bluuebunny/crossref_metadata_2025_split huggingface dataset:
Tracing sources of inorganic suspended particulate matter in the Great Barrier Reef lagoon, Australia
Authors: Bainbridge Zoe T. , Olley Jon M. , Lewis Stephen E. , Stevens Thomas , Smithers Scott G. 
Published: July 2024

AbstractWater clarity on the inshore Great Barrier Reef (GBR) is greatly influenced by terrestrial runoff of suspended particulate matter (SPM). Catchment sediment tracing studies often do not extend into the marine environment, preventing the analysis of preferential marine transport. This study employs novel collection and sediment tracing techniques to examine the transport of the terrigenous ‘mineral’ component of plume SPM within the GBR lagoon for two flood events. Utilising geochemical, radionuclide and clay mineral analysis, we trace terrigenous mineral sediments > 100 km from the river mouth. We show that the SPM geochemistry is highly influenced by particle-size fractionation, desorption, and dilution within the plume, rendering traditional tracing methods unviable. However, the ratios of rare earth elements (REE) to thorium (Th) provide stable tracers of mineral SPM transported across the catchment to marine continuum and allow the identification of discrete catchment sources for each flood event. Plume sediment radionuclides are also stable and consistent with sub-surface erosion sources.
Pan-cell death-related signature reveals tumor immune microenvironment and optimizes personalized therapy alternations in lung adenocarcinoma
Authors: Han Linzhi , He Jingyi , Xie Hongxin , Gong Yan , Xie Conghua 
Published: July 2024

AbstractThis study constructed a comprehensive analysis of cell death modules in eliminating aberrant cells and remodeling tumor microenvironment (TME). Consensus analysis was performed in 490 lung adenocarcinoma (LUAD) patients based on 4 types of cell death prognostic genes. Intersection method divided these LUAD samples into 5 cell death risk (CDR) clusters, and COX regression analysis were used to construct the CDR signature (CDRSig) with risk scores. Significant differences of TME phenotypes, clinical factors, genome variations, radiosensitivity and immunotherapy sensitivity were observed in different CDR clusters. Patients with higher risk scores in the CDRSig tended to be immune-excluded or immune-desert, and those with lower risk scores were more sensitive to radiotherapy and immunotherapy. The results from mouse model showed that intense expression of the high-risk gene PFKP was associated with low CD8+ T cell infiltration upon radiotherapy and anti-PD-L1 treatment. Deficient assays in vitro confirmed that PFKP downregulation enhanced cGAS/STING pathway activation and radiosensitivity in LUAD cells. In conclusion, our studies originally performed a comprehensive cell death analysis, suggesting the importance of CDR patterns in reprogramming TME and providing novel clues for LUAD personalized therapies.
The dynamic expression of YAP is essential for the development of male germ cells derived from human embryonic stem cells
Authors: Khampang Sujittra , Lorthongpanich Chanchao , Laowtammathron Chuti , Klaihmon Phatchanat , Meesa Sukanya , Suksomboon Wichuda , Jiamvoraphong Nittaya , Kheolamai Pakpoom , Luanpitpong Sudjit , Easley Charles A. , Mahyari Eisa , Issaragrisil Surapol 
Published: July 2024

AbstractYAP plays a vital role in controlling growth and differentiation in various cell lineages. Although the expression of YAP in mice testicular and spermatogenic cells suggests its role in mammalian spermatogenesis, the role of YAP in the development of human male germ cells has not yet been determined. Using an in vitro model and a gene editing approach, we generated human spermatogonia stem cell-like cells (hSSLCs) from human embryonic stem cells (hESCs) and investigated the role of YAP in human spermatogenesis. The results showed that reducing YAP expression during the early stage of spermatogenic differentiation increased the number of PLZF+ hSSLCs and haploid spermatid-like cells. We also demonstrated that the up-regulation of YAP is essential for maintaining spermatogenic cell survival during the later stages of spermatogenic differentiation. The expression of YAP that deviates from this pattern results in a lower number of hSSLCs and an increased level of spermatogenic cell death. Taken together, our result demonstrates that the dynamic expression pattern of YAP is essential for human spermatogenesis. Modulating the level of YAP during human spermatogenesis could improve the production yield of male germ cells derived from hESCs, which could provide the optimization method for in vitro gametogenesis and gain insight into the application in the treatment of male infertility.
OTUB1 regulates ferroptosis to inhibit myoblast differentiation into myotubes by deubiquitinating P62
Authors: Wei Limin , Li Yanhong , Tan Helin , Peng Yue , Liu Qian , Zheng Tingting , Li Feng , Xu Zhongxian 
Published: July 2024

