bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pulsed Demand Modeling for the Optimal Placement of Water Quality Sensors in Water Distribution Networks
Authors: Giudicianni C. , Campisano A. , Di Nardo A. , Creaco E. 
Published: September 2022

AbstractThis paper deals with the issue of the consistency of water distribution network (WDN) modeling concerning the nature of demand for the optimal water quality sensor placement. In this regard, a biobjective optimization for the sensor placement is carried out by minimizing the contamination extension or the contaminated population in the trade‐off with the number of sensors installed, by considering two alternative demand modeling conditions, that is, smooth and pulsed demand, respectively. The real layout of the two Italian WDNs is considered for the application of the methodology. The results show that for a given placement of sensors, the contamination extension always increases when the pulsed demand is considered. Furthermore, optimal sensor positions are affected by the pulsed demand especially in the case of highly looped WDN layouts and when the extent of contamination is used as objective function.
In situ electrosynthetic bacterial growth using electricity generated by a deep-sea hydrothermal vent
Authors: Yamamoto Masahiro , Takaki Yoshihiro , Kashima Hiroyuki , Tsuda Miwako , Tanizaki Akiko , Nakamura Ryuhei , Takai Ken 
Published: September 2022

Abstract
Electroautotrophic microorganisms have attracted great attention since they exhibit a new type of primary production. Here, in situ electrochemical cultivation was conducted using the naturally occurring electromotive forces at a deep-sea hydrothermal vent. The voltage and current generation originating from the resulting microbial activity was observed for 12 days of deployment, with fluctuation in response to tidal cycles. A novel bacterium belonging to the genus Thiomicrorhabdus dominated the microbial community specifically enriched on the cathode. Metagenomic analysis provided the draft genome of the bacterium and the gene repertoire indicated that the bacterium has the potential for thio-autotrophic growth, which is a typical physiological feature of the members of the genus, while the bacterium had a unique gene cluster encoding multi-heme cytochrome c proteins responsible for extracellular electron transfer. Herein, we propose this bacterium as a new species, specifically enriched during electricity generation, as ‘Candidatus Thiomicrorhabdus electrophagus’. This finding suggests the natural occurrence of electrosynthetic microbial populations using the geoelectricity in deep-sea hydrothermal environments.
Is there clinical evidence to support alveolar ridge preservation over extraction alone? A review of recent literature and case reports of late graft failure
Authors: Adams Robert J. 
Published: September 2022

AbstractSince its introduction in 1998, alveolar ridge preservation has become a popular technique, currently accounting for approximately 29% of all procedures involving bone substitute materials. The global cost of bone substitute materials for alveolar ridge preservation is estimated at $190 million annually and is expected to rise by approximately 11.4% per year.Numerous randomised controlled trials have compared alveolar ridge preservation to extraction alone. A recent Cochrane review reported that, in terms of socket dimensional change, the mean difference between alveolar ridge preservation and extraction alone is 1.18 mm horizontally and 1.35 mm vertically. The clinical impact of this is uncertain, for there is no significant difference in the need for graft procedures at implant placement between ridge preservation and extraction alone. There are no randomised controlled trials comparing aesthetic or functional outcomes.A systematic review of the histological outcomes of ridge preservation demonstrates that, compared to extraction alone, many bone substitute materials can significantly delay the bone healing process. No bone substitute material achieves statistically more new bone formation than extraction alone and many commonly used materials achieve significantly less bone formation. Grafted sites can demonstrate high levels of residual graft and granulation tissue.In the absence of good-quality clinical evidence to support alveolar ridge preservation, the technique must be questioned as the treatment of choice at extraction sites. This paper assesses recent systematic reviews and presents two case reports of late graft failure.
Aberrant paracrine signalling for bone remodelling underlies the mutant histone-driven giant cell tumour of bone
Authors: Cottone Lucia , Ligammari Lorena , Lee Hang-Mao , Knowles Helen J. , Henderson Stephen , Bianco Sara , Davies Christopher , Strauss Sandra , Amary Fernanda , Leite Ana Paula , Tirabosco Roberto , Haendler Kristian , Schultze Joachim L. , Herrero Javier , O’Donnell Paul , Grigoriadis Agamemnon E. , Salomoni Paolo , Flanagan Adrienne M. 
Published: September 2022

