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1.
  • Beal, Jacob, et al. (author)
  • Robust estimation of bacterial cell count from optical density
  • 2020
  • In: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
  • Journal article (peer-reviewed)abstract
    • Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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2.
  • Liu, Hui, et al. (author)
  • Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance
  • 2021
  • In: Frontiers in Plant Science. - : Frontiers Media S.A.. - 1664-462X. ; 12
  • Journal article (peer-reviewed)abstract
    • In-depth genome characterization is still lacking for most of biofuel crops, especially for centromeres, which play a fundamental role during nuclear division and in the maintenance of genome stability. This study applied long-read sequencing technologies to assemble a highly contiguous genome for yellowhorn (Xanthoceras sorbifolium), an oil-producing tree, and conducted extensive comparative analyses to understand centromere structure and evolution, and fatty acid biosynthesis. We produced a reference-level genome of yellowhorn, ∼470 Mb in length with ∼95% of contigs anchored onto 15 chromosomes. Genome annotation identified 22,049 protein-coding genes and 65.7% of the genome sequence as repetitive elements. Long terminal repeat retrotransposons (LTR-RTs) account for ∼30% of the yellowhorn genome, which is maintained by a moderate birth rate and a low removal rate. We identified the centromeric regions on each chromosome and found enrichment of centromere-specific retrotransposons of LINE1 and Gypsy in these regions, which have evolved recently (∼0.7 MYA). We compared the genomes of three cultivars and found frequent inversions. We analyzed the transcriptomes from different tissues and identified the candidate genes involved in very-long-chain fatty acid biosynthesis and their expression profiles. Collinear block analysis showed that yellowhorn shared the gamma (γ) hexaploidy event with Vitis vinifera but did not undergo any further whole-genome duplication. This study provides excellent genomic resources for understanding centromere structure and evolution and for functional studies in this important oil-producing plant.
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3.
  • Wang, Xin, et al. (author)
  • Organic nanocrystals induced surface passivation towards high-efficiency and stable perovskite solar cells
  • 2021
  • In: Nano Energy. - : ELSEVIER. - 2211-2855 .- 2211-3282. ; 89
  • Journal article (peer-reviewed)abstract
    • Surface passivation has played a critical role for efficient and stable perovskite solar cells by reducing surface defects, promoting charge transport, and preventing the penetration of degrading agents. State-of-the-art passivation approaches mainly rely on the formation of a two-dimensional (2D) perovskite layer or the deposition of an ultrathin layer based on the molecular design. Here, we demonstrated a novel nanocrystal-pinning passivation by dripping 2-bromoethyltrimethylammonium bromide (BETAB) colloidal solution onto perovskite films. Theoretical simulation and kinds of experimental results confirm that BETAB nanocrystals can effectively reduce the defect density of perovskite films. Impressively, the resulting FA1-xMAxPbI3 based planar devices exhibit a champion power conversion efficiency (PCE) of 23.04% (certified: 22.10%) with a voltage loss of only 390 mV. Besides, the BETAB nanocrystals could simultaneously increase the hydrophobic property of perovskite films and prevent the reaction and formation of 2D perovskites during device operation. Correspondingly, the resulted devices exhibit excellent stability under moisture, heating, and operational tracking conditions.
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5.
  • Abercrombie, Daniel, et al. (author)
  • Dark Matter benchmark models for early LHC Run-2 Searches : Report of the ATLAS/CMS Dark Matter Forum
  • 2020
  • In: Physics of the Dark Universe. - : Elsevier BV. - 2212-6864. ; 27
  • Journal article (peer-reviewed)abstract
    • This document is the final report of the ATLAS-CMS Dark Matter Forum, a forum organized by the ATLAS and CMS collaborations with the participation of experts on theories of Dark Matter, to select a minimal basis set of dark matter simplified models that should support the design of the early LHC Run-2 searches. A prioritized, compact set of benchmark models is proposed, accompanied by studies of the parameter space of these models and a repository of generator implementations. This report also addresses how to apply the Effective Field Theory formalism for collider searches and present the results of such interpretations.
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6.
  • Cheng, Shi-Ping, et al. (author)
  • Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger
  • 2021
  • In: Horticulture Research. - : Springer Nature. - 2052-7276. ; 8:1
  • Journal article (peer-reviewed)abstract
    • Ginger (Zingiber officinale) is one of the most valued spice plants worldwide; it is prized for its culinary and folk medicinal applications and is therefore of high economic and cultural importance. Here, we present a haplotype-resolved, chromosome-scale assembly for diploid ginger anchored to 11 pseudochromosome pairs with a total length of 3.1 Gb. Remarkable structural variation was identified between haplotypes, and two inversions larger than 15 Mb on chromosome 4 may be associated with ginger infertility. We performed a comprehensive, spatiotemporal, genome-wide analysis of allelic expression patterns, revealing that most alleles are coordinately expressed. The alleles that exhibited the largest differences in expression showed closer proximity to transposable elements, greater coding sequence divergence, more relaxed selection pressure, and more transcription factor binding site differences. We also predicted the transcription factors potentially regulating 6-gingerol biosynthesis. Our allele-aware assembly provides a powerful platform for future functional genomics, molecular breeding, and genome editing in ginger.
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7.
  • Jia, Kai-Hua, et al. (author)
  • Landscape genomics predicts climate change-related genetic offset for the widespread Platycladus orientalis (Cupressaceae)
  • 2020
  • In: Evolutionary Applications. - : John Wiley & Sons. - 1752-4571. ; 13:4, s. 665-676
  • Journal article (peer-reviewed)abstract
    • Understanding and quantifying populations' adaptive genetic variation and their response to climate change are critical to reforestation's seed source selection, forest management decisions, and gene conservation. Landscape genomics combined with geographic and environmental information provide an opportunity to interrogate forest populations' genome-wide variation for understanding the extent to which evolutionary forces shape past and contemporary populations' genetic structure, and identify those populations that may be most at risk under future climate change. Here, we used genotyping by sequencing to generate over 11,000 high-quality variants from Platycladus orientalis range-wide collection to evaluate its diversity and to predict genetic offset under future climate scenarios. Platycladus orientalis is a widespread conifer in China with significant ecological, timber, and medicinal values. We found population structure and evidences of isolation by environment, indicative of adaptation to local conditions. Gradient forest modeling identified temperature-related variables as the most important environmental factors influencing genetic variation and predicted areas with higher risk under future climate change. This study provides an important reference for forest resource management and conservation for P. orientalis.
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8.
  • Li, Tao, et al. (author)
  • AIF Overexpression Aggravates Oxidative Stress in Neonatal Male Mice After Hypoxia-Ischemia Injury
  • 2022
  • In: Molecular Neurobiology. - : Springer Science and Business Media LLC. - 0893-7648 .- 1559-1182. ; 59:11, s. 6613-6631
  • Journal article (peer-reviewed)abstract
    • There are sex differences in the severity, mechanisms, and outcomes of neonatal hypoxia-ischemia (HI) brain injury, and apoptosis-inducing factor (AIF) may play a critical role in this discrepancy. Based on previous findings that AIF over-expression aggravates neonatal HI brain injury, we further investigated potential sex differences in the severity and molecular mechanisms underlying the injury using mice that overexpress AIF from homozygous transgenes. We found that the male sex significantly aggravated AIF-driven brain damage, as indicated by the injury volume in the gray matter (2.25 times greater in males) and by the lost volume of subcortical white matter (1.71 greater in males) after HI. As compared to females, male mice exhibited more severe brain injury, correlating with reduced antioxidant capacities, more pronounced protein carbonylation and nitration, and increased neuronal cell death. Under physiological conditions (without HI), the doublecortin-positive area in the dentate gyrus of females was 1.15 times larger than in males, indicating that AIF upregulation effectively promoted neurogenesis in females in the long term. We also found that AIF stimulated carbohydrate metabolism in young males. Altogether, these findings corroborate earlier studies and further demonstrate that AIF is involved in oxidative stress, which contributes to the sex-specific differences observed in neonatal HI brain injury.
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9.
