bluuebunny/crossref_metadata_2025 huggingface dataset:
Genomic profiling of idiopathic peri-hilar cholangiocarcinoma reveals new targets and mutational pathways
Authors: Quinn Leonard M. , Haldenby Sam , Antzcak Philip , Fowler Anna , Bullock Katie , Kenny John , Gilbert Timothy , Andrews Timothy , Diaz-Nieto Rafael , Fenwick Stephen , Jones Robert , Costello-Goldring Eithne , Poston Graeme , Greenhalf William , Palmer Daniel , Malik Hassan , Goldring Chris
Published: April 2023

Peri-hilar cholangiocarcinoma (pCCA) is chemorefractory and limited genomic analyses have been undertaken in Western idiopathic disease. We undertook comprehensive genomic analyses of a U.K. idiopathic pCCA cohort to characterize its mutational profile and identify new targets. Whole exome and targeted DNA sequencing was performed on forty-two resected pCCA tumors and normal bile ducts, with Gene Set Enrichment Analysis (GSEA) using one-tailed testing to generate false discovery rates (FDR). 60% of patients harbored one cancer-associated mutation, with two mutations in 20%. High frequency somatic mutations in genes not typically associated with cholangiocarcinoma included mTOR, ABL1 and NOTCH1. We identified non-synonymous mutation (p.Glu38del) in MAP3K9 in ten tumors, associated with increased peri-vascular invasion (Fisher’s exact, p < 0.018). Mutation-enriched pathways were primarily immunological, including innate Dectin-2 (FDR 0.001) and adaptive T-cell receptor pathways including PD-1 (FDR 0.007), CD4 phosphorylation (FDR 0.009) and ZAP70 translocation (FDR 0.009), with overlapping HLA genes. We observed cancer-associated mutations in over half of our patients. Many of these mutations are not typically associated with cholangiocarcinoma yet may increase eligibility for contemporary targeted trials. We also identified a targetable MAP3K9 mutation, in addition to oncogenic and immunological pathways hitherto not described in any cholangiocarcinoma subtype.
Optimized wake-superposition approach for multiturbine wind farms
Authors: Li Deshun , Chang Jixiang , Ma Gaosheng , Huo Chunyu , Li Rennian
Published: April 2023

Optimizing the wind farm layout requires accurately quantifying the wind-turbine wake distribution to minimize interference between wakes. Thus, the accuracy of wind turbine wake superposition models is critical. The sum of squares (SS) model is currently touted as the most accurate, but its application in engineering is hampered by its overestimation of the velocity deficit of the mixed wake. Therefore, previous work relied on approximate power calculations for performing optimization. The physical meaning of the SS model is unclear, which makes optimization difficult. In this study, a univariate linear correction idea is proposed based on the linear increase phenomenon of the SS method error. The unknown coefficients are obtained by fitting experimental data. The results demonstrate that the proposed method can accurately quantify the full-wake two-dimensional distribution of the mixed wake.
Spatial antiferromagnetic spin texture as a nano-oscillator
Authors: Gerasimchuk Victor S. , Gorobets Yuri I. , Gorobets Oksana Yu. , Gerasimchuk Igor V.
Published: April 2023

We report a theoretical study of the localized spatial magnetization configuration, which is a confined spin configuration of the target skyrmion/hopfion type in an antiferromagnet with perpendicular magnetic anisotropy, and then we solve the particular problem of self-oscillations of such a topological spin texture. Using the energy approach, a self-consistent account of inhomogeneity of the characteristics of the topological magnetic spin texture was carried out. On this basis, the equation of free oscillations of the confined spin configuration magnetization was derived and its quasi-classical solution was found. For a thin ring spin texture, the frequency, period of oscillations and relative amplitude of the main tone of oscillations are found. For the first time, we determined the topological mass, inertial mass and total energy of the main tone of oscillations of such spatial spin texture. The self-oscillatory process of a spatial spin texture is interpreted as a magnetic nano-oscillator.
Association between bone marrow lesions and bone mineral density of the proximal tibia in end-stage osteoarthritic knees
Authors: Sasaki Eiji , Araki Ryo , Sasaki Tomoyuki , Wakai Yuji , Yamamoto Yuji , Ishibashi Yasuyuki
Published: April 2023

This retrospective cross-sectional study investigated the association between bone marrow lesions (BMLs) and bone mineral density (BMD) in the proximal tibia of end-stage osteoarthritic knees from a large patient sample. Overall, 1308 end-stage osteoarthritic knees were enrolled before total knee arthroplasty. The preoperative range of motion was recorded. Bone mineral density in the medial tibial plateau (MTP), lateral tibial plateau (LTP), and metaphysis were measured using dual-energy X-ray absorptiometry. The MTP/LTP, MTP/metaphysis, and LTP/metaphysis ratios were calculated. BMLs were scored using a whole-organ magnetic resonance imaging scoring system. The relationship between BMD and BML scores was investigated using linear regression analysis. The highest BMD was 0.787 ± 0.176 g/cm2at the MTP, followed by 0.676 ± 0.180 g/cm2and 0.572 ± 0.145 g/cm2at the metaphysis and LTP, respectively. The prevalence of BMLs was 90.4% and 24.2% in the MTP and LTP, respectively. In women, higher BML scores at the MTP were positively correlated with the BMD of the MTP (p < 0.001, r = 0.278), MTP/LTP (p < 0.001, r = 0.267), and MTP/metaphysis ratios (p < 0.001, r = 0.243). Regression analysis showed that higher BML scores in the MTP were correlated with higher BMD in the MTP (p < 0.001) and lower BMD in the LTP (p < 0.001). High BML scores in the MTP were positively associated with high BMD in the MTP, which also induced the medial to lateral imbalance of BMD in the proximal tibia.
Mode of action, chemistry and defensive efficacy of the osmeterium in the caterpillar Battus polydamas archidamas
Authors: Palma-Onetto Valeria , Bergmann Jan , González-Teuber Marcia
Published: April 2023