AbstractAs the largest organ in the human body, skeletal muscle is essential for breathing support, movement initiation, and maintenance homeostasis. It has been shown that programmed cell death (PCD), which includes autophagy, apoptosis, and necrosis, is essential for the development of skeletal muscle. A novel form of PCD called ferroptosis is still poorly understood in relation to skeletal muscle. In this study, we observed that the activation of ferroptosis significantly impeded the differentiation of C2C12 myoblasts into myotubes and concurrently suppressed the expression of OTUB1, a crucial deubiquitinating enzyme. OTUB1-silenced C2C12 mouse myoblasts were used to investigate the function of OTUB1 in ferroptosis. The results show that OTUB1 knockdown in vitro significantly increased C2C12 ferroptosis and inhibited myogenesis. Interestingly, the induction of ferroptosis resulting from OTUB1 knockdown was concomitant with the activation of autophagy. Furthermore, OTUB1 interacted with the P62 protein and stabilized its expression by deubiquitinating it, thereby inhibiting autophagy-dependent ferroptosis and promoting myogenesis. All of these findings demonstrate the critical role that OTUB1 plays in controlling ferroptosis, and we suggest that focusing on the OTUB1-P62 axis may be a useful tactic in the treatment and prevention of disorders involving the skeletal muscle.
Multilayer UWB bandpass filter using liquid crystal polymer technology
Authors: Aliqab Khaled 
Published: July 2024

AbstractThis proposed design presents a novel bandpass filter employing a Marchand balun to attain ultra-wideband (UWB) performance extending from 3.1 to 10.7 GHz with 6.8 GHz central frequency and 110% FBW. The UWB bandpass filter’s fractional bandwidth can be tailored owing to the diverse input/output impedances of the planar Marchand balun. This adaptability is accomplished by connecting two planar Marchand baluns consecutively, leveraging the concepts of transversal filter ideas and multilayer LCP technology resulting in 0.3 dB and 12 dB insertion and return losses respectively. In-depth guidelines for the formulation and synthesis of the UWB bandpass filter are incorporated.
Actomyosin organelle functions of SPIRE actin nucleators precede animal evolution
Authors: Kollmar Martin , Welz Tobias , Ravi Aishwarya , Kaufmann Thomas , Alzahofi Noura , Hatje Klas , Alghamdi Asmahan , Kim Jiyu , Briggs Deborah A. , Samol-Wolf Annette , Pylypenko Olena , Hume Alistair N. , Burkhardt Pawel , Faix Jan , Kerkhoff Eugen 
Published: July 2024

AbstractAn important question in cell biology is how cytoskeletal proteins evolved and drove the development of novel structures and functions. Here we address the origin of SPIRE actin nucleators. Mammalian SPIREs work with RAB GTPases, formin (FMN)-subgroup actin assembly proteins and class-5 myosin (MYO5) motors to transport organelles along actin filaments towards the cell membrane. However, the origin and extent of functional conservation of SPIRE among species is unknown. Our sequence searches show that SPIRE exist throughout holozoans (animals and their closest single-celled relatives), but not other eukaryotes. SPIRE from unicellular holozoans (choanoflagellate), interacts with RAB, FMN and MYO5 proteins, nucleates actin filaments and complements mammalian SPIRE function in organelle transport. Meanwhile SPIRE and MYO5 proteins colocalise to organelles in Salpingoeca rosetta choanoflagellates. Based on these observations we propose that SPIRE originated in unicellular ancestors of animals providing an actin-myosin driven exocytic transport mechanism that may have contributed to the evolution of complex multicellular animals.
Enhanced recombination empowers the detection and mapping of Quantitative Trait Loci
Authors: Capilla-Pérez Laia , Solier Victor , Gilbault Elodie , Lian Qichao , Goel Manish , Huettel Bruno , Keurentjes Joost J. B. , Loudet Olivier , Mercier Raphael 
Published: July 2024

