bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Deep Learning Approach Based on Physical Constraints for Predicting Soil Moisture in Unsaturated Zones
Authors: Wang Yi , Wang Wenke , Ma Zhitong , Zhao Ming , Li Wanxin , Hou Xinyue , Li Jie , Ye Fei , Ma Wenjing 
Published: October 2023

AbstractWater transport in the unsaturated zone is an important part of the hydrological cycle and is the link between the atmosphere‒soil‐groundwater for material and energy transport. The accurate prediction of soil moisture (SM) is essential for the rational exploitation of water resources. Data‐driven deep learning methods are widely used in many fields; however, the lack of physical mechanisms limits their application in hydrological fields, especially for SM prediction in unsaturated zones. To solve this problem, this study proposes a new deep learning method that introduces the water balance principle, Richard's equation, and SM boundary conditions as constraints to construct the new loss function that guides the training process of deep learning, called physics‐informed deep learning (PIDL). In tests consisting of a large number of data sets acquired from in situ observation sites in the field, PIDL exhibits higher accuracy than ordinary deep learning (long short‐term memory) and physical models, with 51.03% and 53.46% reduction in root mean square error of SM prediction, respectively. PIDL performance significantly improved in predicting scenarios that are difficult for ordinary deep learning to handle, such as sparse data sets, extreme values, and mutated values. In addition, PIDL maintains high accuracy over a longer prediction period. The addition of physical mechanisms allows deep learning to mine patterns not only from the data itself but also from a priori physical theoretical knowledge for guidance, and this hybrid modeling approach can also be generalized to prediction problems in other hydrological domains.
Predation-resistant Pseudomonas bacteria engage in symbiont-like behavior with the social amoeba Dictyostelium discoideum
Authors: Steele Margaret I , Peiser Jessica M , Shreenidhi P M , Strassmann Joan E , Queller David C 
Published: October 2023

Abstract
The soil amoeba Dictyostelium discoideum acts as both a predator and potential host for diverse bacteria. We tested fifteen Pseudomonas strains that were isolated from transiently infected wild D. discoideum for ability to escape predation and infect D. discoideum fruiting bodies. Three predation-resistant strains frequently caused extracellular infections of fruiting bodies but were not found within spores. Furthermore, infection by one of these species induces secondary infections and suppresses predation of otherwise edible bacteria. Another strain can persist inside of amoebae after being phagocytosed but is rarely taken up. We sequenced isolate genomes and discovered that predation-resistant isolates are not monophyletic. Many Pseudomonas isolates encode secretion systems and toxins known to improve resistance to phagocytosis in other species, as well as diverse secondary metabolite biosynthetic gene clusters that may contribute to predation resistance. However, the distribution of these genes alone cannot explain why some strains are edible and others are not. Each lineage may employ a unique mechanism for resistance.
Dental students' attitudes on cardiopulmonary resuscitation training via virtual reality: an exploratory study
Authors: Bjelovucic Ruza , Bak Jesper , Wolff Jan , Taneja Pankaj 
Published: October 2023

AbstractPurpose Resuscitation guidelines have advocated the use of virtual learning as a form of pre-course e-learning. Virtual reality (VR) has been identified to provide a method of constructive learning with instant feedback. There are increasing publications of VR use in cardiopulmonary resuscitation (CPR) training; however, there is a dearth from the dental profession. Therefore, the aim of this exploratory study was to investigate dental students' opinions in CPR training using VR.Methods In total, 120 dental students undertook both conventional (manikin) and VR CPR training in a cross-over design. The VR scenario was in a hospital setting. Following, students completed a questionnaire evaluating their experiences.Results The majority of students (n = 88) reported that this was the first time that they had utilised VR. The experience of using VR in CPR training was rated as very good. Most students felt that the inclusion of VR in CPR training created a better learning experience and had a high learning potential. However, the hospital setting was not entirely relevant.Conclusion Dental students recommended that VR CPR training should be used as an adjunct to conventional training in dental education, but the VR scenario would benefit being a virtual dental environment.
Implications of maternal-fetal health on perinatal stem cell banking
Authors: Zhu Dandan , Barabadi Mehri , McDonald Courtney , Kusuma Gina , Inocencio Ishmael Miguel , Lim Rebecca 
Published: October 2023