Chemical secretions are one of the main defensive mechanisms in insects. The osmeterium is a unique organ in larvae of Papilionidae (Lepidoptera), which is everted upon disturbance, secreting odoriferous volatiles. Here, using larvae of the specialized butterfly Battus polydamas archidamas (Papilionidae: Troidini), we aimed to understand the mode of action of the osmeterium, the chemical composition and origin of the secretion, as well as its defensive efficiency against a natural predator. We described osmeterium’s morphology, ultramorphology, structure, ultrastructure, and chemistry. Additionally, behavioral assays of the osmeterial secretion against a predator were developed. We showed that the osmeterium is composed of tubular arms (made up by epidermal cells) and of two ellipsoid glands, which possess a secretory function. The eversion and retraction of the osmeterium are dependent on the internal pressure generated by the hemolymph, and by longitudinal muscles that connect the abdomen with the apex of the osmeterium. Germacrene A was the main compound present in the secretion. Minor monoterpenes (sabinene and ß-pinene) and sesquiterpenes ((E)-β-caryophyllene, selina-3,7(11)-diene, and other some unidentified compounds) were also detected. Only sesquiterpenes (with the exception of (E)-β-caryophyllene) are likely to be synthesized in the osmeterium-associated glands. Furthermore, the osmeterial secretion proved to deter predatory ants. Our results suggest that the osmeterium, besides serving as an aposematic warning for enemies, is an efficient chemical defense, with its own synthesis of irritant volatiles.
Within-subject reproducibility varies in multi-modal, longitudinal brain networks
Authors: Nakuci Johan , Wasylyshyn Nick , Cieslak Matthew , Elliott James C. , Bansal Kanika , Giesbrecht Barry , Grafton Scott T. , Vettel Jean M. , Garcia Javier O. , Muldoon Sarah F.
Published: April 2023

Network neuroscience provides important insights into brain function by analyzing complex networks constructed from diffusion Magnetic Resonance Imaging (dMRI), functional MRI (fMRI) and Electro/Magnetoencephalography (E/MEG) data. However, in order to ensure that results are reproducible, we need a better understanding of within- and between-subject variability over long periods of time. Here, we analyze a longitudinal, 8 session, multi-modal (dMRI, and simultaneous EEG-fMRI), and multiple task imaging data set. We first confirm that across all modalities, within-subject reproducibility is higher than between-subject reproducibility. We see high variability in the reproducibility of individual connections, but observe that in EEG-derived networks, during both rest and task, alpha-band connectivity is consistently more reproducible than connectivity in other frequency bands. Structural networks show a higher reliability than functional networks across network statistics, but synchronizability and eigenvector centrality are consistently less reliable than other network measures across all modalities. Finally, we find that structural dMRI networks outperform functional networks in their ability to identify individuals using a fingerprinting analysis. Our results highlight that functional networks likely reflect state-dependent variability not present in structural networks, and that the type of analysis should depend on whether or not one wants to take into account state-dependent fluctuations in connectivity.
Ultralow threshold surface emitting ultraviolet lasers with semiconductor nanowires
Authors: Vafadar Mohammad Fazel , Zhao Songrui
Published: April 2023

Surface-emitting (SE) semiconductor lasers have changed our everyday life in various ways such as communication and sensing. Expanding the operation wavelength of SE semiconductor lasers to shorter ultraviolet (UV) wavelength range further broadens the applications to disinfection, medical diagnostics, phototherapy, and so on. Nonetheless, realizing SE lasers in the UV range has remained to be a challenge. Despite of the recent breakthrough in UV SE lasers with aluminum gallium nitride (AlGaN), the electrically injected AlGaN nanowire UV lasers are based on random optical cavities, whereas AlGaN UV vertical-cavity SE lasers (VCSELs) are all through optical pumping and are all with large lasing threshold power densities in the range of several hundred kW/cm2 to MW/cm2. Herein, we report ultralow threshold, SE lasing in the UV spectral range with GaN-based epitaxial nanowire photonic crystals. Lasing at 367 nm is measured, with a threshold of only around 7 kW/cm2 (~ 49 μJ/cm2), a factor of 100× reduction compared to the previously reported conventional AlGaN UV VCSELs at similar lasing wavelengths. This is also the first achievement of nanowire photonic crystal SE lasers in the UV range. Further given the excellent electrical doping that has already been established in III-nitride nanowires, this work offers a viable path for the development of the long-sought-after semiconductor UV SE lasers.
Super-resolution of X-ray CT images of rock samples by sparse representation: applications to the complex texture of serpentinite
Authors: Omori Toshiaki , Suzuki Shoi , Michibayashi Katsuyoshi , Okamoto Atsushi
Published: April 2023