  • Rodriguez, Juan, 1983, et al. (author)
  • Inhibiting the interaction between apoptosis-inducing factor and cyclophilin A prevents brain injury in neonatal mice after hypoxia-ischemia
  • 2020
  • In: Neuropharmacology. - : Elsevier BV. - 0028-3908 .- 1873-7064. ; 171
  • Journal article (peer-reviewed)abstract
    • © 2020 The Authors The interaction between apoptosis-inducing factor (AIF) and cyclophilin A (CypA) has been shown to contribute to caspase-independent apoptosis. Blocking the AIF/CypA interaction protects against glutamate-induced neuronal cell death in vitro, and the purpose of this study was to determine the in vivo effect of an AIF/CypA interaction blocking peptide (AIF(370-394)-TAT) on neonatal mouse brain injury after hypoxia-ischemia (HI). The pups were treated with AIF (370-394)-TAT peptide intranasally prior to HI. Brain injury was significantly reduced at 72 h after HI in the AIF(370-394)-TAT peptide treatment group compared to vehicle-only treatment for both the gray matter and the subcortical white matter, and the neuroprotection was more pronounced in males than in females. Neuronal cell death was evaluated in males at 8 h and 24 h post-HI, and it was decreased significantly in the CA1 region of the hippocampus and the nucleus habenularis region after AIF(370-394)-TAT treatment. Caspase-independent apoptosis was decreased in the cortex, striatum, and nucleus habenularis after AIF(370-394)-TAT treatment, but no significant change was found on caspase-dependent apoptosis as indicated by the number of active caspase-3-labeled cells. Further analysis showed that both AIF and CypA nuclear accumulation were decreased after treatment with the AIF(370-394)-TAT peptide. These results suggest that AIF(370-394)-TAT inhibited AIF/CypA translocation to the nucleus and reduced HI-induced caspase-independent apoptosis and brain injury in young male mice, suggesting that blocking AIF/CypA might be a potential therapeutic target for neonatal brain injury.
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10.
  • Wang, Jin, et al. (author)
  • Evolutionary game based real-time scheduling for energy-efficient distributed and flexible job shop
  • 2021
  • In: Journal of Cleaner Production. - : Elsevier Science. - 0959-6526 .- 1879-1786. ; 293
  • Journal article (peer-reviewed)abstract
    • With the global energy crisis and environmental issues becoming severe, more attention has been paid to production scheduling considering energy consumption than ever before. However, in the context of intelligent manufacturing, most studies apply the industrial internet of things (IIoT) to improve energy efficiency. It may cause the real-time data in the workshop unable to be collected and treated timely, thus affecting the real-time decision-making of the scheduling system. Edge computing (EC) can make full use of embedded computing capabilities of field devices to process real-time data and reduce the response time of making production decisions. Therefore, in this study, an overall architecture of the EC-IIoT based distributed and flexible job shop real-time scheduling (DFJS-RS) is proposed to enhance the real-time decision-making capability of the scheduling system. The DFJS-RS method, which consists of the task assignment method of the shop floor layer and the RS method of the flexible manufacturing units (FMUs) layer, is designed and developed. An evolutionary game-based solver method is adopted to obtain the optimal allocation. Finally, a case study is employed to validate the DFJS-RS method. The results show that compared with the existing production scheduling method, the DFJS-RS method can improve energy efficiency by up to 26%. This improvement can further promote cleaner production (CP) and sustainable societal development. (c) 2021 The Author(s). Published by Elsevier Ltd. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
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11.
  • Wang, Yafeng, 1985, et al. (author)
  • Autophagy Inhibition Reduces Irradiation-Induced Subcortical White Matter Injury Not by Reducing Inflammation, but by Increasing Mitochondrial Fusion and Inhibiting Mitochondrial Fission
  • 2022
  • In: Molecular Neurobiology. - : Springer Science and Business Media LLC. - 0893-7648 .- 1559-1182. ; 59:2, s. 1199-1213
  • Journal article (peer-reviewed)abstract
    • Radiotherapy is an effective tool in the treatment of malignant brain tumors, but irradiation-induced late-onset toxicity remains a major problem. The purpose of this study was to investigate if genetic inhibition of autophagy has an impact on subcortical white matter development in the juvenile mouse brain after irradiation. Ten-day-old selective neural Atg7 knockout (KO) mice and wild-type (WT) littermates were subjected to a single 6-Gy dose of whole-brain irradiation and evaluated at 5 days after irradiation. Neural Atg7 deficiency partially prevented myelin disruption compared to the WT mice after irradiation, as indicated by myelin basic protein staining. Irradiation induced oligodendrocyte progenitor cell loss in the subcortical white matter, and Atg7 deficiency partly prevented this. There was no significant change between the KO and WT mice in the number of microglia and astrocytes in the subcortical white matter after irradiation. Transcriptome analysis showed that the GO mitochondrial gene expression pathway was significantly enriched in the differentially expressed genes between the KO and WT group after irradiation. Compared with WT mice, expression of the mitochondrial fusion protein OPA1 and phosphorylation of the mitochondrial fission protein DRP1 (P-DRP1) were dramatically decreased in KO mice under physiological conditions. The protein levels of OPA1and P-DRP1 showed no differences in WT mice between the non-irradiated group and the irradiated group but had remarkably increased levels in the KO mice after irradiation. These results indicate that inhibition of autophagy reduces irradiation-induced subcortical white matter injury not by reducing inflammation, but by increasing mitochondrial fusion and inhibiting mitochondrial fission.
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12.
  • Yang, Fu-Sheng, et al. (author)
  • Chromosome-level genome assembly of a parent species of widely cultivated azaleas
  • 2020
  • In: Nature Communications. - : Nature Publishing Group. - 2041-1723. ; 11:1
  • Journal article (peer-reviewed)abstract
    • Azaleas (Ericaceae) comprise one of the most diverse ornamental plants, renowned for their cultural and economic importance. We present a chromosome-scale genome assembly for Rhododendron simsii, the primary ancestor of azalea cultivars. Genome analyses unveil the remnants of an ancient whole-genome duplication preceding the radiation of most Ericaceae, likely contributing to the genomic architecture of flowering time. Small-scale gene duplications contribute to the expansion of gene families involved in azalea pigment biosynthesis. We reconstruct entire metabolic pathways for anthocyanins and carotenoids and their potential regulatory networks by detailed analysis of time-ordered gene co-expression networks. MYB, bHLH, and WD40 transcription factors may collectively regulate anthocyanin accumulation in R. simsii, particularly at the initial stages of flower coloration, and with WRKY transcription factors controlling progressive flower coloring at later stages. This work provides a cornerstone for understanding the underlying genetics governing flower timing and coloration and could accelerate selective breeding in azalea. Azaleas are one of the most diverse ornamental plants and have cultural and economic importance. Here, the authors report a chromosome-scale genome assembly for the primary ancestor of the azalea cultivar Rhododendro simsi and identify transcription factors that may function in flower coloration at different stages.
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13.
  • Zhu, RJ, et al. (author)
  • Mesenchymal stem cell treatment improves outcome of COVID-19 patients via multiple immunomodulatory mechanisms
  • 2021
  • In: Cell research. - : Springer Science and Business Media LLC. - 1748-7838 .- 1001-0602. ; 31:12, s. 1244-1262
  • Journal article (peer-reviewed)abstract
    • The infusion of coronavirus disease 2019 (COVID-19) patients with mesenchymal stem cells (MSCs) potentially improves clinical symptoms, but the underlying mechanism remains unclear. We conducted a randomized, single-blind, placebo-controlled (29 patients/group) phase II clinical trial to validate previous findings and explore the potential mechanisms. Patients treated with umbilical cord-derived MSCs exhibited a shorter hospital stay (P = 0.0198) and less time required for symptoms remission (P = 0.0194) than those who received placebo. Based on chest images, both severe and critical patients treated with MSCs showed improvement by day 7 (P = 0.0099) and day 21 (P = 0.0084). MSC-treated patients had fewer adverse events. MSC infusion reduced the levels of C-reactive protein, proinflammatory cytokines, and neutrophil extracellular traps (NETs) and promoted the maintenance of SARS-CoV-2-specific antibodies. To explore how MSCs modulate the immune system, we employed single-cell RNA sequencing analysis on peripheral blood. Our analysis identified a novel subpopulation of VNN2+ hematopoietic stem/progenitor-like (HSPC-like) cells expressing CSF3R and PTPRE that were mobilized following MSC infusion. Genes encoding chemotaxis factors — CX3CR1 and L-selectin — were upregulated in various immune cells. MSC treatment also regulated B cell subsets and increased the expression of costimulatory CD28 in T cells in vivo and in vitro. In addition, an in vivo mouse study confirmed that MSCs suppressed NET release and reduced venous thrombosis by upregulating kindlin-3 signaling. Together, our results underscore the role of MSCs in improving COVID-19 patient outcomes via maintenance of immune homeostasis.
