current scope of vector control are described. Mechanisms of alternative vector control by genetic modification to modulate mosquitoes’ immune responses and anti-parasite effector molecules as part of a combinational strategy to combat malaria are considered. Finally, the limitations and ethics of using gene drives for mosquito control are discussed.
Thermo-adaptive interfacial solar evaporation enhanced by dynamic water gating
Authors: Wang Yi , Zhao Weinan , Lee Yebin , Li Yuning , Wang Zuankai , Tam Kam Chiu 
Published: July 2024

AbstractSolar-driven evaporation offers a sustainable solution for water purification, but efficiency losses due to heat dissipation and fouling limit its scalability. Herein, we present a bilayer-structured solar evaporator (SDWE) with dynamic fluidic flow mechanism, designed to ensure a thin water supply and self-cleaning capability. The porous polydopamine (PDA) layer on a nickel skeleton provides photothermal functionality and water microchannels, while the thermo-responsive sporopollenin layer on the bottom acts as a switchable water gate. Using confocal laser microscopy and micro-CT, we demonstrate that this unique structure ensures a steady supply of thin water layers, enhancing evaporation by minimizing latent heat at high temperatures. Additionally, the system initiates a self-cleaning process through bulk water convection when temperature drops due to salt accumulation, thus maintaining increased evaporation efficiency. Therefore, the optimized p-SDWE sample achieved a high evaporation rate of 3.58 kg m−2 h−1 using 93.9% solar energy from 1 sun irradiation, and produces 18–22 liters of purified water per square meter of SDWE per day from brine water. This dynamic water transport mechanism surpasses traditional day-night cycles, offering inherent thermal adaptability for continuous, high-efficiency evaporation.
Expanding N-glycopeptide identifications by modeling fragmentation, elution, and glycome connectivity
Authors: Klein Joshua , Carvalho Luis , Zaia Joseph 
Published: July 2024

AbstractAccurate glycopeptide identification in mass spectrometry-based glycoproteomics is a challenging problem at scale. Recent innovation has been made in increasing the scope and accuracy of glycopeptide identifications, with more precise uncertainty estimates for each part of the structure. We present a dynamically adapting relative retention time model for detecting and correcting ambiguous glycan assignments that are difficult to detect from fragmentation alone, a layered approach to glycopeptide fragmentation modeling that improves N-glycopeptide identification in samples without compromising identification quality, and a site-specific method to increase the depth of the glycoproteome confidently identifiable even further. We demonstrate our techniques on a set of previously published datasets, showing the performance gains at each stage of optimization. These techniques are provided in the open-source glycomics and glycoproteomics platform GlycReSoft available at https://github.com/mobiusklein/glycresoft.
Elastocaloric, barocaloric and magnetocaloric effects in spin crossover polymer composite films
Authors: Lünser Klara , Kavak Eyüp , Gürpinar Kübra , Emre Baris , Atakol Orhan , Stern-Taulats Enric , Porta Marcel , Planes Antoni , Lloveras Pol , Tamarit Josep-Lluís , Mañosa Lluís 
Published: July 2024

AbstractGiant barocaloric effects were recently reported for spin-crossover materials. The volume change in these materials suggests that the transition can be influenced by uniaxial stress, and give rise to giant elastocaloric properties. However, no measurements of the elastocaloric properties in these compounds have been reported so far. Here, we demonstrated the existence of elastocaloric effects associated with the spin-crossover transition. We dissolved particles of ([Fe(L)2](BF4)2, [L=2,6di(pyrazol-1-yl)pyridine]) into a polymeric matrix. We showed that the application of tensile uniaxial stress to a composite film resulted in a significant elastocaloric effect. The elastocaloric effect in this compound required lower applied stress than for other prototype elastocaloric materials. Additionally, this phenomenon occurred for low values of strain, leading to coefficient of performance of the material being one order of magnitude larger than that of other elastocaloric materials. We believe that spin-crossover materials are a good alternative to be implemented in eco-friendly refrigerators based on elastocaloric effects.
Interneuron diversity in the human dorsal striatum
Authors: Garma Leonardo D. , Harder Lisbeth , Barba-Reyes Juan M. , Marco Salas Sergio , Díez-Salguero Mónica , Nilsson Mats , Serrano-Pozo Alberto , Hyman Bradley T. , Muñoz-Manchado Ana B. 
Published: July 2024