X-ray computed tomography (X-ray CT) has been widely used in the earth sciences, as it is non-destructive method for providing us the three-dimensional structures of rocks and sediments. Rock samples essentially possess various-scale structures, including millimeters to centimeter scales of layering and veins to micron-meter-scale mineral grains and porosities. As the limitations of the X-ray CT scanner, sample size and scanning time, it is not easy to extract information on multi-scale structures, even when hundreds meter scale core samples were obtained during drilling projects. As the first step to overcome such barriers on scale-resolution problems, we applied the super-resolution technique by sparse representation and dictionary-learning to X-ray CT images of rock core sample. By applications to serpentinized peridotite, which records the multi-stage water–rock interactions, we reveal that both grain-shapes, veins and background heterogeneities of high-resolution images can be reconstructed through super-resolution. We also show that the potential effectiveness of sparse super-resolution for feature extraction of complicated rock textures.
Comparison of clinical outcomes between intense pulsed light therapy using two different filters in meibomian gland dysfunction: prospective randomized study
Authors: Jang Joon Hyuck , Lee Koeun , Nam Sang Hyu , Kim Jin , Kim Jae Yong , Tchah Hungwon , Lee Hun
Published: April 2023

Our study compared treatment efficacy between cut-off and notch filters in intense pulsed light (IPL) therapy for meibomian gland dysfunction (MGD) through a prospective, randomized paired-eye trial. Additionally, the efficacy of IPL treatment alone was investigated by restricting other conventional treatments. One eye was randomly selected for an acne filter and the other for a 590-nm filter. Identical four regimens of IPL treatments were administered. The tear break-up time (TBUT), Oxford scale, Sjögren’s International Clinical Collaborative Alliance (SICCA) staining score, tear matrix metalloproteinase-9 (MMP-9) expression, tear osmolarity, and Ocular Surface Disease Index (OSDI) questionnaires were evaluated before and after IPL. Meibomian gland (MG) parameters were measured. When combining the results from both filters, the TBUT, SICCA staining score, OSDI score, and upper and lower lid meibum expressibility were improved after IPL. No significant differences were found between the two filters in the TBUT, Oxford scale, SICCA staining score, MMP-9 expression, tear osmolarity, and MG parameters. Although not significant, the acne filter showed better treatment efficacy than that in the 590-nm filter. IPL alone is efficacious in terms of ocular surface parameters, MG function, and subjective symptoms. Regarding filter selection, both acne and 590-nm filters are promising options for MGD treatment.
Distributions of CHN compounds in meteorites record organic syntheses in the early solar system
Authors: Furukawa Yoshihiro , Saigusa Daisuke , Kano Kuniyuki , Uruno Akira , Saito Ritsumi , Ito Motoo , Matsumoto Megumi , Aoki Junken , Yamamoto Masayuki , Nakamura Tomoki
Published: April 2023

Carbonaceous meteorites contain diverse soluble organic compounds. These compounds formed in the early solar system from volatiles accreted on tiny dust particles. However, the difference in the organic synthesis on respective dust particles in the early solar system remains unclear. We found micrometer-scale heterogeneous distributions of diverse CHN1-2 and CHN1-2O compounds in two primitive meteorites: the Murchison and NWA 801, using a surface-assisted laser desorption/ionization system connected to a high mass resolution mass spectrometer. These compounds contained mutual relationships of ± H2, ± CH2, ± H2O, and ± CH2O and showed highly similar distributions, indicating that they are the products of series reactions. The heterogeneity was caused by the micro-scale difference in the abundance of these compounds and the extent of the series reactions, indicating that these compounds formed on respective dust particles before asteroid accretion. The results of the present study provide evidence of heterogeneous volatile compositions and the extent of organic reactions among the dust particles that formed carbonaceous asteroids. The compositions of diverse small organic compounds associated with respective dust particles in meteorites are useful to understand different histories of volatile evolution in the early solar system.
Enhanced putamen functional connectivity underlies altered risky decision-making in age-related cognitive decline
Authors: Ren Ping , Hou Gangqiang , Ma Manxiu , Zhuang Yuchuan , Huang Jiayin , Tan Meiling , Wu Donghui , Luo Guozhi , Zhang Zhiguo , Rong Han
Published: April 2023

Risky decision-making is critical to survival and development, which has been compromised in elderly populations. However, the neural substrates of altered financial risk-taking behavior in aging are still under-investigated. Here we examined the intrinsic putamen network in modulating risk-taking behaviors of Balloon Analogue Risk Task in healthy young and older adults using resting-state fMRI. Compared with the young group, the elderly group showed significantly different task performance. Based on the task performance, older adults were further subdivided into two subgroups, showing young-like and over-conservative risk behaviors, regardless of cognitive decline. Compared with young adults, the intrinsic pattern of putamen connectivity was significantly different in over-conservative older adults, but not in young-like older adults. Notably, age-effects on risk behaviors were mediated via the putamen functional connectivity. In addition, the putamen gray matter volume showed significantly different relationships with risk behaviors and functional connectivity in over-conservative older adults. Our findings suggest that reward-based risky behaviors might be a sensitive indicator of brain aging, highlighting the critical role of the putamen network in maintaining optimal risky decision-making in age-related cognitive decline.
Long-term survival, temperature, and torpor patterns
Authors: Geiser Fritz , Ruf Thomas
Published: April 2023

