bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association of fecal short-chain fatty acids with clinical severity and gut microbiota in essential tremor and its difference from Parkinson’s disease
Authors: Huang Pei , Zhang Pingchen , Du Juanjuan , Gao Chao , Liu Jin , Tan Yuyan , Chen Shengdi 
Published: July 2023

AbstractDiagnosis of essential tremor (ET) at an early stage can be difficult, especially when distinguishing it from healthy controls (HCs) and Parkinson’s disease (PD). Recently, stool sample analysis of gut microbiota and its metabolites provides new ways to detect novel biomarkers for neurodegenerative diseases. Short-chain fatty acids (SCFAs), as the main metabolites of gut microbiota, were reduced in the feces of PD. However, fecal SCFAs in ET have never been investigated. We aimed to investigate the fecal SCFA levels in ET, assess their relationships with clinical symptoms and gut microbiota, and identify their potential diagnostic abilities. Fecal SCFAs and gut microbiota in 37 ET, 37 de novo PD and 35 HC were measured. Constipation, autonomic dysfunction and tremor severity were evaluated by scales. ET had lower fecal propionic, butyric and isobutyric acid levels than HC. Combined propionic, butyric and isobutyric acid distinguished ET from HC with an AUC of 0.751 (95% CI: 0.634–0.867). ET had lower fecal isovaleric and isobutyric acid levels than PD. Isovaleric and isobutyric acid differentiated ET from PD with an AUC of 0.743 (95% CI: 0.629–0.857). Fecal propionic acid was negatively correlated with constipation and autonomic dysfunction. Isobutyric and isovaleric acid were negatively associated with tremor severity. Lowered fecal SCFAs were related to a decreased abundance of Faecalibacterium and Catenibacterium in ET. In conclusion, fecal SCFAs were decreased in ET and correlated with clinical severity and gut microbiota changes. Fecal propionic, butyric, isobutyric and isovaleric acid might be potential diagnostic and differential diagnostic biomarkers for ET.
Peptide conformational sampling using the Quantum Approximate Optimization Algorithm
Authors: Boulebnane Sami , Lucas Xavier , Meyder Agnes , Adaszewski Stanislaw , Montanaro Ashley 
Published: July 2023

AbstractProtein folding has attracted considerable research effort in biochemistry in recent decades. In this work, we explore the potential of quantum computing to solve a simplified version of protein folding. More precisely, we numerically investigate the performance of the Quantum Approximate Optimization Algorithm (QAOA) in sampling low-energy conformations of short peptides. We start by benchmarking the algorithm on an even simpler problem: sampling self-avoiding walks. Motivated by promising results, we then apply the algorithm to a more complete version of protein folding, including a simplified physical potential. In this case, we find less promising results: deep quantum circuits are required to achieve accurate results, and the performance of QAOA can be matched by random sampling up to a small overhead. Overall, these results cast serious doubt on the ability of QAOA to address the protein folding problem in the near term, even in an extremely simplified setting.
An elegant scheme of self-testing for multipartite Bell inequalities
Authors: Panwar Ekta , Pandya Palash , Wieśniak Marcin 
Published: July 2023

AbstractSelf-testing is the most accurate form of certification of quantum devices. While self-testing in bipartite Bell scenarios has been thoroughly studied, self-testing in the more complex multipartite Bell scenarios remains largely unexplored. We present a simple and broadly applicable self-testing scheme forN-partite correlation Bell inequalities with two binary outcome observables per party. To showcase the versatility of our proof technique, we obtain self-testing statements for the MABK and WWWŻB family of linear Bell inequalities and Uffink’s family of quadratic Bell inequalities. In particular, we show that theN-partite MABK and Uffink’s quadratic Bell inequalities self-test the GHZ state and anti-commuting observables for each party. While the former uniquely specifies the state, the latter allows for an arbitrary relative phase. To demonstrate the operational relevance of the relative phase, we introduce Uffink’s complex-valuedNpartite Bell expression, whose extremal values self-test the GHZ states and uniquely specify the relative phase.
Computational modeling of AMPK and mTOR crosstalk in glutamatergic synapse calcium signaling
Authors: Leung A. , Rangamani P. 
Published: July 2023