AbstractDeciphering the striatal interneuron diversity is key to understanding the basal ganglia circuit and to untangling the complex neurological and psychiatric diseases affecting this brain structure. We performed snRNA-seq and spatial transcriptomics of postmortem human caudate nucleus and putamen samples to elucidate the diversity and abundance of interneuron populations and their inherent transcriptional structure in the human dorsal striatum. We propose a comprehensive taxonomy of striatal interneurons with eight main classes and fourteen subclasses, providing their full transcriptomic identity and spatial expression profile as well as additional quantitative FISH validation for specific populations. We have also delineated the correspondence of our taxonomy with previous standardized classifications and shown the main transcriptomic and class abundance differences between caudate nucleus and putamen. Notably, based on key functional genes such as ion channels and synaptic receptors, we found matching known mouse interneuron populations for the most abundant populations, the recently described PTHLH and TAC3 interneurons. Finally, we were able to integrate other published datasets with ours, supporting the generalizability of this harmonized taxonomy.
C-JUN overexpressing CAR-T cells in acute myeloid leukemia: preclinical characterization and phase I trial
Authors: Zuo Shiyu , Li Chuo , Sun Xiaolei , Deng Biping , Zhang Yibing , Han Yajing , Ling Zhuojun , Xu Jinlong , Duan Jiajia , Wang Zelin , Yu Xinjian , Zheng Qinlong , Xu Xiuwen , Zong Jiao , Tian Zhenglong , Shan Lingling , Tang Kaiting , Huang Huifang , Song Yanzhi , Niu Qing , Zhou Dongming , Feng Sizhou , Han Zhongchao , Wang Guoling , Wu Tong , Pan Jing , Feng Xiaoming 
Published: July 2024

AbstractChimeric antigen receptor (CAR) T cells show suboptimal efficacy in acute myeloid leukemia (AML). We find that CAR T cells exposed to myeloid leukemia show impaired activation and cytolytic function, accompanied by impaired antigen receptor downstream calcium, ZAP70, ERK, and C-JUN signaling, compared to those exposed to B-cell leukemia. These defects are caused in part by the high expression of CD155 by AML. Overexpressing C-JUN, but not other antigen receptor downstream components, maximally restores anti-tumor function. C-JUN overexpression increases costimulatory molecules and cytokines through reinvigoration of ERK or transcriptional activation, independent of anti-exhaustion. We conduct an open-label, non-randomized, single-arm, phase I trial of C-JUN-overexpressing CAR-T in AML (NCT04835519) with safety and efficacy as primary and secondary endpoints, respectively. Of the four patients treated, one has grade 4 (dose-limiting toxicity) and three have grade 1–2 cytokine release syndrome. Two patients have no detectable bone marrow blasts and one patient has blast reduction after treatment. Thus, overexpressing C-JUN endows CAR-T efficacy in AML.
Engineering interfacial sulfur migration in transition-metal sulfide enables low overpotential for durable hydrogen evolution in seawater
Authors: Li Min , Li Hong , Fan Hefei , Liu Qianfeng , Yan Zhao , Wang Aiqin , Yang Bing , Wang Erdong 
Published: July 2024

AbstractHydrogen production from seawater remains challenging due to the deactivation of the hydrogen evolution reaction (HER) electrode under high current density. To overcome the activity-stability trade-offs in transition-metal sulfides, we propose a strategy to engineer sulfur migration by constructing a nickel-cobalt sulfides heterostructure with nitrogen-doped carbon shell encapsulation (CN@NiCoS) electrocatalyst. State-of-the-art ex situ/in situ characterizations and density functional theory calculations reveal the restructuring of the CN@NiCoS interface, clearly identifying dynamic sulfur migration. The NiCoS heterostructure stimulates sulfur migration by creating sulfur vacancies at the Ni3S2-Co9S8 heterointerface, while the migrated sulfur atoms are subsequently captured by the CN shell via strong C-S bond, preventing sulfide dissolution into alkaline electrolyte. Remarkably, the dynamically formed sulfur-doped CN shell and sulfur vacancies pairing sites significantly enhances HER activity by altering the d-band center near Fermi level, resulting in a low overpotential of 4.6 and 8 mV at 10 mA cm−2 in alkaline freshwater and seawater media, and long-term stability up to 1000 h. This work thus provides a guidance for the design of high-performance HER electrocatalyst by engineering interfacial atomic migration.
Dopamine-mediated interactions between short- and long-term memory dynamics
Authors: Huang Cheng , Luo Junjie , Woo Seung Je , Roitman Lucas A. , Li Jizhou , Pieribone Vincent A. , Kannan Madhuvanthi , Vasan Ganesh , Schnitzer Mark J. 
Published: July 2024