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14.
  • Algaba, Juan-Carlos, et al. (author)
  • Broadband Multi-wavelength Properties of M87 during the 2017 Event Horizon Telescope Campaign
  • 2021
  • In: Astrophysical Journal Letters. - : American Astronomical Society. - 2041-8213 .- 2041-8205. ; 911:1
  • Research review (peer-reviewed)abstract
    • In 2017, the Event Horizon Telescope (EHT) Collaboration succeeded in capturing the first direct image of the center of the M87 galaxy. The asymmetric ring morphology and size are consistent with theoretical expectations for a weakly accreting supermassive black hole of mass ∼6.5 × 109 M o˙. The EHTC also partnered with several international facilities in space and on the ground, to arrange an extensive, quasi-simultaneous multi-wavelength campaign. This Letter presents the results and analysis of this campaign, as well as the multi-wavelength data as a legacy data repository. We captured M87 in a historically low state, and the core flux dominates over HST-1 at high energies, making it possible to combine core flux constraints with the more spatially precise very long baseline interferometry data. We present the most complete simultaneous multi-wavelength spectrum of the active nucleus to date, and discuss the complexity and caveats of combining data from different spatial scales into one broadband spectrum. We apply two heuristic, isotropic leptonic single-zone models to provide insight into the basic source properties, but conclude that a structured jet is necessary to explain M87's spectrum. We can exclude that the simultaneous γ-ray emission is produced via inverse Compton emission in the same region producing the EHT mm-band emission, and further conclude that the γ-rays can only be produced in the inner jets (inward of HST-1) if there are strongly particle-dominated regions. Direct synchrotron emission from accelerated protons and secondaries cannot yet be excluded.
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15.
  • Bai, Y, et al. (author)
  • Addictive behavior and incident gallstone disease: A dose-response meta-analysis and Mendelian randomization study
  • 2022
  • In: Frontiers in nutrition. - : Frontiers Media SA. - 2296-861X. ; 9, s. 940689-
  • Journal article (peer-reviewed)abstract
    • Previous studies have suggested associations between addictive behavior and gallstone disease (GSD) risk, yet conflicting results exist. It also remains unclear whether this association is causal or due to confounding or reverse associations. The present study aims to systematically analyze the epidemiological evidence for these associations, as well as estimate the potential causal relationships using Mendelian randomization (MR).MethodsWe analyzed four common addictive behaviors, including cigarette smoking, alcohol intake, coffee, and tea consumption (N = 126,906–4,584,729 participants) in this meta-analysis based on longitudinal studies. The two-sample MR was conducted using summary data from genome-wide associations with European ancestry (up to 1.2 million individuals).ResultsAn observational association of GSD risk was identified for smoking [RR: 1.17 (95% CI: 1.06–1.29)], drinking alcohol [0.84 (0.78–0.91)], consuming coffee [0.86 (0.79–0.93)], and tea [1.08 (1.04–1.12)]. Also, there was a linear relationship between smoking (pack-years), alcohol drinking (days per week), coffee consumption (cups per day), and GSD risk. Our MRs supported a causality of GSD incidence with lifetime smoking [1.008 (1.003–1.013), P = 0.001], current smoking [1.007 (1.002–1.011), P = 0.004], problematic alcohol use (PAU) [1.014 (1.001–1.026), P = 0.029], decaffeinated coffee intake (1.127 [1.043–1.217], P = 0.002), as well as caffeine-metabolism [0.997 (0.995–0.999), P = 0.013], and tea consumption [0.990 (0.982–0.997), P = 0.008], respectively.ConclusionOur study suggests cigarette smoking, alcohol abuse, and decaffeinated coffee are causal risk factors for GSD, whereas tea consumption can decrease the risk of gallstones due to the effect of caffeine metabolism or polyphenol intake.
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16.
  • Cong, Lin, et al. (author)
  • Use of Cardiovascular Drugs for Primary and Secondary Prevention of Cardiovascular Disease Among Rural-Dwelling Older Chinese Adults
  • 2020
  • In: Frontiers in Pharmacology. - : Frontiers Media SA. - 1663-9812. ; 11
  • Journal article (peer-reviewed)abstract
    • Cardiovascular risk factors and related disorders are common among older adults, and use of various classes of cardiovascular (CV) drugs could reduce the risk of cardiovascular disease (CVD). However, data are sparse with regard to the use of CV drugs among rural-dwelling older adults in China. Therefore, this population-based study aimed to describe use of CV drugs among older adults living in the rural communities in China, while taking into account the use of CV drugs for primary and secondary prevention of CVDs. This study included 5,246 participants (age >= 65 years; 57.17% women; 40.68% illiteracy) in the baseline examination of the MIND-China study. In March-September 2018, data on health-related factors, CVDs (ischemic heart disease, atrial fibrillation, heart failure, and stroke), and CV drug use were collected via face-to-face survey, clinical examination, and laboratory tests. We classified CV drugs according to the Anatomical Therapeutic Chemical classification system for western medications and specific cardiovascular effects for the products of traditional Chinese medicine (TCM). We conducted descriptive analysis. The overall prevalence of major cardiovascular risk factors ranged from 14.30% in diabetes and 23.81% in dyslipidemia to 66.70% in hypertension, and CVDs affected 35.07% of all participants (36.28% in women vs. 33.47% in men, p = 0.035). In the total sample, calcium channel blockers (C08) were most commonly used (10.39%), followed by TCM products (7.64%), hypoglycemic agents (A10, 4.73%), renin-angiotensin system (RAS)-acting agents (C09, 4.61%), and lipid-lowering agents (C10, 4.17%). The proportions of CV drugs for primary prevention (i.e., use of CV drugs among people without CVD) were 3.14% for antithrombotic agents (mainly aspirin), 1.38% for lipid-lowering agents, and 3.11% for RAS-acting agents; the corresponding figures for secondary prevention (i.e., use of CV drugs among people with CVD) were 13.97%, 9.35%, and 7.39%. In conclusion, despite highly prevalent cardiovascular risk factors and CVDs, a fairly low proportion of the rural-dwelling older adults take CV medications for primary and secondary prevention. Notably, TCM products are among the most commonly used CV drugs. These results call for additional efforts to promote implementation of the evidence-based recommendations for prevention of CVDs in the primary care settings.
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17.
  • Du, Mulong, et al. (author)
  • Cyp2a6 activity and cigarette consumption interact in smoking-related lung cancer susceptibility
  • 2024
  • In: Cancer Research. - : American Association For Cancer Research (AACR). - 0008-5472 .- 1538-7445. ; 84:4, s. 616-625
  • Journal article (peer-reviewed)abstract
    • Cigarette smoke, containing both nicotine and carcinogens, causes lung cancer. However, not all smokers develop lung cancer, highlighting the importance of the interaction between host susceptibility and environmental exposure in tumorigenesis. Here, we aimed to delineate the interaction between metabolizing ability of tobacco carcinogens and smoking intensity in mediating genetic susceptibility to smoking-related lung tumorigenesis. Single-variant and gene-based associations of 43 tobacco carcinogen–metabolizing genes with lung cancer were analyzed using summary statistics and individual-level genetic data, followed by causal inference of Mendelian randomization, mediation analysis, and structural equation modeling. Cigarette smoke–exposed cell models were used to detect gene expression patterns in relation to specific alleles. Data from the International Lung Cancer Consortium (29,266 cases and 56,450 controls) and UK Biobank (2,155 cases and 376,329 controls) indicated that the genetic variant rs56113850 C>T located in intron 4 of CYP2A6 was significantly associated with decreased lung cancer risk among smokers (OR = 0.88, 95% confidence interval = 0.85–0.91, P = 2.18 X 10-16), which might interact (Pinteraction = 0.028) with and partially be mediated (ORindirect = 0.987) by smoking status. Smoking intensity accounted for 82.3% of the effect of CYP2A6 activity on lung cancer risk but entirely mediated the genetic effect of rs56113850. Mechanistically, the rs56113850 T allele rescued the downregulation of CYP2A6 caused by cigarette smoke exposure, potentially through preferential recruitment of transcription factor helicase-like transcription factor. Together, this study provides additional insights into the interplay between host susceptibility and carcinogen exposure in smoking-related lung tumorigenesis.