AbstractCell based therapies are being assessed for their therapeutic potential across a variety of diseases. Gestational tissues are attractive sources for cell therapy. The large number of births worldwide ensures sufficient access to gestational tissues, however, limited information has been reported around the impact of birth trends, delivery methods and pregnancy conditions on perinatal stem cell banking. This review describes the current state of banking of gestational tissues and their derived perinatal stem cells, discusses why the changes in birth trends and delivery methods could affect gestational tissue banking practices, and further explores how common pregnancy complications can potentially influence perinatal stem cell banking.
Cascading events during the 1650 tsunamigenic eruption of Kolumbo volcano
Authors: Karstens Jens , Crutchley Gareth J. , Hansteen Thor H. , Preine Jonas , Carey Steven , Elger Judith , Kühn Michel , Nomikou Paraskevi , Schmid Florian , Dalla Valle Giacomo , Kelfoun Karim , Berndt Christian 
Published: October 2023

AbstractVolcanic eruptions can trigger tsunamis, which may cause significant damage to coastal communities and infrastructure. Tsunami generation during volcanic eruptions is complex and often due to a combination of processes. The 1650 eruption of the Kolumbo submarine volcano triggered a tsunami causing major destruction on surrounding islands in the Aegean Sea. However, the source mechanisms behind the tsunami have been disputed due to difficulties in sampling and imaging submarine volcanoes. Here we show, based on three-dimensional seismic data, that ~1.2 km³ of Kolumbo’s northwestern flank moved 500–1000 m downslope along a basal detachment surface. This movement is consistent with depressurization of the magma feeding system, causing a catastrophic explosion. Numerical tsunami simulations indicate that only the combination of flank movement followed by an explosive eruption can explain historical eyewitness accounts. This cascading sequence of natural hazards suggests that assessing submarine flank movements is critical for early warning of volcanogenic tsunamis.
Boosting lithium ion conductivity of antiperovskite solid electrolyte by potassium ions substitution for cation clusters
Authors: Gao Lei , Zhang Xinyu , Zhu Jinlong , Han Songbai , Zhang Hao , Wang Liping , Zhao Ruo , Gao Song , Li Shuai , Wang Yonggang , Huang Dubin , Zhao Yusheng , Zou Ruqiang 
Published: October 2023

AbstractSolid-state electrolytes with high ionic conductivities are crucial for the development of all-solid-state lithium batteries, and there is a strong correlation between the ionic conductivities and underlying lattice structures of solid-state electrolytes. Here, we report a lattice manipulation method of replacing [Li2OH]+ clusters with potassium ions in antiperovskite solid-state electrolyte (Li2OH)0.99K0.01Cl, which leads to a remarkable increase in ionic conductivity (4.5 × 10‒3 mS cm‒1, 25 °C). Mechanistic analysis indicates that the lattice manipulation method leads to the stabilization of the cubic phase and lattice contraction for the antiperovskite, and causes significant changes in Li-ion transport trajectories and migration barriers. Also, the Li||LiFePO4 all-solid-state battery (excess Li and loading of 1.78 mg cm‒2 for LiFePO4) employing (Li2OH)0.99K0.01Cl electrolyte delivers a specific capacity of 116.4 mAh g‒1 at the 150th cycle with a capacity retention of 96.1% at 80 mA g‒1 and 120 °C, which indicates potential application prospects of antiperovskite electrolyte in all-solid-state lithium batteries.
Mechanism of substrate hydrolysis by the human nucleotide pool sanitiser DNPH1
Authors: Rzechorzek Neil J. , Kunzelmann Simone , Purkiss Andrew G. , Silva Dos Santos Mariana , MacRae James I. , Taylor Ian A. , Fugger Kasper , West Stephen C. 
Published: October 2023

AbstractPoly(ADP-ribose) polymerase (PARP) inhibitors are used in the clinic to treat BRCA-deficient breast, ovarian and prostate cancers. As their efficacy is potentiated by loss of the nucleotide salvage factor DNPH1 there is considerable interest in the development of highly specific small molecule DNPH1 inhibitors. Here, we present X-ray crystal structures of dimeric DNPH1 bound to its substrate hydroxymethyl deoxyuridine monophosphate (hmdUMP). Direct interaction with the hydroxymethyl group is important for substrate positioning, while conserved residues surrounding the base facilitate target discrimination. Glycosidic bond cleavage is driven by a conserved catalytic triad and proceeds via a two-step mechanism involving formation and subsequent disruption of a covalent glycosyl-enzyme intermediate. Mutation of a previously uncharacterised yet conserved glutamate traps the intermediate in the active site, demonstrating its role in the hydrolytic step. These observations define the enzyme’s catalytic site and mechanism of hydrolysis, and provide important insights for inhibitor discovery.
Wildfire precursors show complementary predictability in different timescales
Authors: Qu Yuquan , Miralles Diego G. , Veraverbeke Sander , Vereecken Harry , Montzka Carsten 
Published: October 2023