AbstractOncohistones represent compelling evidence for a causative role of epigenetic perturbations in cancer. Giant cell tumours of bone (GCTs) are characterised by a mutated histone H3.3 as the sole genetic driver present in bone-forming osteoprogenitor cells but absent from abnormally large bone-resorbing osteoclasts which represent the hallmark of these neoplasms. While these striking features imply a pathogenic interaction between mesenchymal and myelomonocytic lineages during GCT development, the underlying mechanisms remain unknown. We show that the changes in the transcriptome and epigenome in the mesenchymal cells caused by the H3.3-G34W mutation contribute to increase osteoclast recruitment in part via reduced expression of the TGFβ-like soluble factor, SCUBE3. Transcriptional changes in SCUBE3 are associated with altered histone marks and H3.3G34W enrichment at its enhancer regions. In turn, osteoclasts secrete unregulated amounts of SEMA4D which enhances proliferation of mutated osteoprogenitors arresting their maturation. These findings provide a mechanism by which GCTs undergo differentiation in response to denosumab, a drug that depletes the tumour of osteoclasts. In contrast, hTERT alterations, commonly found in malignant GCT, result in the histone-mutated neoplastic cells being independent of osteoclasts for their proliferation, predicting unresponsiveness to denosumab. We provide a mechanism for the initiation of GCT, the basis of which is dysfunctional cross-talk between bone-forming and bone-resorbing cells. The findings highlight the role of tumour/microenvironment bidirectional interactions in tumorigenesis and how this is exploited in the treatment of GCT.
miR-138-5p-mediated HOXD11 promotes cell invasion and metastasis by activating the FN1/MMP2/MMP9 pathway and predicts poor prognosis in penile squamous cell carcinoma
Authors: Tan Xingliang , Liu Zhenhua , Wang Yanjun , Wu Zhiming , Zou Yuantao , Luo Sihao , Tang Yi , Chen Dong , Yuan Gangjun , Yao Kai 
Published: September 2022

AbstractThe presence and extent of regional lymph node and distant metastasis are the most fatal prognostic factors in penile squamous cell carcinoma (PSCC). However, the available biomarkers and detailed mechanisms underlying the metastasis of PSCC remain elusive. Here, we explored the expression landscape of HOX genes in twelve paired PSCC tissues, including primary tumors, metastatic lymph nodes and corresponding normal tissues, and highlighted that HOXD11 was indispensable in the progression of PSCC. HOXD11 was upregulated in PSCC cell lines and tumors, especially in metastatic lymph nodes. High HOXD11 expression was associated with aggressive features, such as advanced pN stages, extranodal extension, pelvic lymph node and distant metastasis, and predicted poor survival. Furthermore, tumorigenesis assays demonstrated that knockdown of HOXD11 not only inhibited the capability of cell proliferation, invasion and tumor growth but also reduced the burden of metastatic lymph nodes. Further mechanistic studies indicated that miR-138-5p was a tumor suppressor in PSCC by inhibiting the translation of HOXD11 post-transcriptionally through binding to the 3′ untranslated region. Furthermore, HOXD11 activated the transcription of FN1 to decompose the extracellular matrix and to promote epithelial mesenchymal transition-like phenotype metastasis via FN1/MMP2/MMP9 pathways. Our study revealed that HOXD11 is a promising prognostic biomarker and predicts advanced disease with poor outcomes, which could serve as a potential therapeutic target for PSCC.
Intracellular energy controls dynamics of stress-induced ribonucleoprotein granules
Authors: Wang Tao , Tian Xibin , Kim Han Byeol , Jang Yura , Huang Zhiyuan , Na Chan Hyun , Wang Jiou 
Published: September 2022