Mammalian and avian torpor is highly effective in reducing energy expenditure. However, the extent of energy savings achieved and thus long-term survival appear to differ between species capable of multiday hibernation and species restricted to daily heterothermy, which could, however, be due to thermal effects. We tested how long-term survival on stored body fat (i.e. time to lean body mass), crucial for overcoming adverse periods, is related to the pattern of torpor expressed under different ambient temperatures (Ta: 7 °C typical of hibernation, 15 and 22 °C typical of daily torpor) in the small marsupial hibernator the pygmy-possum (Cercartetus nanus). Possums expressed torpor at all Tas and survived without food for 310 days on average at Ta 7 °C, 195 days at Ta 15 °C, and 127 days at Ta 22 °C. At Ta 7 and 15 °C, torpor bout duration (TBD) increased from < 1–3 to ~ 5–16 days over 2 months, whereas at Ta 22 °C, TBD remained at < 1 to ~ 2 days. At all Tas daily energy use was substantially lower and TBD and survival times of possums much longer (3–12 months) than in daily heterotherms (~ 10 days). Such pronounced differences in torpor patterns and survival times even under similar thermal conditions provide strong support for the concept that torpor in hibernators and daily heterotherms are physiologically distinct and have evolved for different ecological purposes.
Genetic assessment of the value of restoration planting within an endangered eucalypt woodland
Authors: Rosser Natalie L. , Quinton Anthony , Davey Huw , Ayre David J. , Denham Andrew J.
Published: April 2023

Assessment of woodland restoration often focusses on stand demographics, but genetic factors likely influence long-term stand viability. We examined the genetic composition of Yellow Box (Eucalyptus melliodora) trees in endangered Box-Gum Grassy Woodland in SE Australia, some 30 years after planting with seeds of reportedly local provenance. Using DArT sequencing for 1406 SNPs, we compared genetic diversity and population structure of planted E. melliodora trees with remnant bushland trees, paddock trees and natural recruits. Genetic patterns imply that natural stands and paddock trees had historically high gene flow (among group pairwise FST = 0.04–0.10). Genetic diversity was highest among relictual paddock trees (He = 0.17), while diversity of revegetated trees was identical to natural bushland trees (He = 0.14). Bayesian clustering placed the revegetated trees into six genetic groups with four corresponding to genotypes from paddock trees, indicating that revegetated stands are mainly of genetically diverse, local provenance. Natural recruits were largely derived from paddock trees with some contribution from planted trees. A few trees have likely hybridised with other local eucalypt species which are unlikely to compromise stand integrity. We show that paddock trees have high genetic diversity and capture historic genetic variety and provide important foci for natural recruitment of genetically diverse and outcrossed seedlings.
Exploring role of sleep aids in sleep problems in preschool children
Authors: Yamaguchi Masanori , Ishibashi Mikako , Moriguchi Yusuke , Mitsuishi Hisashi , Itakura Shoji
Published: April 2023

It is well known that children use sleep aids, such as blankets or soft toys, at bedtime. However, there is a lack of understanding regarding the factors associated with their use and role in addressing sleep problems. This study investigated 96 Japanese children aged 40 to 47 months to examine these associations. We measured children’s stress (through a questionnaire and salivary cortisol [cortisol awakening response]), anxiety symptoms, behavioral problems, and temperament, and created a model to predict the status of sleep aid use. Furthermore, we explored the association between sleep aid use and children’s sleep problems as evaluated by their caregivers. We found that children who used sleep aids were more likely to experience anxiety symptoms. Moreover, most children used sleep aids even when they co-slept with their caregivers and/or siblings. Their use was not uniquely associated with sleep problems. These findings suggest that sleep aid serves as a defense against anxiety, including that caused by the absence of a caregiver, rather than as a substitute for a caregiver. Our study sheds light on their role and emphasizes the importance of viewing development within the complex interactive processes of humans and objects.
Transcriptome analysis based on machine learning reveals a role for autoinflammatory genes of chronic nonbacterial osteomyelitis (CNO)
Authors: Fu Zhuodong , Wang Xingkai , Zou Linxuan , Zhang Zhe , Lu Ming , Zong Junwei , Wang Shouyu
Published: April 2023

Chronic nonbacterial osteomyelitis (CNO) is an autoinflammatory bone disorder. The origin and development of CNO involve many complex immune processes, resulting in delayed diagnosis and a lack of effective treatment. Although bioinformatics analysis has been utilized to seek key genes and pathways in CNO, only a few bioinformatics studies that focus on CNO pathogenesis and mechanisms have been reported. This study aimed to identify key biomarkers that could serve as early diagnostic or therapeutic markers for CNO. Two RNA-seq datasets (GSE133378 and GSE187429) were obtained from the Gene Expression Omnibus (GEO). Weighted gene coexpression network analysis (WGCNA) and differentially expressed gene (DEG) analysis were conducted to identify the genes associated with CNO. Then, the autoinflammatory genes most associated with CNO were identified based on the GeneCards database and a CNO prediction model, which was created by the LASSO machine learning algorithm. The accuracy of the model and effects of the autoinflammatory genes according to receiver operating characteristic (ROC) curves were verified in external datasets (GSE7014). Finally, we performed clustering analysis with ConsensusClusterPlus. In total, eighty CNO-related genes were identified and were significantly enriched in the biological processes regulation of actin filament organization, cell–cell junction organization and gamma-catenin binding. The main enriched pathways were adherens junctions, viral carcinogenesis and systemic lupus erythematosus. Two autoinflammatory genes with high expression in CNO samples were identified by combining an optimal machine learning algorithm (LASSO) with the GeneCards database. An external validation dataset (GSE187429) was utilized for ROC analysis of the prediction model and two genes, and the results indicated good efficiency. Then, based on consensus clustering analysis, we found that the expression of UTS2 and MPO differed between clusters. Finally, the ceRNA network of lncRNAs and the small molecule compounds targeting the two autoinflammatory genes were predicted. The identification of two autoinflammatory genes, the HCG18/has-mir-147a/UTS2/MPO axis and signalling pathways in this study can help us understand the molecular mechanism of CNO formation and provides candidate targets for the diagnosis and treatment of CNO.
Enhancing cancer treatment and understanding through clustering of gene responses to categorical stressors
Authors: El Hadi Christopher , Hilal George , Aoun Rita
Published: April 2023