AbstractIn most of the world, conditions conducive to wildfires are becoming more prevalent. Net carbon emissions from wildfires contribute to a positive climate feedback that needs to be monitored, quantified, and predicted. Here we use a causal inference approach to evaluate the influence of top-down weather and bottom-up fuel precursors on wildfires. The top-down dominance on wildfires is more widespread than bottom-up dominance, accounting for 73.3% and 26.7% of regions, respectively. The top-down precursors dominate in the tropical rainforests, mid-latitudes, and eastern Siberian boreal forests. The bottom-up precursors dominate in North American and European boreal forests, and African and Australian savannahs. Our study identifies areas where wildfires are governed by fuel conditions and hence where fuel management practices may be more effective. Moreover, our study also highlights that top-down and bottom-up precursors show complementary wildfire predictability across timescales. Seasonal or interannual predictions are feasible in regions where bottom-up precursors dominate.
PH13 improves soybean shade traits and enhances yield for high-density planting at high latitudes
Authors: Qin Chao , Li Ying-hui , Li Delin , Zhang Xueru , Kong Lingping , Zhou Yonggang , Lyu Xiangguang , Ji Ronghuan , Wei Xiuzhi , Cheng Qican , Jia Zhiwei , Li Xiaojiao , Wang Qiang , Wang Yueqiang , Huang Wen , Yang Chunyan , Liu Like , Wang Xing , Xing Guangnan , Hu Guoyu , Shan Zhihui , Wang Ruizhen , Li Haiyan , Li Hongyu , Zhao Tao , Liu Jun , Lu Yuping , Hu Xiping , Kong Fanjiang , Qiu Li-juan , Liu Bin 
Published: October 2023

AbstractShading in combination with extended photoperiods can cause exaggerated stem elongation (ESE) in soybean, leading to lodging and reduced yields when planted at high-density in high-latitude regions. However, the genetic basis of plant height in adaptation to these regions remains unclear. Here, through a genome-wide association study, we identify a plant height regulating gene on chromosome 13 (PH13) encoding a WD40 protein with three main haplotypes in natural populations. We find that an insertion of a Ty1/Copia-like retrotransposon in the haplotype 3 leads to a truncated PH13H3 with reduced interaction with GmCOP1s, resulting in accumulation of STF1/2, and reduced plant height. In addition, PH13H3 allele has been strongly selected for genetic improvement at high latitudes. Deletion of both PH13 and its paralogue PHP can prevent shade-induced ESE and allow high-density planting. This study provides insights into the mechanism of shade-resistance and offers potential solutions for breeding high-yielding soybean cultivar for high-latitude regions.
Transcriptional dissection of symptomatic profiles across the brain of men and women with depression
Authors: Mansouri Samaneh , Pessoni André M. , Marroquín-Rivera Arturo , Parise Eric M. , Tamminga Carol A. , Turecki Gustavo , Nestler Eric J. , Chen Ting-Huei , Labonté Benoit 
Published: October 2023

AbstractMajor depressive disorder (MDD) is one of the most important causes of disability worldwide. While recent work provides insights into the molecular alterations in the brain of patients with MDD, whether these molecular signatures can be associated with the expression of specific symptom domains remains unclear. Here, we identified sex-specific gene modules associated with the expression of MDD, combining differential gene expression and co-expression network analyses in six cortical and subcortical brain regions. Our results show varying levels of network homology between males and females across brain regions, although the associations between these structures and the expression of MDD remain highly sex specific. We refined these associations to several symptom domains and identified transcriptional signatures associated with distinct functional pathways, including GABAergic and glutamatergic neurotransmission, metabolic processes and intracellular signal transduction, across brain regions associated with distinct symptomatic profiles in a sex-specific fashion. In most cases, these associations were specific to males or to females with MDD, although a subset of gene modules associated with common symptomatic features in both sexes were also identified. Together, our findings suggest that the expression of distinct MDD symptom domains associates with sex-specific transcriptional structures across brain regions.
Mitochondrial matrix RTN4IP1/OPA10 is an oxidoreductase for coenzyme Q synthesis
Authors: Park Isaac , Kim Kwang-eun , Kim Jeesoo , Kim Ae-Kyeong , Bae Subin , Jung Minkyo , Choi Jinhyuk , Mishra Pratyush Kumar , Kim Taek-Min , Kwak Chulhwan , Kang Myeong-Gyun , Yoo Chang-Mo , Mun Ji Young , Liu Kwang-Hyeon , Lee Kyu-Sun , Kim Jong-Seo , Suh Jae Myoung , Rhee Hyun-Woo 
Published: October 2023