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18.
  • Jia, Kai-Hua, et al. (author)
  • Chromosome-scale assembly and evolution of the tetraploid Salvia splendens (Lamiaceae) genome
  • 2021
  • In: Horticulture Research. - : Oxford University Press (OUP). - 2052-7276 .- 2662-6810. ; 8:1
  • Journal article (peer-reviewed)abstract
    • Polyploidization plays a key role in plant evolution, but the forces driving the fate of homoeologs in polyploid genomes, i.e., paralogs resulting from a whole-genome duplication (WGD) event, remain to be elucidated. Here, we present a chromosome-scale genome assembly of tetraploid scarlet sage (Salvia splendens), one of the most diverse ornamental plants. We found evidence for three WGD events following an older WGD event shared by most eudicots (the γ event). A comprehensive, spatiotemporal, genome-wide analysis of homoeologs from the most recent WGD unveiled expression asymmetries, which could be associated with genomic rearrangements, transposable element proximity discrepancies, coding sequence variation, selection pressure, and transcription factor binding site differences. The observed differences between homoeologs may reflect the first step toward sub- and/or neofunctionalization. This assembly provides a powerful tool for understanding WGD and gene and genome evolution and is useful in developing functional genomics and genetic engineering strategies for scarlet sage and other Lamiaceae species.
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19.
  • Li, Tao, et al. (author)
  • Overexpression of apoptosis inducing factor aggravates hypoxic-ischemic brain injury in neonatal mice
  • 2020
  • In: Cell death & disease. - : Springer Science and Business Media LLC. - 2041-4889. ; 11:1
  • Journal article (peer-reviewed)abstract
    • Apoptosis inducing factor (AIF) has been shown to be a major contributor to neuron loss in the immature brain after hypoxia-ischemia (HI). Indeed, mice bearing a hypomorphic mutation causing reduced AIF expression are protected against neonatal HI. To further investigate the possible molecular mechanisms of this neuroprotection, we generated an AIF knock-in mouse by introduction of a latent transgene coding for flagged AIF protein into the Rosa26 locus, followed by its conditional activation by a ubiquitously expressed Cre recombinase. Such AIF transgenic mice overexpress the pro-apoptotic splice variant of AIF (AIF1) at both the mRNA (5.9 times higher) and protein level (2.4 times higher), but not the brain-specific AIF splice-isoform (AIF2). Excessive AIF did not have any apparent effects on the phenotype or physiological functions of the mice. However, brain injury (both gray and white matter) after neonatal HI was exacerbated in mice overexpressing AIF, coupled to enhanced translocation of mitochondrial AIF to the nucleus as well as enhanced caspase-3 activation in some brain regions, as indicated by immunohistochemistry. Altogether, these findings corroborate earlier studies demonstrating that AIF plays a causal role in neonatal HI brain injury.
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20.
  • Lu, Shen-ning, et al. (author)
  • Application of an innovative grid-based surveillance strategy to ensure elimination and prevent reintroduction of malaria in high-risk border communities in China
  • 2022
  • In: BMC Public Health. - : Springer Nature. - 1471-2458. ; 22:1
  • Journal article (peer-reviewed)abstract
    • Grid management is a grassroots governance strategy widely implemented in China since 2004 to improve the government's efficiency to actively find and solve problems among populated regions. A grid-based strategy surveillancing high-risk groups, including mobile and migrant populations (MMPs), in the China-Myanmar border region has played an indispensable role in promoting and consolidating the malaria elimination efforts by tracking and timely identification of potential importation or re-establishment of malaria among MMPs. A sequential mixed methods was implementated to explore the operational mechanism and best practices of the grid-based strategy including through the focus group discussions (FGDs), comparison of before and after the implementation of a grid-based strategy in the field sites, and data collection from the local health system.This paper distills the implementation mechanism and highlights the role of the grid-based strategy in the elimination and prevention of re-establishment of malaria transmission.
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21.
  • Ren, Yifei, et al. (author)
  • Prevalence, Incidence, and Progression of Cognitive Impairment, No Dementia Among Rural-Dwelling Chinese Older Adults
  • 2022
  • In: Journal of Alzheimer's Disease. - 1387-2877 .- 1875-8908. ; 85:4, s. 1583-1592
  • Journal article (peer-reviewed)abstract
    • Background: Few studies have examined occurrence and progression of cognitive impairment, no dementia (CIND) in rural China.Objective: To determine the prevalence and incidence of CIND in rural-dwelling Chinese older adults, and to examine risk and protective factors associated with progression to CIND and dementia.Methods: This population-based study included 2,781 dementia-free participants (age≥65 years) who were examined at baseline (2014) and followed in 2018. Demographic, epidemiological, clinical, and neuropsychological data were collected following a structured questionnaire. We defined CIND according to subjective cognitive complaints and the age- and education-specific Mini-Mental State Examination (MMSE) score. Data were analyzed with the multinomial logistic regression models.Results: The overall prevalence of CIND was 10.54% and the incidence was 28.26 per 1,000 person-years. CIND at baseline was associated with the multi-adjusted odds ratio (OR) of 2.06 (95% confidence interval = 1.23–3.47) for incident dementia. Multinomial logistic regression analysis suggested that compared with no CIND, the multi-adjusted OR of incident CIND was 2.21 (1.51–3.23) for women and 0.62 (0.38–0.99) for high social support, whereas the multi-adjusted OR of incident dementia was 1.14 (1.09–1.18) for older age, 0.29 (0.16–0.53) for high education, and 2.91 (1.47–5.74) for having a stroke history.Conclusion: CIND affects over one-tenth of older adults living in rural communities of western Shandong province. People with CIND are twice as likely to progress to dementia as people without CIND. Female sex, low education, stroke history, and low social support are associated with an increased risk of progression from normal cognition to CIND or dementia.
  •  
22.
  • Song, Juan, et al. (author)
  • Temporal brain transcriptome analysis reveals key pathological events after germinal matrix hemorrhage in neonatal rats
  • 2022
  • In: Journal of Cerebral Blood Flow and Metabolism. - : SAGE Publications. - 0271-678X .- 1559-7016. ; 42:9, s. 1632-1649
  • Journal article (peer-reviewed)abstract
    • Germinal matrix hemorrhage (GMH) is a common complication in preterm infants and is associated with high risk of adverse neurodevelopmental outcomes. We used a rat GMH model and performed RNA sequencing to investigate the signaling pathways and biological processes following hemorrhage. GMH induced brain injury characterized by early hematoma and subsequent tissue loss. At 6 hours after GMH, gene expression indicated an increase in mitochondrial activity such as ATP metabolism and oxidative phosphorylation along with upregulation of cytoprotective pathways and heme metabolism. At 24 hours after GMH, the expression pattern suggested an increase in cell cycle progression and downregulation of neurodevelopmental-related pathways. At 72 hours after GMH, there was an increase in genes related to inflammation and an upregulation of ferroptosis. Hemoglobin components and genes related to heme metabolism and ferroptosis such as Hmox1, Alox15, and Alas2 were among the most upregulated genes. We observed dysregulation of processes involved in development, mitochondrial function, cholesterol biosynthesis, and inflammation, all of which contribute to neurodevelopmental deterioration following GMH. This study is the first temporal transcriptome profile providing a comprehensive overview of the molecular mechanisms underlying brain injury following GMH, and it provides useful guidance in the search for therapeutic interventions.
  •  
23.
  • Sun, Fengbo, et al. (author)
  • 1,5-Diiodocycloctane: a cyclane solvent additive that can extend the exciton diffusion length in thick film organic solar cells
  • 2024
  • In: Energy and Environmental Sciences. - 1754-5692 .- 1754-5706. ; 17:5, s. 1916-1930
  • Journal article (peer-reviewed)abstract
    • The short exciton diffusion length associated with most state-of-the-art organic semiconductors used in organic solar cells (OSCs) imposes severe limits on the exciton transport in the larger donor/acceptor domains and the exciton dissociation at the interface, which hinder further improvements in the power conversion efficiencies (PCE) of the thick-film devices. In this study, a new cyclane, 1,5-diiodocycloctane (DICO), was employed as a solvent additive to effectively extend the exciton LD within the bulk-heterojunction blend, which can function with the multiple photovoltaic materials system. Due to the great enhancement of molecular stacking and exclusively large domain sizes of photovoltaic materials with the assistance of the DICO additive, the trap density in devices is significantly reduced, thereby nearly doubling the LD in the thick film OSCs. Notably, the DICO-processed PM6/L8-BO-based OSC showed high thickness tolerance for the bulk-heterojunction (BHJ) layer, delivering a high PCE of 19.1% in the case of a 110 nm thick film and still maintaining an excellent PCE of 17.2% in the case of a 300 nm thick film. Crucially, a noticeably increased stability of the multiple materials system was observed in the DICO-processed OSCs. These findings enrich the additive family with new cyclane systems to extend the exciton LD in thick film OSCs with high performance.