AbstractIn dynamic environments, animals make behavioural decisions on the basis of the innate valences of sensory cues and information learnt about these cues across multiple timescales1–3. However, it remains unclear how the innate valence of a sensory stimulus affects the acquisition of learnt valence information and subsequent memory dynamics. Here we show that in the Drosophila brain, interconnected short- and long-term memory units of the mushroom body jointly regulate memory through dopamine signals that encode innate and learnt sensory valences. By performing time-lapse in vivo voltage-imaging studies of neural spiking in more than 500 flies undergoing olfactory associative conditioning, we found that protocerebral posterior lateral 1 dopamine neurons (PPL1-DANs)4 heterogeneously and bidirectionally encode innate and learnt valences of punishment, reward and odour cues. During learning, these valence signals regulate memory storage and extinction in mushroom body output neurons (MBONs)5. During initial conditioning bouts, PPL1-γ1pedc and PPL1-γ2α′1 neurons control short-term memory formation, which weakens inhibitory feedback from MBON-γ1pedc>α/β to PPL1-α′2α2 and PPL1-α3. During further conditioning, this diminished feedback allows these two PPL1-DANs to encode the net innate plus learnt valence of the conditioned odour cue, which gates long-term memory formation. A computational model constrained by the fly connectome6,7 and our spiking data explains how dopamine signals mediate the circuit interactions between short- and long-term memory traces, yielding predictions that our experiments confirmed. Overall, the mushroom body achieves flexible learning through the integration of innate and learnt valences in parallel learning units sharing feedback interconnections. This hybrid physiological–anatomical mechanism may be a general means by which dopamine regulates memory dynamics in other species and brain structures, including the vertebrate basal ganglia.
Mitochondrial DNA mosaicism in normal human somatic cells
Authors: An Jisong , Nam Chang Hyun , Kim Ryul , Lee Yunah , Won Hyein , Park Seongyeol , Lee Won Hee , Park Hansol , Yoon Christopher J. , An Yohan , Kim Jie-Hyun , Jun Jong Kwan , Bae Jeong Mo , Shin Eui-Cheol , Kim Bun , Cha Yong Jun , Kwon Hyun Woo , Oh Ji Won , Park Jee Yoon , Kim Min Jung , Ju Young Seok 
Published: July 2024

AbstractSomatic cells accumulate genomic alterations with age; however, our understanding of mitochondrial DNA (mtDNA) mosaicism remains limited. Here we investigated the genomes of 2,096 clones derived from three cell types across 31 donors, identifying 6,451 mtDNA variants with heteroplasmy levels of ≳0.3%. While the majority of these variants were unique to individual clones, suggesting stochastic acquisition with age, 409 variants (6%) were shared across multiple embryonic lineages, indicating their origin from heteroplasmy in fertilized eggs. The mutational spectrum exhibited replication-strand bias, implicating mtDNA replication as a major mutational process. We evaluated the mtDNA mutation rate (5.0 × 10−8 per base pair) and a turnover frequency of 10–20 per year, which are fundamental components shaping the landscape of mtDNA mosaicism over a lifetime. The expansion of mtDNA-truncating mutations toward homoplasmy was substantially suppressed. Our findings provide comprehensive insights into the origins, dynamics and functional consequences of mtDNA mosaicism in human somatic cells.
Chromosome-level genome assembly and annotation of xerophyte secretohalophyte Reaumuria soongarica
Authors: Song Miaomiao , Gong Wei , Tian Yunyun , Meng Yue , Huo Tingyu , Liu Yanan , Zhang Yeming , Dang Zhenhua 
Published: July 2024