AbstractTargeting proximity-labeling enzymes to specific cellular locations is a viable strategy for profiling subcellular proteomes. Here, we generated transgenic mice (MAX-Tg) expressing a mitochondrial matrix-targeted ascorbate peroxidase. Comparative analysis of matrix proteomes from the muscle tissues showed differential enrichment of mitochondrial proteins. We found that reticulon 4-interacting protein 1 (RTN4IP1), also known as optic atrophy-10, is enriched in the mitochondrial matrix of muscle tissues and is an NADPH oxidoreductase. Interactome analysis and in vitro enzymatic assays revealed an essential role for RTN4IP1 in coenzyme Q (CoQ) biosynthesis by regulating the O-methylation activity of COQ3. Rtn4ip1-knockout myoblasts had markedly decreased CoQ9 levels and impaired cellular respiration. Furthermore, muscle-specific knockdown of dRtn4ip1 in flies resulted in impaired muscle function, which was reversed by dietary supplementation with soluble CoQ. Collectively, these results demonstrate that RTN4IP1 is a mitochondrial NAD(P)H oxidoreductase essential for supporting mitochondrial respiration activity in the muscle tissue.
Evidence for a role of Anopheles stephensi in the spread of drug- and diagnosis-resistant malaria in Africa
Authors: Emiru Tadele , Getachew Dejene , Murphy Maxwell , Sedda Luigi , Ejigu Legesse Alamerie , Bulto Mikiyas Gebremichael , Byrne Isabel , Demisse Mulugeta , Abdo Melat , Chali Wakweya , Elliott Aaron , Vickers Eric Neubauer , Aranda-Díaz Andrés , Alemayehu Lina , Behaksera Sinknesh W. , Jebessa Gutema , Dinka Hunduma , Tsegaye Tizita , Teka Hiwot , Chibsa Sheleme , Mumba Peter , Girma Samuel , Hwang Jimee , Yoshimizu Melissa , Sutcliffe Alice , Taffese Hiwot Solomon , Bayissa Gudissa Aseffa , Zohdy Sarah , Tongren Jon Eric , Drakeley Chris , Greenhouse Bryan , Bousema Teun , Tadesse Fitsum G. 
Published: October 2023

AbstractAnopheles stephensi, an Asian malaria vector, continues to expand across Africa. The vector is now firmly established in urban settings in the Horn of Africa. Its presence in areas where malaria resurged suggested a possible role in causing malaria outbreaks. Here, using a prospective case–control design, we investigated the role of An. stephensi in transmission following a malaria outbreak in Dire Dawa, Ethiopia in April–July 2022. Screening contacts of patients with malaria and febrile controls revealed spatial clustering of Plasmodium falciparum infections around patients with malaria in strong association with the presence of An. stephensi in the household vicinity. Plasmodium sporozoites were detected in these mosquitoes. This outbreak involved clonal propagation of parasites with molecular signatures of artemisinin and diagnostic resistance. To our knowledge, this study provides the strongest evidence so far for a role of An. stephensi in driving an urban malaria outbreak in Africa, highlighting the major public health threat posed by this fast-spreading mosquito.
A global long-term daily reanalysis of reference evapotranspiration for drought and food-security monitoring
Authors: Hobbins Mike , Jansma Timen , Sarmiento Daniel P. , McNally Amy , Magadzire Tamuka , Jayanthi Harikishan , Turner Will , Hoell Andrew , Husak Greg , Senay Gabriel , Boiko Olena , Budde Michael , Mogane Pamella , Dewes Candida F. 
Published: October 2023