Cancer cells have a unique metabolic activity in the glycolysis pathway compared to normal cells, which allows them to maintain their growth and proliferation. Therefore, inhibition of glycolytic pathways may be a promising therapeutic approach for cancer treatment. In this novel study, we analyzed the genetic responses of cancer cells to stressors, particularly to drugs that target the glycolysis pathway. Gene expression data for experiments on different cancer cell types were extracted from the Gene Expression Omnibus and the expression fold change was then clustered after dimensionality reduction. We identified four groups of responses: the first and third were most affected by anti-glycolytic drugs, especially those acting on multiple pathways at once, and consisted mainly of squamous and mesenchymal tissues, showing higher mitotic inhibition and apoptosis. The second and fourth groups were relatively unaffected by treatment, comprising mainly gynecologic and hormone-sensitive groups, succumbing least to glycolysis inhibitors. Hexokinase-targeted drugs mainly showed this blunted effect on cancer cells. This study highlights the importance of analyzing the molecular states of cancer cells to identify potential targets for personalized cancer therapies and to improve our understanding of the disease.
A pilot study of stable isotope fractionation in Bombyx mori rearing
Authors: Li Hao , He Yujie , Lu Jinzhong , Jia Liling , Liu Yong , Yang Dan , Shao Shuai , Lv Gang , Yang Hailiang , Zheng Hailing , Zhou Yang , Peng Zhiqin
Published: April 2023

Hydrogen, oxygen, carbon, and nitrogen isotopes derived from three different strains of silkworms at different life stages involved in silkworm rearing, were measured to understand the fractionation characteristics of stable isotopes at different stages of silkworm development, and to trace the movement of these isotopes from food to larva to excrement and finally to silk. We found that silkworm strain had little effect on δ2H, δ18O and δ13C values. However, a large difference was found in the δ15N levels of newly-hatched silkworms between Jingsong Haoyue and Hua Kang No. 3 orthogonal strains, suggesting that the mating and egg laying differences may result in an inconsistent kinetic nitrogen isotope fractionation. The δ13C values of silkworm pupae and silkworm cocoon also displayed significant differences, suggesting that heavy carbon isotopes are greatly fractionated from the larva to the silk during cocoon formation. Overall, these results may be used to clarify the relationship between isotope fractionation and the ecological process of theBombyx moriand expand our ability to resolve stable isotope anomalies at a small regional-scale level.
Identification of a novel gut microbiota signature associated with colorectal cancer in Thai population
Authors: Iadsee Nutta , Chuaypen Natthaya , Techawiwattanaboon Teerasit , Jinato Thananya , Patcharatrakul Tanisa , Malakorn Songphol , Petchlorlian Aisawan , Praditpornsilpa Kearkiat , Patarakul Kanitha
Published: April 2023

Colorectal cancer (CRC) is the third most common cancer worldwide. Dysbiosis of human gut microbiota has been linked to sporadic CRC. This study aimed to compare the gut microbiota profiles of 80 Thai volunteers over 50 years of age among 25 CRC patients, 33 patients with adenomatous polyp, and 22 healthy controls. The 16S rRNA sequencing was utilized to characterize the gut microbiome in both mucosal tissue and stool samples. The results revealed that the luminal microbiota incompletely represented the intestinal bacteria at the mucus layer. The mucosal microbiota in beta diversity differed significantly among the three groups. The stepwise increase of Bacteroides and Parabacteroides according to the adenomas–carcinomas sequence was found. Moreover, linear discriminant analysis effect size showed a higher level of Erysipelatoclostridium ramosum (ER), an opportunistic pathogen in the immunocompromised host, in both sample types of CRC patients. These findings indicated that the imbalance of intestinal microorganisms might involve in CRC tumorigenesis. Additionally, absolute quantitation of bacterial burden by quantitative real–time PCR (qPCR) confirmed the increasing ER levels in both sample types of cancer cases. Using ER as a stool–based biomarker for CRC detection by qPCR could predict CRC in stool samples with a specificity of 72.7% and a sensitivity of 64.7%. These results suggested ER might be a potential noninvasive marker for CRC screening development. However, a larger sample size is required to validate this candidate biomarker in diagnosing CRC.
Short-term ocular dominance plasticity is not modulated by visual cortex tDCS but increases with length of monocular deprivation
Authors: Chen Xiaoxin , Bobier William , Thompson Benjamin
Published: April 2023

Transcranial direct current stimulation (tDCS) of the occipital lobe may modulate visual cortex neuroplasticity. We assessed the acute effect of visual cortex anodal (a-)tDCS on ocular dominance plasticity induced by short-term monocular deprivation (MD), a well-established technique for inducing homeostatic plasticity in the visual system. In Experiment 1, active or sham visual cortex tDCS was applied during the last 20 min of 2-h MD following a within-subjects design (n = 17). Ocular dominance was measured using two computerized tests. The magnitude of ocular dominance plasticity was unaffected by a-tDCS. In Experiment 2 (n = 9), we investigated whether a ceiling effect of MD was masking the effect of active tDCS. We replicated Experiment 1 but used only 30 min of MD. The magnitude of ocular dominance plasticity was decreased with the shorter intervention, but there was still no effect of active a-tDCS. Within the constraints of our experimental design and a-tDCS parameters, visual cortex a-tDCS did not modulate the homeostatic mechanisms that drive ocular dominance plasticity in participants with normal binocular vision.
Effect of degumming degree on the structure and tensile properties of RSF/RSS composite films prepared by one-step extraction
Authors: Li Meng , Tian Wei , Yu Yangxiao , Zhang Yao , Zhang Boyu , Xu Jianmei , Wang Jiannan
Published: April 2023