  •  
24.
  • Wang, Anqi, et al. (author)
  • Characterizing prostate cancer risk through multi-ancestry genome-wide discovery of 187 novel risk variants
  • 2023
  • In: Nature Genetics. - : Springer Nature. - 1061-4036 .- 1546-1718. ; 55:12, s. 2065-2074
  • Journal article (peer-reviewed)abstract
    • The transferability and clinical value of genetic risk scores (GRSs) across populations remain limited due to an imbalance in genetic studies across ancestrally diverse populations. Here we conducted a multi-ancestry genome-wide association study of 156,319 prostate cancer cases and 788,443 controls of European, African, Asian and Hispanic men, reflecting a 57% increase in the number of non-European cases over previous prostate cancer genome-wide association studies. We identified 187 novel risk variants for prostate cancer, increasing the total number of risk variants to 451. An externally replicated multi-ancestry GRS was associated with risk that ranged from 1.8 (per standard deviation) in African ancestry men to 2.2 in European ancestry men. The GRS was associated with a greater risk of aggressive versus non-aggressive disease in men of African ancestry (P = 0.03). Our study presents novel prostate cancer susceptibility loci and a GRS with effective risk stratification across ancestry groups.
  •  
25.
  • Wang, Jin, et al. (author)
  • Edge computing-based real-time scheduling for digital twin flexible job shop with variable time window
  • 2023
  • In: Robotics and Computer-Integrated Manufacturing. - : Pergamon-Elsevier Science Ltd. - 0736-5845 .- 1879-2537. ; 79
  • Journal article (peer-reviewed)abstract
    • Production scheduling is the central link between enterprise production and operation management and is also the key to realising efficient, high-quality and sustainable production. However, in real-world manufacturing, the frequent occurrence of abnormal disturbance leads to the deviation of scheduling, which affects the accuracy and reliability of scheduling execution. The traditional dynamic scheduling methods (TDSMs) cannot solve this problem effectively. This paper presents a real-time digital twin flexible job shop scheduling (R-DTFJSS) method with edge computing to address the issue. Firstly, an overall framework of R-DTFJSS is proposed to realise real-time scheduling (RS) through real-time interaction between physical workshop (PW) and virtual workshop (VW). Secondly, the implementation process of R-DTFJSS is designed to realise real-time operation allocation. Then, to obtain the optimal RS result, an improved Hungarian algorithm (IHA) is adopted. Finally, a case simulation from an industrial case of a cooperative enterprise is described and analysed to verify the effectiveness of the proposed R-DTFJSS method. The results show that compared with the TDSMs, the R-DTFJSS method can effectively deal with unexpected and frequent abnormal disturbances in the production process.
  •  
26.
  • Wang, Juan, et al. (author)
  • Identification of Quantitative Trait Nucleotides and Development of Diagnostic Markers for Nine Fatty Acids in the Peanut
  • 2024
  • In: Plants. - 2223-7747. ; 13:1
  • Journal article (peer-reviewed)abstract
    • The cultivated peanut (Arachis hypogaea L.) is an important oilseed crop worldwide, and fatty acid composition is a major determinant of peanut oil quality. In the present study, we conducted a genome-wide association study (GWAS) for nine fatty acid traits using the whole genome sequences of 160 representative Chinese peanut landraces and identified 6-1195 significant SNPs for different fatty acid contents. Particularly for oleic acid and linoleic acid, two peak SNP clusters on Arahy.09 and Arahy.19 were found to contain the majority of the significant SNPs associated with these two fatty acids. Additionally, a significant proportion of the candidate genes identified on Arahy.09 overlap with those identified in early studies, among which three candidate genes are of special interest. One possesses a significant missense SNP and encodes a known candidate gene FAD2A. The second gene is the gene closest to the most significant SNP for linoleic acid. It codes for an MYB protein that has been demonstrated to impact fatty acid biosynthesis in Arabidopsis. The third gene harbors a missense SNP and encodes a JmjC domain-containing protein. The significant phenotypic difference in the oleic acid/linoleic acid between the genotypes at the first and third candidate genes was further confirmed with PARMS analysis. In addition, we have also identified different candidate genes (i.e., Arahy.ZV39IJ, Arahy.F9E3EA, Arahy.X9ZZC1, and Arahy.Z0ELT9) for the remaining fatty acids. Our findings can help us gain a better understanding of the genetic foundation of peanut fatty acid contents and may hold great potential for enhancing peanut quality in the future.
  •  
27.
  • Wang, Ning, et al. (author)
  • An active preventive maintenance approach of complex equipment based on a novel product-service system operation mode
  • 2020
  • In: Journal of Cleaner Production. - : ELSEVIER SCI LTD. - 0959-6526 .- 1879-1786. ; 277
  • Journal article (peer-reviewed)abstract
    • The product-service system (PSS) business model has received increasing attention in equipment maintenance studies, as it has the potential to provide high value-added services for equipment users and construct ethical principles for equipment providers to support the implementation of circular economy. However, the PSS providers in equipment industry are facing many challenges when implementing Industry 4.0 technologies. One important challenge is how to fully collect and analyse the operational data of different equipment and diverse users in widely varied conditions to make the PSS providers create innovative equipment management services for their customers. To address this challenge, an active preventive maintenance approach for complex equipment is proposed. Firstly, a novel PSS operation mode was developed, where complex equipment is offered as a part of PSS and under exclusive control by the providers. Then, a solution of equipment preventive maintenance based on the operation mode was designed. A deep neural network was trained to predict the remaining effective life of the key components and thereby, it can pre-emptively assess the health status of equipment. Finally, a real-world industrial case of a leading CNC machine provider was developed to illustrate the feasibility and effectiveness of the proposed approach. Higher accuracy for predicting the remaining effective life was achieved, which resulted in predictive identification of the fault features, proactive implementation of the preventive maintenance, and reduction of the PSS providers maintenance costs and resource consumption. Consequently, the result shows that it can help PSS providers move towards more ethical and sustainable directions. (C) 2020 The Author(s). Published by Elsevier Ltd.
  •  
28.
  • Wang, Xiaohua, et al. (author)
  • Tacrolimus Causes Hypertension by Increasing Vascular Contractility via RhoA (Ras Homolog Family Member A)/ROCK (Rho-Associated Protein Kinase) Pathway in Mice
  • 2022
  • In: Hypertension. - : Ovid Technologies (Wolters Kluwer Health). - 0194-911X .- 1524-4563. ; 79:10, s. 2228-2238
  • Journal article (peer-reviewed)abstract
    • Background: To provide tacrolimus is first-line treatment after liver and kidney transplantation. However, hypertension and nephrotoxicity are common tacrolimus side effects that limit its use. Although tacrolimus-related hypertension is well known, the underlying mechanisms are not. Here, we test whether tacrolimus-induced hypertension involves the RhoA (Ras homolog family member A)/ROCK (Rho-associated protein kinase) pathway in male C57Bl/6 mice. methods: Intra-arterial blood pressure was measured under anesthesia. The reactivity of renal afferent arterioles and mesenteric arteries were assessed in vitro using microperfusion and wire myography, respectively. Results: Tacrolimus induced a transient rise in systolic arterial pressure that was blocked by the RhoA/ROCK inhibitor Fasudil (12.0 +/- 0.9 versus 3.2 +/- 0.7; P<0.001). Moreover, tacrolimus reduced the glomerular filtration rate, which was also prevented by Fasudil (187 +/- 20 versus 281 +/- 8.5; P<0.001). Interestingly, tacrolimus enhanced the sensitivity of afferent arterioles and mesenteric arteries to Ang II (angiotensin II), likely due to increased intracellular Ca2+ mobilization and sensitization. Fasudil prevented increased Ang II-sensitivity and blocked Ca2+ mobilization and sensitization. Preincubation of mouse aortic vascular smooth muscle cells with tacrolimus activated the RhoA/ROCK/MYPT-1 (myosin phosphatase targeting subunit 1) pathway. Further, tacrolimus increased cytoplasmic reactive oxygen species generation in afferent arterioles (107 +/- 5.9 versus 163 +/- 6.4; P<0.001) and in cultured mouse aortic vascular smooth muscle cells (100 +/- 7.5 versus 160 +/- 23.2; P<0.01). Finally, the reactive oxygen species scavenger Tempol inhibited tacrolimus-induced Ang II hypersensitivity in afferent arterioles and mesenteric arteries. Conclusions: The RhoA/ROCK pathway may play an important role in tacrolimus-induced hypertension by enhancing Ang II-specific vasoconstriction, and reactive oxygen species may participate in this process by activating the RhoA/ROCK pathway.