AbstractEnergy metabolism and membraneless organelles have been implicated in human diseases including neurodegeneration. How energy deficiency regulates ribonucleoprotein particles such as stress granules (SGs) is still unclear. Here we identified a unique type of granules induced by energy deficiency under physiological conditions and uncovered the mechanisms by which the dynamics of diverse stress-induced granules are regulated. Severe energy deficiency induced the rapid formation of energy deficiency-induced stress granules (eSGs) independently of eIF2α phosphorylation, whereas moderate energy deficiency delayed the clearance of conventional SGs. The formation of eSGs or the clearance of SGs was regulated by the mTOR-4EBP1-eIF4E pathway or eIF4A1, involving assembly of the eIF4F complex or RNA condensation, respectively. In neurons or brain organoids derived from patients carrying the C9orf72 repeat expansion associated with amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD), the eSG formation was enhanced, and the clearance of conventional SGs was impaired. These results reveal a critical role for intracellular energy in the regulation of diverse granules and suggest that disruptions in energy-controlled granule dynamics may contribute to the pathogenesis of relevant diseases.
Payload distribution and capacity of mRNA lipid nanoparticles
Authors: Li Sixuan , Hu Yizong , Li Andrew , Lin Jinghan , Hsieh Kuangwen , Schneiderman Zachary , Zhang Pengfei , Zhu Yining , Qiu Chenhu , Kokkoli Efrosini , Wang Tza-Huei , Mao Hai-Quan 
Published: September 2022

AbstractLipid nanoparticles (LNPs) are effective vehicles to deliver mRNA vaccines and therapeutics. It has been challenging to assess mRNA packaging characteristics in LNPs, including payload distribution and capacity, which are critical to understanding structure-property-function relationships for further carrier development. Here, we report a method based on the multi-laser cylindrical illumination confocal spectroscopy (CICS) technique to examine mRNA and lipid contents in LNP formulations at the single-nanoparticle level. By differentiating unencapsulated mRNAs, empty LNPs and mRNA-loaded LNPs via coincidence analysis of fluorescent tags on different LNP components, and quantitatively resolving single-mRNA fluorescence, we reveal that a commonly referenced benchmark formulation using DLin-MC3 as the ionizable lipid contains mostly 2 mRNAs per loaded LNP with a presence of 40%–80% empty LNPs depending on the assembly conditions. Systematic analysis of different formulations with control variables reveals a kinetically controlled assembly mechanism that governs the payload distribution and capacity in LNPs. These results form the foundation for a holistic understanding of the molecular assembly of mRNA LNPs.
Simultaneous macroscale and microscale wave–ion interaction in near-earth space plasmas
Authors: Liu Z.-Y. , Zong Q.-G. , Rankin R. , Zhang H. , Wang Y. F. , Zhou X.-Z. , Fu S.-Y. , Yue C. , Zhu X.-Y. , Pollock C. J. , Fuselier S. A. , Le G. 
Published: September 2022

AbstractIdentifying how energy transfer proceeds from macroscales down to microscales in collisionless plasmas is at the forefront of astrophysics and space physics. It provides information on the evolution of involved plasma systems and the generation of high-energy particles in the universe. Here we report two cross-scale energy-transfer events observed by NASA’s Magnetospheric Multiscale spacecraft in Earth’s magnetosphere. In these events, hot ions simultaneously undergo interactions with macroscale (~$${10}^{5}$$105km) ultra-low-frequency waves and microscale ($$\sim {10}^{3}$$~103km) electromagnetic-ion-cyclotron (EMIC) waves. The cross-scale interactions cause energy to directly transfer from macroscales to microscales, and finally dissipate at microscales via EMIC-wave-induced ion energization. The direct measurements of the energy transfer rate in the second event confirm the efficiency of this cross-scale transfer process, whose timescale is estimated to be roughly ten EMIC-wave periods about (1 min). Therefore, these observations experimentally demonstrate that simultaneous macroscale and microscale wave-ion interactions provide an efficient mechanism for cross-scale energy transfer and plasma energization in astrophysical and space plasmas.
Live imaging and conditional disruption of native PCP activity using endogenously tagged zebrafish sfGFP-Vangl2
Authors: Jussila Maria , Boswell Curtis W. , Griffiths Nigel W. , Pumputis Patrick G. , Ciruna Brian 
Published: September 2022