Regenerated silk fibroin (RSF) and regenerated sericin (RSS) have attracted much attention for tissue engineering due to excellent biocompatibility and controllable degradation. However, pure RSF films prepared by existing methods are brittle, which limits applications in the field of high-strength and/or flexible tissues (e.g. cornea, periosteum and dura). A series of RSF/RSS composite films were developed from solutions prepared by dissolving silks with different degumming rates. The molecular conformation, crystalline structure and tensile properties of the films and the effect of sericin content on the structure and properties were investigated. Fourier transform infrared spectroscopy (FTIR) and X-ray diffraction results revealed more β-sheets in films prepared by boiling water degumming than in Na2CO3-degummed RSFCfilm. Analysis of mechanical properties showed that the breaking strength (3.56 MPa) and elongation (50.51%) of boiling water-degummed RSF/RSS film were significantly increased compared with RSFCfilm (2.60 MPa and 32.31%), and the flexibility of films could be further improved by appropriately reducing the degumming rate.
Contribution of HIF-1α/BNIP3-mediated autophagy to lipid accumulation during irinotecan-induced liver injury
Authors: Shi Congjian , Zhang Zhenghong , Xu Renfeng , Zhang Yan , Wang Zhengchao
Published: April 2023

Irinotecan is a topoisomerase I inhibitor which has been widely used to combat several solid tumors, whereas irinotecan therapy can induce liver injury. Liver injury generally leads to tissue hypoxia, and hypoxia-inducible factor-1α (HIF-1α), a pivotal transcription factor, mediates adaptive pathophysiological responses to lower oxygen condition. Previous studies have reported a relationship between HIF-1α and autophagy, and autophagy impairment is a common characteristic in a variety of diseases. Here, irinotecan (50 mg/kg) was employed on mice, and HepG2 and L-02 cells were cultured with irinotecan (10, 20 and 40 μM). In vivo study, we found that irinotecan treatment increased final liver index, serum aminotransferase level and hepatic lipid accumulation. Impaired autophagic flux and activation of HIF-1α/BNIP3 pathway were also demonstrated in the liver of irinotecan-treated mice. Moreover, irinotecan treatment significantly deteriorated hepatic oxidative stress, evidenced by increased MDA and ROS contents, as well as decreased GSH-Px, SOD and CAT contents. Interestingly, protein levels of NLRP3, cleaved-caspase 1 and IL-1β were enhanced in the liver of mice injected with irinotecan. In vitro study, irinotecan-treated HepG2 and L-02 cells also showed impaired autophagic flux, while HIF-1α inhibition efficaciously removed the accumulated autophagosomes induced by irinotecan. Additionally, irinotecan treatment aggravated lipid accumulation in HepG2 and L-02 cells, and HIF-1α inhibition reversed the effect of irinotecan. Furthermore, HIF-1α inhibition weakened irinotecan-induced NLRP3 inflammasome activation in HepG2 cells. Taken together, our results suggest that irinotecan induces liver injury by orchestrating autophagy via HIF-1α/BNIP3 pathway, and HIF-1α inhibition could alleviate irinotecan-induced lipid accumulation in HepG2 and L-02 cells, which will provide a new clue and direction for the prevention of side effects of clinical chemotherapy drugs.
Relationship between free-time physical activity and sleep quality in Brazilian university students
Authors: Santos Mayara , Sirtoli Rafaela , Rodrigues Renne , López-Gil José Francisco , Martínez-Vizcaíno Vicente , Guidoni Camilo Molino , Mesas Arthur Eumann
Published: April 2023

Poor sleep quality and low or no free-time physical activity (FTPA) practice are highly prevalent among university students, but the association between these conditions is still unclear. This cross-sectional study analyzed the relationship between FTPA and sleep quality. An online questionnaire was conducted with university students from a public university in southern Brazil in 2019. The weekly frequency of FTPA was self-reported, and sleep quality was assessed using the Pittsburgh Sleep Quality Index (PSQI). Logistic regression and ANCOVA models were performed and adjusted for confounders. Among the 2,626 students analyzed, 52.2% did not practice the FTPA, and 75.6% had poor sleep quality (PSQI > 5). In the adjusted analysis, practicing FTPA 4–7 times/week was associated with poor sleep quality (odds ratio = 0.71; 95% confidence interval = 0.52, 0.97) compared with not practicing FTPA. In addition, those who practiced FTPA had significantly lower means of the global PSQI, subjective sleep quality and duration, sleep disturbances, and daytime dysfunction scores than those who did not practice FTPA. In conclusion, the FTPA may contribute to better sleep quality among university students.
Research on gearbox temperature field image fault diagnosis method based on transfer learning and deep belief network
Authors: Lu Xi , Li Pan
Published: April 2023