  •  
29.
  • Xu, Jie, et al. (author)
  • UV-B and UV-C radiation trigger both common and distinctive signal perceptions and transmissions in Pinus tabuliformis Carr.
  • 2022
  • In: Tree Physiology. - : Oxford University Press. - 0829-318X .- 1758-4469. ; 42:8, s. 1587-1600
  • Journal article (peer-reviewed)abstract
    • In plants, ultraviolet (UV)-light is an important driver for growth and natural distribution, and is also a valuable tool for manipulating productivity as well as biotic interactions. Understanding of plant responses to different UV radiation is sparse, especially from a systems biology perspective and particularly for conifers. Here, we evaluated the physiological and transcriptomic responses to the short-term application of high-irradiance UV-B and UV-C waves on Pinus tabuliformis Carr., a major conifer in Northern China. By undertaking time-ordered gene coexpression network analyses and network comparisons incorporating physiological traits and gene expression variation, we uncovered communalities but also differences in P. tabuliformis responses to UV-B and UV-C. Both types of spectral bands caused a significant inhibition of photosynthesis, and conversely, the improvement of antioxidant capacity, flavonoid production and signaling pathways related to stress resistance, indicating a clear switch from predominantly primary metabolism to enhanced defensive metabolism in pine. We isolated distinct subnetworks for photoreceptor-mediated signal transduction, maximum quantum efficiency of photosystem II (Fv/Fm) regulation and flavonoid biosynthesis in response to UV-B and UV-C radiation. From these subnetworks, we further identified phototropins as potentially important elements in both UV-B and UV-C signaling and, for the first time, suggesting peptide hormones to be involved in promoting flavonoid biosynthesis against UV-B, while these hormones seem not to be implicated in the defense against UV-C exposure. The present study employed an effective strategy for disentangling the complex physiological and genetic regulatory mechanisms in a nonmodel plant species, and thus, provides a suitable reference for future functional evaluations and artificial UV-light mediated growing strategies in plant production.
  •  
30.
  • Xu, Jie, et al. (author)
  • UV-B-induced molecular mechanisms of stress physiology responses in the major northern Chinese conifer Pinus tabuliformis Carr
  • 2021
  • In: Tree Physiology. - : Oxford University Press. - 0829-318X .- 1758-4469. ; 41:7, s. 1247-1263
  • Journal article (peer-reviewed)abstract
    • During their lifetimes, plants are exposed to different abiotic stress factors eliciting various physiological responses and triggering important defense processes. For UV-B radiation responses in forest trees, the genetics and molecular regulation remain to be elucidated. Here, we exposed Pinus tabuliformis Carr., a major conifer from northern China, to short-term high-intensity UV-B and employed a systems biology approach to characterize the early physiological processes and the hierarchical gene regulation, which revealed a temporal transition from primary to secondary metabolism, the buildup of enhanced antioxidant capacity and stress-signaling activation. Our findings showed that photosynthesis and biosynthesis of photosynthetic pigments were inhibited, while flavonoids and their related derivates biosynthesis, as well as glutathione and glutathione S-transferase mediated antioxidant processes, were enhanced. Likewise, stress-related phytohormones (jasmonic acid, salicylic acid and ethylene), kinase and reactive oxygen species signal transduction pathways were activated. Biological processes regulated by auxin and karrikin were, for the first time, found to be involved in plant defense against UV-B by promoting the biosynthesis of flavonoids and the improvement of antioxidant capacity in our research system. Our work evaluated the physiological and transcriptome perturbations in a conifer's response to UV-B, and generally, highlighted the necessity of a systems biology approach in addressing plant stress biology.
  •  
31.
  • Zhang, Shan, et al. (author)
  • Alpha1-antitrypsin protects the immature mouse brain following hypoxic-ischemic injury
  • 2023
  • In: Frontiers in Cellular Neuroscience. - : Frontiers Media SA. - 1662-5102. ; 17
  • Journal article (peer-reviewed)abstract
    • Introduction: Preterm brain injury often leads to lifelong disabilities affecting both cognitive and motor functions, and effective therapies are limited. Alpha1-antitrypsin (AAT), an endogenous inhibitor of serine proteinases with anti-inflammatory, anti-apoptotic, and cytoprotective properties, might be beneficial in treating preterm brain injury. The aim of this study was to investigate whether AAT has neuroprotective effects in a mouse preterm brain injury model.Methods: Preterm brain injury was induced on postnatal day 5, and mouse pups' right common carotid arteries were cut between two ligations followed by hypoxia induction. Brain injury was evaluated through immunohistochemistry staining and magnetic resonance imaging. Fluoro-Jade B and immunohistochemistry staining were performed to investigate the neuronal cell death and blood-brain barrier (BBB) permeability. The motor function and anxiety-like behaviors were revealed by CatWalk gait analysis and the open field test.Results: After hypoxia-ischemia (HI) insult, brain injury was alleviated by AAT treatment, and this was accompanied by reduced BBB permeability, reduced neuronal cell death and caspase-3 activation, and inhibition of microglia activation. In addition, AAT administration significantly improved HI-induced motor function deficiencies in mice. The neuroprotective effect of AAT was more pronounced in male mice.Conclusion: AAT treatment is neuroprotective against preterm brain injury in neonatal mice, and the effect is more pronounced in males.
  •  
32.
  • Bai, Yunfei, et al. (author)
  • Sustainable cellulose foams for all-weather high-performance radiative cooling and building insulation
  • 2024
  • In: Carbohydrate Polymers. - 0144-8617 .- 1879-1344. ; 333, s. 121951-
  • Journal article (peer-reviewed)abstract
    • Passive daytime radiative cooling (PDRC) as a zero-energy-consumption cooling technique offers rich opportunities in reducing global energy consumption and mitigating CO2 emissions. Developing high-performance PDRC coolers with practical applicability based on sustainable materials is of great significance, but remains a big challenge. Herein, polyvinyl alcohol (PVA) and esterified cellulose (EC) extracted from sawdust were used as raw materials to construct foams by using a dual-crosslinking assisted-unidirectional freeze-drying strategy followed by hydrophobic surface modification. The resultant PVA/EC (PEC) foams with ideal hierarchical macropore structure displayed various excellent features, such as low thermal conductivity (26.2 mW·m−1·K−1), high solar reflectance (95 %) and infrared emissivity (0.97), superhydrophobicity as well as high mechanical properties. The features allowed the PEC foams to be used as radiative coolers with excellent PDRC performance and thermal insulating materials. A maximum sub-ambient temperature drops of 10.2 °C could be achieved for optimal PEC foams. Building simulations indicated that PEC foams could save 55.8 % of the energy consumption for Xi'an. Our work would give inspiration for designing various types of PDRC coolers, including but certainly not limited to foams-based radiative coolers. 
  •  
33.
  • Bousquet, Jean, et al. (author)
  • ARIA digital anamorphosis : Digital transformation of health and care in airway diseases from research to practice
  • 2021
  • In: Allergy. European Journal of Allergy and Clinical Immunology. - : John Wiley & Sons. - 0105-4538 .- 1398-9995. ; 76:1, s. 168-190
  • Research review (peer-reviewed)abstract
    • Digital anamorphosis is used to define a distorted image of health and care that may be viewed correctly using digital tools and strategies. MASK digital anamorphosis represents the process used by MASK to develop the digital transformation of health and care in rhinitis. It strengthens the ARIA change management strategy in the prevention and management of airway disease. The MASK strategy is based on validated digital tools. Using the MASK digital tool and the CARAT online enhanced clinical framework, solutions for practical steps of digital enhancement of care are proposed.