AbstractModern plant breeding, such as genomic selection and gene editing, is based on the knowledge of the genetic architecture of desired traits. Quantitative trait loci (QTL) analysis, which combines high throughput phenotyping and genotyping of segregating populations, is a powerful tool to identify these genetic determinants and to decipher the underlying mechanisms. However, meiotic recombination, which shuffles genetic information between generations, is limited: Typically only one to two exchange points, called crossovers, occur between a pair of homologous chromosomes. Here we test the effect on QTL analysis of boosting recombination, by mutating the anti-crossover factors RECQ4 and FIGL1 in Arabidopsis thaliana full hybrids and lines in which a single chromosome is hybrid. We show that increasing recombination ~6-fold empowers the detection and resolution of QTLs, reaching the gene scale with only a few hundred plants. Further, enhanced recombination unmasks some secondary QTLs undetected under normal recombination. These results show the benefits of enhanced recombination to decipher the genetic bases of traits.
Unraveling the pathological biomineralization of monosodium urate crystals in gout patients
Authors: Rodriguez-Navarro Carlos , Elert Kerstin , Ibañez-Velasco Aurelia , Monasterio-Guillot Luis , Andres Mariano , Sivera Francisca , Pascual Eliseo , Ruiz-Agudo Encarnación 
Published: July 2024

AbstractCrystallization of monosodium urate monohydrate (MSU) leads to painful gouty arthritis. Despite extensive research it is still unknown how this pathological biomineralization occurs, which hampers its prevention. Here we show how inflammatory MSU crystals form after a non-inflammatory amorphous precursor (AMSU) that nucleates heterogeneously on collagen fibrils from damaged articular cartilage of gout patients. This non-classical crystallization route imprints a nanogranular structure to biogenic acicular MSU crystals, which have smaller unit cell volume, lower microstrain, and higher crystallinity than synthetic MSU. These distinctive biosignatures are consistent with the template-promoted crystallization of biotic MSU crystals after AMSU at low supersaturation, and their slow growth over long periods of time (possibly years) in hyperuricemic gout patients. Our results help to better understand gout pathophysiology, underline the role of cartilage damage in promoting MSU crystallization, and suggest that there is a time-window to treat potential gouty patients before a critical amount of MSU has slowly formed as to trigger a gout flare.
Recent progress in on-surface synthesis of nanoporous graphene materials
Authors: Qin Tianchen , Wang Tao , Zhu Junfa 
Published: July 2024

AbstractNanoporous graphene (NPG) materials are generated by removing internal degree-3 vertices from graphene and introducing nanopores with specific topological structures, which have been widely explored and exploited for applications in electronic devices, membranes, and energy storage. The inherent properties of NPGs, such as the band structures, field effect mobilities and topological properties, are crucially determined by the geometric structure of nanopores. On-surface synthesis is an emerging strategy to fabricate low-dimensional carbon nanostructures with atomic precision. In this review, we introduce the progress of on-surface synthesis of atomically precise NPGs, and classify NPGs from the aspects of element types, topological structures, pore shapes, and synthesis strategies. We aim to provide a comprehensive overview of the recent advancements, promoting interdisciplinary collaboration to further advance the synthesis and applications of NPGs.
Spontaneous symmetry breaking of coupled Fabry–Pérot nanocavities
Authors: Mai Jianming , Huang Xiansheng , Guo Xu , Fan Haihua , Cheah Kok Wai 
Published: July 2024

AbstractRing cavities are quickly emerging as preferential platforms to investigate spontaneous symmetry breaking. However, research on handedness polarisation splitting within Kerr-coupled cavities is yet at a preliminary stage. Here, we observe experimentally spontaneous symmetry breaking in a non-Hermitian coupled Fabry‒Pérot nanocavity. In the experiment, horizontally polarised light is incident on the nanocavities, and symmetry breaking occurs when the power exceeds the symmetry breaking threshold of $$8\,{{\mbox{mW}}}$$
8

mW

. We interpret such observation via nonlinear coupled mode theory, finding that an excitation power-dependent random splitting of right- or left-handed circular polarisations (RCP and LCP, respectively) emerges at the resonance peak. Further numerical simulations show that when the incident power is above the symmetry breaking threshold, the device exhibits spontaneous symmetry breaking characteristics: an additional polarisation component appears in the output field when the input field is monopolarised, and this is attributed to the imbalance of RCP and LCP. Our findings provide further understanding of spontaneous symmetry breaking in non-Hermitian systems and demonstrate the potential applications of the proposed device in optical signal processing.
Chirality, anisotropic viscosity and elastic anisotropy in three-dimensional active nematic turbulence
Authors: Kralj Nika , Ravnik Miha , Kos Žiga 
Published: July 2024