AbstractNeuronal energy consumption is vital for information processing and memory formation in synapses. The brain consists of just 2% of the human body’s mass, but consumes almost 20% of the body’s energy budget. Most of this energy is attributed to active transport in ion signaling, with calcium being the canonical second messenger of synaptic transmission. Here, we develop a computational model of synaptic signaling resulting in the activation of two protein kinases critical in metabolic regulation and cell fate, AMP-Activated protein kinase (AMPK) and mammalian target of rapamycin (mTOR) and investigate the effect of glutamate stimulus frequency on their dynamics. Our model predicts that frequencies of glutamate stimulus over 10 Hz perturb AMPK and mTOR oscillations at higher magnitudes by up to 36% and change the area under curve (AUC) by 5%. This dynamic difference in AMPK and mTOR activation trajectories potentially differentiates high frequency stimulus bursts from basal neuronal signaling leading to a downstream change in synaptic plasticity. Further, we also investigate the crosstalk between insulin receptor and calcium signaling on AMPK and mTOR activation and predict that the pathways demonstrate multistability dependent on strength of insulin signaling and metabolic consumption rate. Our predictions have implications for improving our understanding of neuronal metabolism, synaptic pruning, and synaptic plasticity.
Poststroke neutrophil count is predictive of the outcomes of large-artery atherosclerotic stroke and associated with craniocervical atherosclerosis
Authors: Yang Yi , He Yue , Xu Yuhao , Han Wei , Zhao Tian , Shao Yuanwei , Yu Ming 
Published: July 2023

AbstractElevation of the neutrophil count is detrimental to the outcome of patients with stroke. The effect of poststroke neutrophil count on the outcome of patients with large-artery atherosclerosis (LAA) stroke is unclear. This study aims to explore the relationship of poststroke neutrophil count with the functional outcome of patients with LAA stroke, and the relationship of poststroke neutrophil count and craniocervical atherosclerotic stenosis (AS) number in these patients. The AS was defined as ≥ 50% stenosis or occlusion attributed to atherosclerosis on craniocervical large arteries. A total of 297 participants were enrolled in the cohort. In multivariable analyses, neutrophil count [adjusted relative risk (aRR) = 1.23, 95% confidence interval (CI) 1.09–1.40, p = 0.001] was an independent predictor of 90-day poor functional outcome [modified Rankin Scale (mRS) > 2 points]. The neutrophil count was significantly associated with the craniocervical AS number in a multivariable ordinal logistic regression analysis [adjusted odds ratio (aOR) = 1.41, 95% CI 1.16–1.72, p = 0.001]. The poststroke neutrophil count is a valuable predictor of 90-day poor functional outcome of patients with LAA stroke. The poststroke neutrophil count is positively correlated with the craniocervical AS number in these patients.
Shoot gravitropism and organ straightening cooperate to arrive at a mechanically favorable shape in Arabidopsis
Authors: Tsugawa Satoru , Miyake Yuzuki , Okamoto Keishi , Toyota Masatsugu , Yagi Hiroki , Terao Morita Miyo , Hara-Nishimura Ikuko , Demura Taku , Ueda Haruko 
Published: July 2023

AbstractGravitropism is the plant organ bending in response to gravity, while a straightening mechanism prevents bending beyond the gravitropic set-point angle. The promotion and prevention of bending occur simultaneously around the inflorescence stem tip. How these two opposing forces work together and what part of the stem they affect are unknown. To understand the mechanical forces involved, we rotated wild type and organ-straightening-deficient mutant (myosin xif xik) Arabidopsis plants to a horizontal position to initiate bending. The mutant stems started to bend before the wild-type stems, which led us to hypothesize that the force preventing bending was weaker in mutant. We modeled the wild-type and mutant stems as elastic rods, and evaluated two parameters: an organ-angle-dependent gravitropic-responsive parameter (β) and an organ-curvature-dependent proprioceptive-responsive parameter (γ). Our model showed that these two parameters were lower in mutant than in wild type, implying that, unexpectedly, both promotion and prevention of bending are weak in mutant. Subsequently, finite element method simulations revealed that the compressive stress in the middle of the stem was significantly lower in wild type than in mutant. The results of this study show that myosin-XIk-and-XIf-dependent organ straightening adjusts the stress distribution to achieve a mechanically favorable shape.
Climate and soil effects on tree species diversity and aboveground carbon patterns in semi-arid tree savannas
Authors: Mensah Sylvanus , Noulèkoun Florent , Dimobe Kangbéni , Seifert Thomas , Glèlè Kakaï Romain 
Published: July 2023