This paper applies thermal imaging technology to gearbox fault diagnosis. The temperature field calculation model is established to obtain the temperature field images of various faults. A deep learning network model combining transfer learning of convolutional neural network with supervised training and unsupervised training of deep belief network is proposed. The model requires one-fifth of the training time of the convolutional neural network model. The data set used for training the deep learning network model is expanded by using the temperature field simulation image of the gearbox. The results show that the network model has over 97% accuracy for the diagnosis of simulation faults. The finite element model of gearbox can be modified with experimental data to obtain more accurate thermal images, and this method can be better used in practice.
Clinical features of anterior blepharitis after cataract surgery
Authors: Sakimoto Tohru , Sugiura Takeshi
Published: April 2023

We evaluated the clinical features of postoperative anterior blepharitis following cataract surgery and the efficacy of topical azithromycin retrospectively. Thirty eyes of 30 patients with a clinical diagnosis of anterior blepharitis by 6 months postoperatively among those who underwent cataract surgery at our institution between November 2020 and June 2022 were included. The diagnosis of anterior blepharitis and the assessment of objective and subjective findings were based on the American Academy of Ophthalmology Blepharitis Preferred Practice Pattern®. Azithromycin eye drops were prescribed for all patients, and findings and symptoms before and after the drops were reviewed. The time of onset ranged from 2 weeks to 6 months after cataract surgery, with the most common onset at 2 to 3 months postoperatively (mean time of onset 79.4 ± 39.6 days). The type of anterior blepharitis was staphylococcal blepharitis in 26 eyes and seborrheic blepharitis in 4 eyes, while mixed type with posterior blepharitis was noted in 6 eyes. Symptoms at the time of examination included irritation (including foreign body sensation) in 24 eyes, tearing in 4 eyes, and redness in 3 eyes. The findings and symptoms of anterior blepharitis were alleviated or resolved with azithromycin eye drops in 26 of the 30 eyes, but the blepharitis recurred in 6 of these eyes, requiring azithromycin eye drops to be re-prescribed. The onset of anterior blepharitis after cataract surgery may be related to a gradual decrease in postoperative eye drops. Patients tended to complain of irritation and foreign body sensation, and azithromycin eye drops were effective in such cases.
Induced membrane technique combined with a retrograde intramedullary nail for the treatment of infected bone defects of the ankle
Authors: Fu Jingshu , Wang Xiaohua , Wang Shulin , Chen Zenggang , Shen Jie , Li Zhengyun , Xie Zhao
Published: April 2023

In this study, we treated infected ankle bone defects with the induced membrane two-stage technique. The ankle was fused with a retrograde intramedullary nail in the second stage, and the aim of this study was to observe the clinical effect. We retrospectively enrolled patients with infected bone defects of the ankle admitted to our hospital between July 2016 and July 2018. In the first stage, the ankle was temporarily stabilized with a locking plate, and antibiotic bone cement was used to fill the defects after debridement. In the second stage, the plate and cement were removed, the ankle was stabilized with a retrograde nail, and tibiotalar-calcaneal fusion was performed. Then, autologous bone was used to rebuild the defects. The infection control rate, fusion success rate and complications were observed. Fifteen patients were enrolled in the study with an average follow-up of 30 months. Among them, there were 11 males and 4 females. The average bone defect length after debridement was 5.3 cm (2.1–8.7 cm). Finally, 13 patients (86.6%) achieved bone union without recurrence of infection, and 2 patients experienced recurrence after bone grafting. The average ankle-hindfoot function score (AOFAS) increased from 29.75 ± 4.37 to 81.06 ± 4.72 at the last follow-up. The induced membrane technique combined with a retrograde intramedullary nail for the treatment of infected bone defects of the ankle after thorough debridement is an effective treatment method.
Where to place methane monitoring sites in China to better assist carbon management
Authors: Zhang Xiaorui , Zhou Chenhong , Zhang Yuzhong , Lu Xiao , Xiao Xiang , Wang Fan , Song Jun , Guo Yike , Leung Kenneth K. M. , Cao Junji , Gao Meng
Published: April 2023

Methane (CH4) is the second most potent greenhouse gas (GHG), and China emerges as the largest anthropogenic CH4 emitter by country. Current limited CH4 monitoring systems in China are unfortunately inadequate to support carbon management. Here we use the Weather Research and Forecasting model (WRF) coupled with a GHG module and satellite constrained emissions to simulate the spatiotemporal distribution of CH4 over East Asia in 2017. Model evaluations using both satellite retrievals and ground-based observations indicate reliable performance. We further inter-compare four proper orthogonal decomposition (POD)-based sensor placement algorithms and find they are able to capture main spatial features of surface CH4 under an oversampled condition. The QR pivot algorithm exhibits superiority in capturing high CH4, and it offers the best reconstruction with both high efficiency and accuracy. Areas with high CH4 concentrations and intense anthropogenic activities remain underrepresented by current CH4 sampling studies, leading to notable reconstruction error over central and eastern China. Optimal planning of 160 sensors guided by the QR pivot algorithm can yield reasonable reconstruction performance and costs of site construction. Our results can provide valuable references for future planning of CH4 monitoring sites.
Genome-wide cross-trait analysis and Mendelian randomization reveal a shared genetic etiology and causality between COVID-19 and venous thromboembolism
Authors: Huang Xin , Yao Minhao , Tian Peixin , Wong Jason Y. Y. , Li Zilin , Liu Zhonghua , Zhao Jie V.
Published: April 2023