AbstractVarious active materials exhibit strong spatio-temporal variability of their orientational order known as active turbulence, characterised by irregular and chaotic motion of topological defects, including colloidal suspensions, biofilaments, and bacterial colonies.In particular in three dimensions, it has not yet been explored how active turbulence responds to changes in material parameters and chirality.Here, we present a numerical study of three-dimensional (3D) active nematic turbulence, examining the influence of main material constants: (i) the flow-alignment viscosity, (ii) the magnitude and anisotropy of elastic deformation modes (elastic constants), and (iii) the chirality. Specifically, this main parameter space covers contractile or extensile, flow-aligning or flow tumbling, chiral or achiral elastically anisotropic active nematic fluids. The results are presented using time- and space-averaged fields of defect density and mean square velocity. The results also discuss defect density and mean square velocity as possible effective order parameters in chiral active nematics, distinguishing two chiral nematic states—active nematic blue phase and chiral active turbulence. This research contributes to the understanding of active turbulence, providing a numerical main phase space parameter sweep to help guide future experimental design and use of active materials.
Fe-rich X-ray amorphous material records past climate and persistence of water on Mars
Authors: Feldman Anthony D. , Hausrath Elisabeth M. , Rampe Elizabeth B. , Tu Valerie , Peretyazhko Tanya S. , DeFelice Christopher , Sharp Thomas 
Published: July 2024

AbstractX-ray amorphous material comprises 15-73 wt.% of sedimentary rocks and eolian sediments in Gale crater. This material is variably siliceous and iron rich but aluminum poor. The presence of volatiles is consistent with the existence of incipient weathering products. To better understand the implications of this material for past aqueous conditions on Mars, here we investigate X-ray amorphous material formation and longevity within terrestrial iron rich soils with varying ages and environmental conditions using bulk and selective dissolution methods, X-ray diffraction, and transmission electron microscopy. Results indicate that in situ aqueous alteration is required to concentrate iron into clay-size fraction material. Cooler climates promote the formation and persistence of X-ray amorphous material whereas warmer climates promote the formation of crystalline secondary phases. Iron rich X-ray amorphous material formation and persistence on Mars are therefore consistent with past cool and relatively wet environments followed by long-term cold and dry conditions.
Altimetry-based ice-marginal lake water level changes in Greenland
Authors: Dømgaard Mads , Kjeldsen Kristian , How Penny , Bjørk Anders 
Published: July 2024

AbstractGreenland holds over 3300 ice-marginal lakes, serving as natural reservoirs for outflow of meltwater to the ocean. A sudden release of water can largely influence ecosystems, landscape morphology, ice dynamics and cause flood hazards. While large-scale studies of glacial lake outburst floods (GLOFs) have been conducted in many glaciated regions, Greenland remains understudied. Here we use altimetry data to provide the first Greenland-wide inventory of ice-marginal lake water level changes, studying over 1100 lakes from 2003–2023, revealing a diverse range of lake behaviors. Around 60% of the lakes exhibit minimal fluctuations, while 326 lakes have drained, collectively contributing to 541 observed GLOFs from 2008–2022. These GLOFs vary substantially in magnitude and frequency, with the highest concentration observed in the North and Northeast regions. Our results show substantial annual differences in the number of GLOFs with a notable peak in 2019, coinciding with a year marked by extreme runoff. Our method detected a 1200% increase in the number of draining lakes compared to existing historical databases. This highlights a large underreporting of GLOF events and emphasizes the pressing need for a deeper understanding of the mechanisms behind and the consequences of these dramatic events.
Quantifying the interrelationships between physical, social, and cognitive-emotional components of mental fitness using digital technology
Authors: Iorfino Frank , Varidel Mathew , Capon William , Richards Matthew , Crouse Jacob J. , LaMonica Haley M. , Park Shin Ho , Piper Sarah , Song Yun Ju Christine , Gorban Carla , Scott Elizabeth M. , Hickie Ian B. 
Published: July 2024