AbstractClimatic and edaphic effects are increasingly being discussed in the context of biodiversity-ecosystem functioning. Here we use data from West African semi-arid tree savannas and contrasting climatic conditions (lowervs. higher mean annual precipitation-MAP and mean annual temperature-MAT) to (1) determine how climate modulates the effects of species richness on aboveground carbon (AGC); (2) explore how species richness and AGC relate with soil variables in these contrasting climatic conditions; and (3) assess how climate and soil influence directly, and/or indirectly AGC through species richness and stand structural attributes such as tree density and size variation. We find that greater species richness is generally associated with higher AGC, but more strongly in areas with higher MAP, which also have greater stem density.There is a climate-related influence of soils on AGC, which decreases from lower to higher MAP conditions. Variance partitioning analyses and structural equation modelling show that, across all sites, MAP, relative to soils, has smaller effect on AGC, mediated by stand structural attributes whereas soil texture and fertility explain 14% of variations in AGC and influence AGC directly and indirectly via species richness and stand structural attributes. Our results highlight coordinated effects of climate and soils on AGC, which operated primarily via the mediation role of species diversity and stand structures.
Better prediction of clinical outcome in clear cell renal cell carcinoma based on a 6 metabolism-related gene signature
Authors: Yu Zhixian , Zhan Yating , Guo Yong , He Dalin 
Published: July 2023

AbstractIt has been reported that metabolic disorders participate in the formation and progression of clear cell renal cell carcinoma (ccRCC). However, the predictive value of metabolism-related genes (MRGs) in clinical outcome of ccRCC is still largely unknown. Herein, a novel metabolism-related signature was generated to assess the effect of MRGs on the prognosis of ccRCC patients. Important module MRGs were selected by differentially expressed analysis and WGCNA. Subsequently, the hub MRGs were screened via univariate cox regression as well as LASSO regression. A new metabolism-related signature of 6 hub MRGs (PAFAH2, ACADSB, ACADM, HADH, PYCR1 and ITPKA) was constructed, with a good prognostic prediction ability in the TCGA cohort. The prediction accuracy of this signature was further confirmed in both GSE22541 and FAHWMU cohort. Interestingly, this MRG risk signature was highly correlated with tumor mutation burden and immune infiltration in ccRCC. Notably, lower PAFAH2, a member of 6 MRGs, was found in ccRCC. Knockdown of PAFAH2 contributed to renal cancer cell proliferation and migration. Collectively, a 6-MRG prognostic risk signature is generated to estimate the prognostic status of ccRCC patients, providing a novel insight in the prognosis prediction and treatment of ccRCC.
Elevated urinary angiotensinogen excretion links central and renal hemodynamic alterations
Authors: Kosaki Keisei , Park Jiyeon , Matsui Masahiro , Sugaya Takeshi , Kuro-o Makoto , Saito Chie , Yamagata Kunihiro , Maeda Seiji 
Published: July 2023

AbstractInappropriate activation of intrarenal renin–angiotensin system (RAS) may contribute to the pathogenesis of cardio-renal syndrome (CRS). We aimed to examine the cross-sectional associations of urinary angiotensinogen (AGT) excretion, a biomarker of intrarenal RAS activity, with central (aortic) and renal hemodynamic parameters in middle-aged and older adults, including patients with chronic kidney disease. Aortic and renal hemodynamic parameters were measured using applanation tonometry and duplex ultrasonography in 282 participants. Urinary AGT, liver-type fatty acid-binding protein (L-FABP), and plasma N-terminal pro-B-type natriuretic peptide (NT-proBNP) levels were measured for each participant. Multiple linear regression analyses demonstrated that urinary AGT levels were associated with aortic blood pressures, pulsatile measures of renal blood flow, plasma NT-proBNP and urinary L-FABP levels after adjusting for potential covariates, including age, sex, body mass index, estimated glomerular filtration rate (GFR), and medication use. Additionally, when classified based on GFR stages and urinary AGT levels, plasma NT-proBNP and urinary L-FABP levels increased in participants with lower GFR and higher AGT groups. Our findings suggest that urinary AGT excretion is a shared determinant of central (aortic) and renal hemodynamics in middle-aged and older adults, providing clinical evidence for the potential role of intrarenal RAS activity in the development of CRS.
Herbicide resistance status impacts the profile of non-anthocyanin polyphenolics and some phytomedical properties of edible cornflower (Centaurea cyanus L.) flowers
Authors: Gawlik-Dziki Urszula , Wrzesińska-Krupa Barbara , Nowak Renata , Pietrzak Wioletta , Zyprych-Walczak Joanna , Obrępalska-Stęplowska Aleksandra 
Published: July 2023