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34.
  • Charlier, Christophe, et al. (author)
  • The “good” boussinesq equation: long-time asymptotics
  • 2023
  • In: Analysis & PDE. - : Mathematical Sciences Publishers. - 2157-5045 .- 1948-206X. ; 16:6, s. 1351-1388
  • Journal article (peer-reviewed)abstract
    • We consider the initial-value problem for the “good” Boussinesq equation on the line. Using inverse scattering techniques, the solution can be expressed in terms of the solution of a 3×3-matrix Riemann–Hilbert problem. We establish formulas for the long-time asymptotics of the solution by performing a Deift–Zhou steepest descent analysis of a regularized version of this Riemann–Hilbert problem. Our results are valid for generic solitonless Schwartz class solutions whose space-average remains bounded as t→∞.
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35.
  • Chen, Yan, et al. (author)
  • Silver-Promoted (4+1) Annulation of Isocyanoacetates with Alkylpyridinium Salts : Divergent Regioselective Synthesis of 1,2-Disubstituted Indolizines
  • 2021
  • In: Organic Letters. - : American Chemical Society (ACS). - 1523-7060 .- 1523-7052. ; 23:19, s. 7555-7560
  • Journal article (peer-reviewed)abstract
    • An unprecedented silver-promoted regioselective (4 + 1) annulation of isocyanoacetates with pyridinium salts is reported. The established protocol provides controlled, facile, and modular access to a range of synthetically useful N-fused heterocyclic scaffolds containing indolizines, pyrrolo[1,2-a]quinolines, pyrrolo[2,1-a]isoquinolines, and 1H-imidazo[4,5-a]indolizin-2(3H)-ones. A mechanistic pathway involving nucleophilic addition/protonation/elimination/cydoisomerization is proposed.
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36.
  • Chitty, Jessica L., et al. (author)
  • The Mini-Organo : A rapid high-throughput 3D coculture organotypic assay for oncology screening and drug development
  • 2020
  • In: Cancer Reports. - : Wiley. - 2573-8348. ; 3:1
  • Journal article (peer-reviewed)abstract
    • Background: The use of in vitro cell cultures is a powerful tool for obtaining key insights into the behaviour and response of cells to interventions in normal and disease situations. Unlike in vivo settings, in vitro experiments allow a fine-tuned control of a range of microenvironmental elements independently within an isolated setting. The recent expansion in the use of three-dimensional (3D) in vitro assays has created a number of representative tools to study cell behaviour in a more physiologically 3D relevant microenvironment. Complex 3D in vitro models that can recapitulate human tissue biology are essential for understanding the pathophysiology of disease. Aim: The development of the 3D coculture collagen contraction and invasion assay, the "organotypic assay," has been widely adopted as a powerful approach to bridge the gap between standard two-dimensional tissue culture and in vivo mouse models. In the cancer setting, these assays can then be used to dissect how stromal cells, such as cancer-associated fibroblasts (CAFs), drive extracellular matrix (ECM) remodelling to alter cancer cell behaviour and response to intervention. However, to date, many of the published organotypic protocols are low-throughput, time-consuming (up to several weeks), and work-intensive with often limited scalability. Our aim was to develop a fast, high-throughput, scalable 3D organotypic assay for use in oncology screening and drug development. Methods and results Here, we describe a modified 96-well organotypic assay, the "Mini-Organo," which can be easily completed within 5 days. We demonstrate its application in a wide range of mouse and human cancer biology approaches including evaluation of stromal cell 3D ECM remodelling, 3D cancer cell invasion, and the assessment of efficacy of potential anticancer therapeutic targets. Furthermore, the organotypic assay described is highly amenable to customisation using different cell types under diverse experimental conditions. Conclusions: The Mini-Organo high-throughput 3D organotypic assay allows the rapid screening of potential cancer therapeutics in human and mouse models in a time-efficient manner.
  •  
37.
  • Chiu, Yu-Yao, et al. (author)
  • The association of obesity and dengue severity in hospitalized adult patients
  • 2023
  • In: JOURNAL OF MICROBIOLOGY IMMUNOLOGY AND INFECTION. - : Elsevier BV. - 1684-1182 .- 1995-9133. ; 56:2, s. 267-273
  • Journal article (peer-reviewed)abstract
    • Background: Obesity is associated with unfavorable outcomes for infectious diseases. Most researches exploring the association between nutritional status and dengue severity have focused on pediatric populations, with only few studies assessing adult patients.Methods: Adult patients with laboratory-confirmed dengue admitted to a tertiary hospital in southern Taiwan between 2014 and 2015 were enrolled retrospectively. Demographics, comorbidities, clinical presentation, laboratory findings, and outcomes were obtained from caserecord forms. Patients were categorized into obese group and nonobese group. The obese group comprised patients with a body mass index of >= 27.5 kg/m(2).Results: A total of 1417 hospitalized patients with dengue were evaluated. The mean age was 57.9 years (range: 18e92 years). The obese and nonobese groups comprised 333 (23.5%) and 1084 (76.5%) patients, respectively. The obese group included more patients with hypertension (85%, p < 0.001), diabetes mellitus (33%, p < 0.001), and congestive heart failure ( 6.3%, p Z 0.049). Multivariate analysis revealed that the obese group had more petechiae (AOR: 1.353, 95% CI: 1.025e1.786, p Z 0.033), more dyspnea (AOR: 1.380, 95% CI: 1.015e1.876, p Z 0.040), and more severe hepatitis (AOR: 2.061, 95% CI: 1.050e4.048, p Z 0.036). The obese group also had higher peak hematocrit values (44.1%, p < 0.001) and lower nadir platelet count (45.3 x 10(3)/mL, p Z 0.049) than the nonobese group.Conclusion: In adult patients with dengue, obese group had more petechiae, dyspnea, severe hepatitis, lower nadir of platelet count, and higher peak hematocrit level. We observed no difference in severe dengue or mortality between obese and nonobese group.
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38.
  •  
39.
  • Dareng, EO, et al. (author)
  • Polygenic risk modeling for prediction of epithelial ovarian cancer risk
  • 2022
  • In: European journal of human genetics : EJHG. - : Springer Science and Business Media LLC. - 1476-5438 .- 1018-4813. ; 30:3, s. 349-362
  • Journal article (peer-reviewed)abstract
    • Polygenic risk scores (PRS) for epithelial ovarian cancer (EOC) have the potential to improve risk stratification. Joint estimation of Single Nucleotide Polymorphism (SNP) effects in models could improve predictive performance over standard approaches of PRS construction. Here, we implemented computationally efficient, penalized, logistic regression models (lasso, elastic net, stepwise) to individual level genotype data and a Bayesian framework with continuous shrinkage, “select and shrink for summary statistics” (S4), to summary level data for epithelial non-mucinous ovarian cancer risk prediction. We developed the models in a dataset consisting of 23,564 non-mucinous EOC cases and 40,138 controls participating in the Ovarian Cancer Association Consortium (OCAC) and validated the best models in three populations of different ancestries: prospective data from 198,101 women of European ancestries; 7,669 women of East Asian ancestries; 1,072 women of African ancestries, and in 18,915 BRCA1 and 12,337 BRCA2 pathogenic variant carriers of European ancestries. In the external validation data, the model with the strongest association for non-mucinous EOC risk derived from the OCAC model development data was the S4 model (27,240 SNPs) with odds ratios (OR) of 1.38 (95% CI: 1.28–1.48, AUC: 0.588) per unit standard deviation, in women of European ancestries; 1.14 (95% CI: 1.08–1.19, AUC: 0.538) in women of East Asian ancestries; 1.38 (95% CI: 1.21–1.58, AUC: 0.593) in women of African ancestries; hazard ratios of 1.36 (95% CI: 1.29–1.43, AUC: 0.592) in BRCA1 pathogenic variant carriers and 1.49 (95% CI: 1.35–1.64, AUC: 0.624) in BRCA2 pathogenic variant carriers. Incorporation of the S4 PRS in risk prediction models for ovarian cancer may have clinical utility in ovarian cancer prevention programs.
  •  
40.