AbstractMental fitness is a construct that goes beyond a simple focus on subjective emotional wellbeing to encompass more broadly our ability to think, feel, and act to achieve what we want in our daily lives. The measurement and monitoring of multiple (often interacting) domains is crucial to gain a holistic and complete insight into an individual’s mental fitness. We aimed to demonstrate the capability of a new mobile app to characterise the mental fitness of a general population of Australians and to quantify the interrelationships among different domains of mental fitness. Cross-sectional data were collected from 4901 adults from the general population of Australians engaged in work or education who used a mobile app (Innowell) between September 2021 and November 2022. Individuals completed a baseline questionnaire comprised of 26 questions across seven domains of mental fitness (i.e., physical activity, sleep and circadian rhythms, nutrition, substance use, daily activities, social connection, psychological distress). Network analysis was applied at both a domain-level (e.g., 7 nodes representing each cluster of items) and an individual item-level (i.e., 26 nodes representing all questionnaire items). Only 612 people (12%) were functioning well across all domains. One quarter (n = 1204, 25%) had only one problem domain and most (n = 3085, 63%) had multiple problem domains. The two most problematic domains were physical activity (n = 2631, 54%) and social connection (n = 2151, 44%), followed closely by daily activity (n = 1914, 39%). At the domain-level, the strongest association emerged between psychological distress and daily activity (r = 0.301). Psychological distress was the most central node in the network (as measured by strength and expected influence), followed closely by daily activity, sleep and circadian rhythms and then social connection. The item-level network revealed that the nodes with the highest centrality in the network were: hopelessness, depression, functional impairment, effortfulness, subjective energy, worthlessness, and social connectedness. Social connection, sleep and circadian rhythms, and daily activities may be critical targets for intervention due to their widespread associations in the overall network. While psychological distress was not among the most common problems, its centrality may indicate its importance for indicated prevention and early intervention. We showcase the capability of a new mobile app to monitor mental fitness and identify the interrelationships among multiple domains, which may help people develop more personalised insights and approaches.
Phase response constrained symbol‐level waveform design for dual‐functional radar‐communication systems
Authors: Zhang Tingxiao , Zhao Yongbo , Liu Donghe 
Published: July 2024

AbstractIn this letter, a novel algorithm is proposed to design symbol‐level waveform for dual‐functional radar‐communication (DFRC) systems with low range sidelobe. Different from current schemes design waveform at the block level, a phase response constraint is introduced at the symbol level to provide an additional degree of freedom to decrease the range sidelobe in the pulse compression procedure, which is highly desired in radar systems. In particular, the phase response at the target direction is constrained to be similar to the given reference phase, and the matching error between the designed beampattern and the desired one is minimized subject to the constant modulus constraint. Furthermore, to guarantee the quality of service for communication, constructive interference is exploited at the symbol level for each communication user. An alternating direction method of multipliers algorithm is also proposed to solve the resulting nonconvex optimization problem with tractable subproblems solved sufficiently by the manifold optimization and standard quadratic problem. Numerical simulation results demonstrate the performance of the proposed method.
Efficient high‐fidelity deep convolutional generative adversarial network model for received signal strength reconstruction in indoor environments
Authors: Wu Haochang , Ding Tairan , Qin Hao , Zhang Xingqi 
Published: July 2024

AbstractWith the rapid development of wireless communication systems, particularly in the era of 5G and the Internet of Things, deploying wireless communication networks in indoor environments has become crucial. Indoor infrastructure deployment necessitates innovative approaches for efficiently and accurately obtaining received signal strength (RSS) maps. However, traditional methods for acquiring RSS maps, such as empirical and deterministic models, are limited by significant inaccuracies and high computational demands. Empirical models often fail to capture the complex dynamics of indoor environments, resulting in deviations from actual signal behaviours. On the other hand, deterministic models, while more accurate, are computationally intensive due to their reliance on detailed physical modelling of wave propagation. This study introduces a machine learning approach based on deep convolutional generative adversarial networks (DCGAN) aimed at reconstructing indoor RSS maps with minimal RSS measurements. By leveraging DCGAN's generative and adversarial training capabilities, the method not only surpasses traditional interpolation methods in efficiency and precision but also offers new possibilities for the rapid deployment and optimization of wireless communication systems in indoor environments.