AbstractTo ensure sufficient food supply worldwide, plants are treated with pesticides to provide protection against pathogens and pests. Herbicides are the most commonly utilised pesticides, used to reduce the growth of weeds. However, their long-term use has resulted in the emergence of herbicide-resistant biotypes in many weed species. Cornflower (Centaureacyanus L., Asteraceae) is one of these plants, whose biotypes resistant to herbicides from the group of acetolactate synthase (ALS) inhibitors have begun to emerge in recent years. Some plants, although undesirable in crops and considered as weeds, are of great importance in phytomedicine and food production, and characterised by a high content of health-promoting substances, including antioxidants. Our study aimed to investigate how the acquisition of herbicide resistance affects the health-promoting properties of plants on the example of cornflower, as well as how they are affected by herbicide treatment. To this end, we analysed non-anthocyanin polyphenols and antioxidant capacity in flowers of C.cyanus from herbicide-resistant and susceptible biotypes. Our results indicated significant compositional changes associated with an increase in the content of substances and activities that have health-promoting properties. High antioxidant activity and higher total phenolic and flavonoid compounds as well as reducing power were observed in resistant biotypes. The latter one increased additionally after herbicide treatment which might also suggest their role in the resistance acquisition mechanism. Overall, these results show that the herbicide resistance development, although unfavourable to crop production, may paradoxically have very positive effects for medicinal plants such as cornflower.
Unveiling the drives behind tetracycline adsorption capacity with biochar through machine learning
Authors: Zhang Pengyan , Liu Chong , Lao Dongqing , Nguyen Xuan Cuong , Paramasivan Balasubramanian , Qian Xiaoyan , Inyinbor Adejumoke Abosede , Hu Xuefei , You Yongjun , Li Fayong 
Published: July 2023

AbstractThis study aimed to develop a robust predictive model for tetracycline (TC) adsorption onto biochar (BC) by employing machine learning techniques to investigate the underlying driving factors. Four machine learning algorithms, namely Random Forest (RF), Gradient Boosting Decision Tree (GBDT), eXtreme Gradient Boosting (XGBoost) and Artificial Neural Networks (ANN), were used to model the adsorption of TC on BC using the data from 295 adsorption experiments. The analysis revealed that the RF model had the highest predictive accuracy (R2 = 0.9625) compared to ANN (R2 = 0.9410), GBDT (R2 = 0.9152), and XGBoost (R2 = 0.9592) models. This study revealed that BC with a specific surface area (S (BET)) exceeding 380 cm3·g−1 and particle sizes ranging between 2.5 and 14.0 nm displayed the greatest efficiency in TC adsorption. The TC-to-BC ratio was identified as the most influential factor affecting adsorption efficiency, with a weight of 0.595. The concentration gradient between the adsorbate and adsorbent was demonstrated to be the principal driving force behind TC adsorption by BC. A predictive model was successfully developed to estimate the sorption performance of various types of BC for TC based on their properties, thereby facilitating the selection of appropriate BC for TC wastewater treatment.
Ultrasound therapy for a week promotes regeneration and reduces pro-inflammatory macrophages in a rat sciatic nerve autograft model
Authors: Kawai Hideki , Ito Akira , Kawaguchi Asuka , Nagai-Tanima Momoko , Nakahara Ryo , Xu Shixuan , Kuroki Hiroshi 
Published: July 2023