Venous thromboembolism occurs in up to one-third of patients with COVID-19. Venous thromboembolism and COVID-19 may share a common genetic architecture, which has not been clarified. To fill this gap, we leverage summary-level genetic data from the latest COVID‐19 host genetics consortium and UK Biobank and examine the shared genetic etiology and causal relationship between COVID-19 and venous thromboembolism. The cross-trait and co-localization analyses identify 2, 3, and 4 shared loci between venous thromboembolism and severe COVID-19, COVID-19 hospitalization, SARS-CoV-2 infection respectively, which are mapped to ABO, ADAMTS13, FUT2 genes involved in coagulation functions. Enrichment analysis supports shared biological processes between COVID-19 and venous thromboembolism related to coagulation and immunity. Bi-directional Mendelian randomization suggests that venous thromboembolism was associated with higher risk of three COVID-19 traits, and SARS-CoV-2 infection was associated with a higher risk of venous thromboembolism. Our study provides timely evidence for the genetic etiology between COVID-19 and venous thromboembolism (VTE). Our findings contribute to the understanding of COVID-19 and VTE etiology and provide insights into the prevention and comorbidity management of COVID-19.
Isolation, (bio)synthetic studies and evaluation of antimicrobial properties of drimenol-type sesquiterpenes of Termitomyces fungi
Authors: Kreuzenbeck Nina B. , Dhiman Seema , Roman Dávid , Burkhardt Immo , Conlon Benjamin H. , Fricke Janis , Guo Huijuan , Blume Janis , Görls Helmar , Poulsen Michael , Dickschat Jeroen S. , Köllner Tobias G. , Arndt Hans-Dieter , Beemelmanns Christine
Published: April 2023

Macrotermitinae termites have farmed fungi in the genus Termitomyces as a food source for millions of years. However, the biochemical mechanisms orchestrating this mutualistic relationship are largely unknown. To deduce fungal signals and ecological patterns that relate to the stability of this symbiosis, we explored the volatile organic compound (VOC) repertoire of Termitomyces from Macrotermes natalensis colonies. Results show that mushrooms emit a VOC pattern that differs from mycelium grown in fungal gardens and laboratory cultures. The abundance of sesquiterpenoids from mushrooms allowed targeted isolation of five drimane sesquiterpenes from plate cultivations. The total synthesis of one of these, drimenol, and related drimanes assisted in structural and comparative analysis of volatile organic compounds (VOCs) and antimicrobial activity testing. Enzyme candidates putatively involved in terpene biosynthesis were heterologously expressed and while these were not involved in the biosynthesis of the complete drimane skeleton, they catalyzed the formation of two structurally related monocyclic sesquiterpenes named nectrianolins.
The Extremely Brilliant Source storage ring of the European Synchrotron Radiation Facility
Authors: Raimondi Pantaleo , Benabderrahmane Chamseddine , Berkvens Paul , Biasci Jean Claude , Borowiec Pawel , Bouteille Jean-Francois , Brochard Thierry , Brookes Nicholas B. , Carmignani Nicola , Carver Lee R. , Chaize Jean-Michel , Chavanne Joel , Checchia Stefano , Chushkin Yuriy , Cianciosi Filippo , Di Michiel Marco , Dimper Rudolf , D’Elia Alessandro , Einfeld Dieter , Ewald Friederike , Farvacque Laurent , Goirand Loys , Hardy Laurent , Jacob Jorn , Jolly Laurent , Krisch Michael , Le Bec Gael , Leconte Isabelle , Liuzzo Simone M. , Maccarrone Cristian , Marchial Thierry , Martin David , Mezouar Mohamed , Nevo Christian , Perron Thomas , Plouviez Eric , Reichert Harald , Renaud Pascal , Revol Jean-Luc , Roche Benoît , Scheidt Kees-Bertus , Serriere Vincent , Sette Francesco , Susini Jean , Torino Laura , Versteegen Reine , White Simon , Zontone Federico
Published: April 2023

The Extremely Brilliant Source (EBS) is the experimental implementation of the novel Hybrid Multi Bend Achromat (HMBA) storage ring magnetic lattice concept, which has been realised at European Synchrotron Radiation Facility. We present its successful commissioning and first operation. We highlight the strengths of the HMBA design and compare them to the previous designs, on which most operational synchrotron X-ray sources are based. We report on the EBS storage ring’s significantly improved horizontal electron beam emittance and other key beam parameters. EBS extends the reach of synchrotron X-ray science confirming the HMBA concept for future facility upgrades and new constructions.
Determining the temperature of a millikelvin scanning tunnelling microscope junction
Authors: Esat Taner , Yang Xiaosheng , Mustafayev Farhad , Soltner Helmut , Tautz F. Stefan , Temirov Ruslan
Published: April 2023

Cooling the junction of a scanning tunneling microscope to millikelvin temperatures is fundamental for high-resolution scanning tunneling spectroscopy. However, accurately determining the junction temperature has proven elusive, due to the microscopic dimension of the junction and its continuous energy exchange with the surrounding environment. Here, we employ a millikelvin scanning tunnelling microscope cooled by an adiabatic demagnetization refrigerator. Using normal-metal and superconducting tips, we perform scanning tunnelling spectroscopy on an atomically clean surface of Al(100) in a superconducting state. By varying the refrigerator temperatures between 30 mK and 1.2 K, we show that the temperature of the junction is decoupled from the temperature of the surrounding environment. To corroborate our findings, we simulate the scanning tunnelling spectroscopy data with P(E) theory and determine that the junction has a temperature of 77 mK, despite its environment being at 1.5 K.