AbstractTissue-wide coordination of polarized cytoskeletal organization and cell behaviour, critical for normal development, is controlled by asymmetric membrane localization of non-canonical Wnt/planar cell polarity (PCP) signalling components. Understanding the dynamic regulation of PCP thus requires visualization of these polarity proteins in vivo. Here we utilize CRISPR/Cas9 genome editing to introduce a fluorescent reporter onto the core PCP component, Vangl2, in zebrafish. Through live imaging of endogenous sfGFP-Vangl2 expression, we report on the authentic regulation of vertebrate PCP during embryogenesis. Furthermore, we couple sfGFP-Vangl2 with conditional zGrad GFP-nanobody degradation methodologies to interrogate tissue-specific functions for PCP. Remarkably, loss of Vangl2 in foxj1a-positive cell lineages causes ependymal cell cilia and Reissner fiber formation defects as well as idiopathic-like scoliosis. Together, our studies provide crucial insights into the establishment and maintenance of vertebrate PCP and create a powerful experimental paradigm for investigating post-embryonic and tissue-specific functions for Vangl2 in development and disease.
Rethinking the complexity and uncertainty of spatial networks applied to forest ecology
Authors: Wu Hao-Ran , Peng Chen , Chen Ming 
Published: September 2022

AbstractCharacterizing tree spatial patterns and interactions are helpful to reveal underlying processes assembling forest communities. Spatial networks, despite their complexity, are powerful to examine spatial interactions at an individual level using well-defined patterns. However, complex forestation networks introduce uncertainties. Validation methods are needed to assess whether network-based metrics can identify different processes. Here, we constructed three types of networks, which reflect various aspects of tree competition. Based on five spatial null models and 199 Monte-Carlo simulations, we were able to select network-based metrics that exhibited well performance in distinguishing different processes. This technique was then applied to a tropical forest dataset in Costa Rica. We found that the average node degree and the clustering coefficient are good metrics like the paired correlation function. In addition, the network approach can identify fine-scale spatial variations of tree competition and its underlying causes. Our analyzes also indicate that a bit of caution is needed when defining the network structure as well as designing network-based metrics. We suggested that validation techniques using corresponding spatial null models are critically important to reduce the negative effects caused by uncertainties of the network.
Human activity and mobility data reveal disparities in exposure risk reduction indicators among socially vulnerable populations during COVID-19 for five U.S. metropolitan cities
Authors: Coleman Natalie , Gao Xinyu , DeLeon Jared , Mostafavi Ali 
Published: September 2022

AbstractNon-pharmacologic interventions (NPIs) promote protective actions to lessen exposure risk to COVID-19 by reducing mobility patterns. However, there is a limited understanding of the underlying mechanisms associated with reducing mobility patterns especially for socially vulnerable populations. The research examines two datasets at a granular scale for five urban locations. Through exploratory analysis of networks, statistics, and spatial clustering, the research extensively investigates the exposure risk reduction after the implementation of NPIs to socially vulnerable populations, specifically lower income and non-white populations. The mobility dataset tracks population movement across ZIP codes for an origin–destination (O–D) network analysis. The population activity dataset uses the visits from census block groups (cbg) to points-of-interest (POIs) for network analysis of population-facilities interactions. The mobility dataset originates from a collaboration with StreetLight Data, a company focusing on transportation analytics, whereas the population activity dataset originates from a collaboration with SafeGraph, a company focusing on POI data. Both datasets indicated that low-income and non-white populations faced higher exposure risk. These findings can assist emergency planners and public health officials in comprehending how different populations are able to implement protective actions and it can inform more equitable and data-driven NPI policies for future epidemics.
Formation of chlorate and perchlorate during electrochemical oxidation by Magnéli phase Ti4O7 anode: inhibitory effects of coexisting constituents
Authors: Wang Lu , Wang Yaye , Sui Yufei , Lu Junhe , Hu Baowei , Huang Qingguo 
Published: September 2022