AbstractPeripheral nerve injury causes long-term motor dysfunction. Ultrasound (US) therapy is expected to accelerate peripheral nerve regeneration. However, its optimal usage and effects on macrophage phenotypes during peripheral nerve regeneration remain unknown. In this study, we investigated the optimal duration of US therapy and its effects on macrophage phenotype. Twenty-seven rats with autologous sciatic nerve grafting were divided into three groups: two received US therapy (1 MHz frequency, intensity of 140 mW/cm2, 20% duty cycle, 5 min/day) for one (US1) or 4 weeks (US4), and one group received sham stimulation. Immunohistochemistry was performed 3 and 7 days after injury in another set of 12 rats. Eight weeks after the injury, the compound muscle action potential amplitude of the gastrocnemius in the US1 and US4 groups was significantly higher than that in the sham group. The toe-spreading test showed functional recovery, whereas the gait pattern during treadmill walking did not recover. There were no significant differences in motor function, histomorphometry, or muscle weight between groups. Immunohistochemistry showed that US therapy decreased the number of pro-inflammatory macrophages seven days after injury. Therefore, US therapy for both one or 4 weeks can similarly promote reinnervation and reduce proinflammatory macrophages in autograft model rats.
Experimental investigation on fracturing effects in hydraulic sand fracturing with acoustic emission and 3d laser scanning
Authors: Zhang Shuhui , Wang Chenghu , Zhu Guangpei , Gao Guiyun , Zhou Hao 
Published: July 2023

AbstractDue to the extremely low permeability of shale reservoirs, large-scale reservoir fracturing is required. Hydraulic fracturing is one of the most important technologies in shale gas exploration and development. In this paper, the acoustic emission energy and the number of location and fracture surface morphology of specimens before and after fracture are studied through hydraulic sand fracturing test. The test results show that: (1) the energy ratio obtained during hydraulic fracturing without proppant is the smallest, and increasing the confining pressure, as well as reducing the displacement and viscosity of the fracturing fluid will cause the energy ratio to decrease. From the perspective of acoustic emission energy, the proppant play an important role in the generation of fractures during hydraulic sand fracturing; (2) when the confining pressure increases, the number of shale specimens before and after rupture is the largest, but the total number of locating events is smaller than the sanding ratio increased; there is no proppant hydraulic fracturing, the number of specimens before and after the rupture is the largest. And the total number reached the minimum, indicating that the proppant can play an important role in the hydraulic sand fracturing test; (3) the sand is relatively large, the specific surface and standard deviation both reach the maximum, indicating that the fracture surface roughness is the largest under the test condition, and the fracturing effect is the best, but the specific surface and standard deviation are the minimum when fracturing without proppant, so indicating that the fracture surface fracturing effect is the worst at this time.
Selective activation of AKAP150/TRPV1 in ventrolateral periaqueductal gray GABAergic neurons facilitates conditioned place aversion in male mice
Authors: Bai Xiaohui , Zhang Kun , Ou Chaopeng , Nie Bilin , Zhang Jianxing , Huang Yongtian , Zhang Yingjun , Huang Jingxiu , Ouyang Handong , Cao Minghui , Huang Wan 
Published: July 2023

AbstractAversion refers to feelings of strong dislike or avoidance toward particular stimuli or situations. Aversion can be caused by pain stimuli and has a long-term negative impact on physical and mental health. Aversion can also be caused by drug abuse withdrawal, resulting in people with substance use disorder to relapse. However, the mechanisms underlying aversion remain unclear. The ventrolateral periaqueductal gray (vlPAG) is considered to play a key role in aversive behavior. Our study showed that inhibition of vlPAG GABAergic neurons significantly attenuated the conditioned place aversion (CPA) induced by hindpaw pain pinch or naloxone-precipitated morphine withdrawal. However, activating or inhibiting glutamatergic neurons, or activating GABAergic neurons cannot affect or alter CPA response. AKAP150 protein expression and phosphorylated TRPV1 (p-TRPV1) were significantly upregulated in these two CPA models. In AKAP150flox/flox mice and C57/B6J wild-type mice, cell-type-selective inhibition of AKAP150 in GABAergic neurons in the vlPAG attenuated aversion. However, downregulating AKAP150 in glutamatergic neurons did not attenuate aversion. Knockdown of AKAP150 in GABAergic neurons effectively reversed the p-TRPV1 upregulation in these two CPA models utilized in our study. Collectively, inhibition of the AKAP150/p-TRPV1 pathway in GABAergic neurons in the vlPAG may be considered a potential therapeutic target for the CPA response.