AbstractNOAA has developed a global reference evapotranspiration (ET0) reanalysis using the UN Food and Agriculture Organization formulation (FAO-56) of the Penman-Monteith equation forced by MERRA phase 2 (MERRA2) meteorological and radiative drivers. The NOAA ET0 reanalysis is provided daily from January 1, 1980 to the near-present at a resolution of 0.5° latitude × 0.625° longitude. The reanalysis is verified against station data across southern Africa, a region presenting both significant challenges regarding hydroclimatic variability and observational quantity and quality and significant potential benefits to food-insecure populations. These data are generated from observations from the Southern African Science Service Centre for Climate Change and Adaptive Land Management (SASSCAL) network. We further verified globally against spatially distributed ET0 derived from two reanalyses–the Global Data Assimilation System (GDAS) and Princeton Global Forcing (PGF)–and these verifications produced similar results, yet demonstrated wide regional and seasonal differences. We also present cases that verify the operational applicability of the reanalysis in long-established drought, famine, crop- and pastoral-stress metrics, and in predictability assessments of drought forecasts.
Association between HbA1c and hearing loss: a tertiary care center-based study
Authors: Lee Hyun Jin , Yoo Sung Goo , Lee Sun Jung , Han Jae Sang , Choi In Young , Park Kyoung Ho 
Published: October 2023

AbstractThe purpose of this study was to investigate the correlation between glycated hemoglobin (HbA1c) levels and hearing loss (HL) using data from a tertiary hospital. Our hypothesis regarding the relationship between HL and HbA1c levels was that elevated HbA1c levels are associated with an increased risk of HL. We retrospectively reviewed the medical charts of patients diagnosed with sensorineural HL or diabetes between 2006 and 2021 at the Catholic Medical Center (CMC). Data were collected from the CMC’s Clinical Data Warehouse. Participants were selected from patients who were prescribed pure-tone audiometry and an HbA1c blood test. The survey was completed for 5287 participants. The better ear pure-tone audiometry (PTA) for air conduction thresholds at 500, 1000, 2000, and 4000 Hz was calculated. Sensorineural HL was defined as a better ear PTA of 25 dB or higher. We used the HbA1c level as a diagnostic criterion for diabetes. The following criteria were used to define the HbA1c level: normal, HbA1c level below 5.6%; prediabetes, level between 5.6 and 6.4%; and diabetes, level of 6.5% or more. Among 5287 participants, 1129 were categorized as normal, 2119 as prediabetic, and 2039 as diabetic. The diabetic group was significantly older (p < 0.05). The PTA also significantly deteriorated in the diabetes group (p < 0.05). We analyzed the effects of age, sex, and HbA1c level on frequency-specific hearing using multiple regression. The hearing thresholds at all frequencies deteriorated significantly with increasing age and HbA1c level (p < 0.05). A case–control study was also performed to facilitate a comprehensive comparison between distinct groups. The participants were categorized into two groups: a case (PTA > 25 dB) and control group (PTA ≤ 25 dB), based on their PTA threshold of four frequencies. After adjusting for age and sex, we found no significant odds ratio (OR) of HL between the prediabetes group and the normal group. Notably, the OR of HL was significantly higher in the diabetes group with each PTA threshold and frequency. The 6.3% HbA1c level cutoff value was determined by analyzing the receiver operating characteristic curve for predicting hearing impairment > 25 dB. Diabetes was associated with hearing loss in all frequency ranges, particularly at high frequencies. Screening for HL is strongly recommended for patients with elevated HbA1c levels.
Scribble deficiency mediates colon inflammation by inhibiting autophagy-dependent oxidative stress elimination
Authors: Sun Xia , Lu Liying , Wang Kai , Song Lele , Jiao Jiazheng , Wu Yanjun , Wang Xinyu , Song Yanan , Zhan Lixing 
Published: October 2023

AbstractScribble is a master scaffold protein in apical-basal polarity. Current knowledge about the biological function of Scribble in colonic epithelial plasticity/regeneration during intestinal inflammation is limited. Here, we showed that the level of Scribble is decreased in inflammatory bowel disease (IBD) patients and mice with DSS-induced colitis. ScribΔIEC mice develops severe acute colitis with disrupted epithelial barrier integrity and impaired crypt stem cell’s function. Mechanistically, Scribble suppressed the process of autophagy by modulating the stability of caspase-dependent degradation of Atg16L1 by directly interacting with Atg16L1 in a LRR domain-dependent manner in IECs and led to an accumulation of ROS both in intestinal stem cells and epithelial cells. In addition, further study indicates that dietary sphingomyelin alleviates DSS-induced colitis by increase the expression of Scribble, which suggests that Scribble may be the critical marker of IBD. Our study shows that Scribble deficiency is associated with the dysregulated autophagy and impaired maintenance of colonic stemness, and it may be a target for diagnosis and treatment of IBD.