AbstractReaumuria soongarica is a xerophytic shrub belonging to the Tamaricaceae family. The species is widely distributed in the deserts of Central Asia and is characterized by its remarkable adaptability to saline and barren desert environments. Using PacBio long-read sequencing and Hi-C technologies, we assembled a chromosome-level genome of R. soongarica. The genome assembly has a size of 1.28 Gb with a scaffold N50 of 116.15 Mb, and approximately 1.25 Gb sequences were anchored in 11 pseudo-chromosomes. A completeness assessment of the assembled genome revealed a BUSCO score of 97.5% and an LTR Assembly Index of 12.37. R. soongarica genome had approximately 60.07% repeat sequences. In total, 21,791 protein-coding genes were predicted, of which 95.64% were functionally annotated. This high-quality genome will serve as a foundation for studying the genomic evolution and adaptive mechanisms to arid-saline environments in R. soongarica, facilitating the exploration and utilization of its unique genetic resources.
The odour of an unfamiliar stressed or relaxed person affects dogs’ responses to a cognitive bias test
Authors: Parr-Cortes Z. , Müller C. T. , Talas L. , Mendl M. , Guest C. , Rooney N. J. 
Published: July 2024

AbstractDogs can discriminate stressed from non-stressed human odour samples, but the effect on their cognition is unstudied. Using a cognitive bias task, we tested how human odours affect dogs’ likelihood of approaching a food bowl placed at three ambiguous locations (“near-positive”, “middle” and “near-negative”) between trained “positive” (rewarded) and “negative” (unrewarded) locations. Using odour samples collected from three unfamiliar volunteers during stressful and relaxing activities, we tested eighteen dogs under three conditions: no odour, stress odour and relaxed odour, with the order of test odours counterbalanced across dogs. When exposed to stress odour during session three, dogs were significantly less likely to approach a bowl placed at one of the three ambiguous locations (near-negative) compared to no odour, indicating possible risk-reduction behaviours in response to the smell of human stress. Dogs’ learning of trained positive and negative locations improved with repeated testing and was significant between sessions two and three only when exposed to stress odour during session three, suggesting odour influenced learning. This is the first study to show that without visual or auditory cues, olfactory cues of human stress may affect dogs’ cognition and learning, which, if true, could have important consequences for dog welfare and working performance.
Biocompatibility, bioactivity, porosity, and sealer/dentin interface of bioceramic ready-to-use sealers using a dentin-tube model
Authors: Inada Rafaela Nanami Handa , Silva Evelin Carine Alves , Lopes Camila Soares , Queiroz Marcela Borsatto , Torres Fernanda Ferrari Esteves , da Silva Guilherme Ferreira , Cerri Paulo Sérgio , Guerreiro–Tanomaru Juliane Maria , Tanomaru-Filho Mário 
Published: July 2024

AbstractThis study evaluated the biocompatibility, bioactivity, porosity, and sealer/dentin interface of Sealer Plus BC (SP), Bio-C Sealer (BIOC), TotalFill BC Sealer (TF), and AH Plus (AHP). Dentin tubes filled with the sealers and empty tubes (control group) were implanted in the subcutaneous tissue of rats for different periods (n = 6 per group/period). Number of inflammatory cells (ICs), capsule thickness, von Kossa reaction, interleukin-6 (IL-6) and osteocalcin (OCN) were evaluated. Porosity and voids in the interface dentin/sealers were assessed by micro-computed tomography. The data were submitted to ANOVA/Tukey’s tests (α = 0.05). Greater capsule thickness, ICs and IL-6 immunolabeling cells were observed in AHP. No significant difference in thickness of capsule, ICs, and IL-6- immunolabeling cells was detected between SP and TF, in all periods, and after 30 and 60 days between all groups. At 60 days all groups had reduction in capsule thickness, ICs and IL-6 immunolabeling cells. Von Kossa-positive and birefringent structures were observed in the capsules around the sealers. BIOC, SP, and TF exhibited OCN-immunolabeling cells. All sealers had porosity values below 5%, besides low and similar interface voids. BIOC, SP and TF are biocompatible, bioactive, and have low porosity and voids. The dentin-tube model used is an alternative for evaluating bioceramic materials.