AbstractFormation of chlorate (ClO3−) and perchlorate (ClO4−) as by-products in electrooxidation process has raised concern. In the present study, the formation of ClO3− and ClO4− in the presence of 1.0 mM Cl− on boron doped diamond (BDD) and Magneli phase titanium suboxide (Ti4O7) anodes were evaluated. The Cl− was transformed to ClO3− (temporal maximum 276.2 μM) in the first 0.5 h on BDD anodes with a constant current density of 10 mA cm2, while approximately 1000 μM ClO4− was formed after 4.0 h. The formation of ClO3− on the Ti4O7 anode was slower, reaching a temporary maximum of approximately 350.6 μM in 4.0 h, and the formation of ClO4− was also slower on the Ti4O7 anode, taking 8.0 h to reach 780.0 μM. Compared with the BDD anode, the rate of ClO3− and ClO4− formation on the Ti4O7 anode were always slower, regardless of the supporting electrolytes used in the experiments, including Na2SO4, NaNO3, Na2B4O7, and Na2HPO4. It is interesting that the formation of ClO4− during electrooxidation was largely mitigated or even eliminated, when methanol, KI, and H2O2 were included in the reaction solutions. The mechanism of the inhibition on Cl− transformation by electrooxidation was explored.
Estrogen regulation of myokines that enhance osteoclast differentiation and activity
Authors: Norton Andrew , Thieu Kathleen , Baumann Cory W. , Lowe Dawn A. , Mansky Kim C. 
Published: September 2022

AbstractOsteoporosis and sarcopenia are maladies of aging that negatively affect more women than men. In recent years, it has become apparent that bone and muscle are coupled not only mechanically as muscle pulls on bone, but also at a higher level with myokines, biochemical and molecular signaling occurring between cells of the two tissues. However, how estrogen deficiency in females impacts the chemical crosstalk between bone and muscle cells is not understood. We hypothesize that changes in estrogen signaling alters myokine expression and intensifies bone loss in women. In our present study, we demonstrate that conditioned media from ovariectomized or skeletal muscle deficient in estrogen receptor α (ERα) expression enhances osteoclast differentiation and activity. Using a cytokine array, we identified myokines that have altered expressions in response to loss of estrogen signaling in muscle. Lastly, we demonstrate that conditional deletion of ERα in skeletal muscle results in osteopenia due to an increase in the osteoclast surface per bone surface. Our results suggest that estrogen signaling modulates expression of myokines that regulate osteoclast differentiation and activity.
Self-supervised graph neural network with pre-training generative learning for recommendation systems
Authors: Min Xin , Li Wei , Yang Jinzhao , Xie Weidong , Zhao Dazhe 
Published: September 2022

AbstractThe case assignment system is an essential system of case management and assignment within the procuratorate and is an important aspect of judicial fairness and efficiency. However, existing methods mostly use manual or random case assignment, which leads to unbalanced case distribution. Moreover, the relationship between prosecutors and case categories usually shows a power-law distribution in real-world data. Therefore, in this paper, we describe the case rationality assignment as a recommendation problem under the power-law distributed data. To solve the above problems, we propose an end-to-end Self-supervised Graph neural network model with Pre-training Generative learning for Recommendation (SGPGRec), the main idea of which is to capture self-supervised signals using intra-node features and inter-node correlations in the data, and generate the data representation by pre-training to improve the recommendation results. To be specific, we designed three auxiliary self-supervised tasks based on the prosecutor-case category interaction graph and the data distribution to obtain feature representations of prosecutors, case categories, and the interaction information between them. Then we constructed an end-to-end graph neural network recommendation model by the interaction information based on the data characteristics of the power-law distribution. Finally, extensive experimental consistency on a real-world dataset from three procuratorates shows that our method is effective compared to several yet competing baseline methods and further supports the development of an intelligent case assignment system with adequate performance.