  • Depalo, Francesco, et al. (author)
  • Effects of dynamic axial stiffness of elastic moorings for a wave energy converter
  • 2022
  • In: Ocean Engineering. - : Elsevier BV. - 0029-8018. ; 251
  • Journal article (peer-reviewed)abstract
    • This work studies the effects of the dynamic axial stiffness of elastic moorings on the dynamic behaviour of a point absorber wave energy converter. Following two mooring analysis procedures, coupled dynamic analysis of a taut-moored WEC with three legs is performed using the FEM program DeepC in three irregular wave conditions. Two synthetic fibre rope materials are investigated, i.e. a normally stiff polyester and a wire-lay 3-strand nylon rope. The results of WEC motions and mooring tensions obtained from a quasi-static stiffness model and the dynamic stiffness model are compared and discussed. The former analysis applies the non-linear stiffness working curves of the ropes in the simulations, while the latter utilizes the dynamic stiffness expression with an iterative process following a practical mooring analysis procedure. For the nylon rope, the influence of the load amplitude on the dynamic stiffness and the WEC response is presented and analysed. It was found that the quasi-static stiffness model tends to underestimate the maximum mooring tensions, leading to 30%–40% lower results compared to the one accounting for the dynamic stiffness effects. For the studied WEC system, the nylon rope shows advantages over polyester, because of the lower mooring tensions and higher WEC motions.
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41.
  • Ding, Pengji, et al. (author)
  • Signature of femtosecond laser-induced superfluorescence from atomic hydrogen
  • 2022
  • In: Physical Review A. - 2469-9926. ; 105:1
  • Journal article (peer-reviewed)abstract
    • Cavity-free lasing generation from gas constituents has been studied in the past decade since it promises great potentials in remote sensing and optical diagnostics techniques. Here we report on experimental investigations of temporal characteristics of H-atom lasing emission at 656 nm by examining the dependences of its durations and delays on the pump-laser-pulse energies. An indirect measurement was also performed to test the delays of the lasing pulse for varying H-atom concentrations. The results show that the lasing pulse exhibits considerable superfluorescence signatures. Analysis based on experimental parameters by using deductive expressions of superfluorescence theory shows good agreement to this conjecture. Our investigations on fundamentals could pave the way to a better understanding of the lasing generation and further applications of lasing-based optical diagnostics.
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42.
  • Fang, Shan, et al. (author)
  • A Dynamic Transformation Car-Following Model for the Prediction of the Traffic Flow Oscillation
  • 2024
  • In: IEEE Intelligent Transportation Systems Magazine. - 1939-1390 .- 1941-1197. ; 16:1, s. 174-198
  • Journal article (peer-reviewed)abstract
    • Car-following (CF) behavior is a fundamental of traffic flow modeling; it can be used for the virtual testing of connected and automated vehicles and the simulation of various types of traffic flow, such as free flow and traffic oscillation. Although existing CF models can replicate the free flow well, they are incapable of simulating complicated traffic oscillation, and it is difficult to strike a balance between accuracy and efficiency. This article investigates the error variation when the traffic oscillation is simulated by the intelligent driver model (IDM). Then, it divides the traffic oscillation into four phases (coasting, deceleration, acceleration, and stationary) by using the space headway of multiple steps. To simulate traffic oscillation between multiple human-driven vehicles, a dynamic transformation CF model is proposed, which includes the long-time prediction submodel [modified sequence-to-sequence (Seq2seq)] model, short-time prediction submodel (Transformer), and their dynamic transformation strategy]. The first submodel is utilized to simulate the coasting and stationary phases, while the second submodel is utilized to simulate the acceleration and deceleration phases. The results of experiments indicated that compared to K-nearest neighbors, IDM, and Seq2seq CF models, the dynamic transformation CF model reduces the trajectory error by 60.79–66.69% in microscopic traffic flow simulations, 7.71–29.91% in mesoscopic traffic flow simulations, and 1.59–18.26% in macroscopic traffic flow simulations. Moreover, the runtime of the dynamic transformation CF model (Inference) decreased by 14.43–66.17% when simulating the large-scale traffic flow.
  •  
43.
  • Feng, Kui, et al. (author)
  • Fused Bithiophene Imide Dimer-Based n-Type Polymers for High-Performance Organic Electrochemical Transistors
  • 2021
  • In: Angewandte Chemie International Edition. - : WILEY-V C H VERLAG GMBH. - 1433-7851 .- 1521-3773. ; 60:45, s. 24198-24205
  • Journal article (peer-reviewed)abstract
    • The development of n-type organic electrochemical transistors (OECTs) lags far behind their p-type counterparts. In order to address this dilemma, we report here two new fused bithiophene imide dimer (f-BTI2)-based n-type polymers with a branched methyl end-capped glycol side chain, which exhibit good solubility, low-lying LUMO energy levels, favorable polymer chain orientation, and efficient ion transport property, thus yielding a remarkable OECT electron mobility (mu(e)) of up to approximate to 10(-2) cm(2) V-1 s(-1) and volumetric capacitance (C*) as high as 443 F cm(-3), simultaneously. As a result, the f-BTI2TEG-FT-based OECTs deliver a record-high maximum geometry-normalized transconductance of 4.60 S cm(-1) and a maximum mu C* product of 15.2 F cm(-1) V-1 s(-1). The mu C* figure of merit is more than one order of magnitude higher than that of the state-of-the-art n-type OECTs. The emergence of f-BTI2TEG-FT brings a new paradigm for developing high-performance n-type polymers for low-power OECT applications.
  •  
44.
  • Gangopadhyay, Anjasha, et al. (author)
  • Optical studies of two stripped-envelope supernovae – SN 2015ap (Type Ib) and SN 2016P (Type Ic)
  • 2020
  • In: Monthly notices of the Royal Astronomical Society. - : Oxford University Press (OUP). - 0035-8711 .- 1365-2966. ; 497:3, s. 3770-3789
  • Journal article (peer-reviewed)abstract
    • We present the photometric and spectroscopic studies of a Type Ib SN 2015ap and a Type Ic SN 2016P. SN 2015ap is one of the bright (MV = −18.04 mag) Type Ib while SN 2016P lies at an average value among the Type Ic SNe (MV = −17.53 mag). Bolometric light-curve modelling of SNe 2015ap and 2016P indicates that both the SNe are powered by 56Ni + magnetar model with 56Ni masses of 0.01 and 0.002 M⊙, ejecta masses of 3.75 and 4.66 M⊙, spin period P0 of 25.8 and 36.5 ms, and magnetic field Bp of 28.39 × 1014 and 35.3 × 1014 G, respectively. The early spectra of SN 2015ap show prominent lines of He with a ‘W’ feature due to Fe complexes while other lines of Mg ii, Na i, and Si ii are present in both SNe 2015ap and 2016P. Nebular phase [O i] profile indicates an asymmetric profile in SN 2015ap. The [O i]/[Ca ii] ratio and nebular spectral modelling of SN 2015ap hint towards a progenitor mass between 12 and 20 M⊙.
  •  
45.
  • Gao, Lingfeng, et al. (author)
  • Ultra-Small 2D PbS Nanoplatelets : Liquid-Phase Exfoliation and Emerging Applications for Photo-Electrochemical Photodetectors
  • 2021
  • In: Small. - : John Wiley & Sons. - 1613-6810 .- 1613-6829. ; 17:5
  • Journal article (peer-reviewed)abstract
    • 2D PbS nanoplatelets (NPLs) form an emerging class of photoactive materials and have been proposed as robust materials for high-performance optoelectronic devices. However, the main drawback of PbS NPLs is the large lateral size, which inhibits their further investigations and practical applications. In this work, ultra-small 2D PbS NPLs with uniform lateral size (11.2 +/- 1.7 nm) and thickness (3.7 +/- 0.9 nm, approximate to 6 layers) have been successfully fabricated by a facile liquid-phase exfoliation approach. Their transient optical response and photo-response behavior are evaluated by femtosecond-resolved transient absorption and photo-electrochemical (PEC) measurements. It is shown that the NPLs-based photodetectors (PDs) exhibit excellent photo-response performance from UV to the visible range, showing extremely high photo-responsivity (27.81 mA W-1) and remarkable detectivity (3.96 x 10(10) Jones), which are figures of merit outperforming currently reported PEC-type PDs. The outstanding properties are further analyzed based on the results of first-principle calculations, including electronic band structure and free energies for the oxygen evolution reaction process. This work highlights promising applications of ultra-small 2D PbS NPLs with the potential for breakthrough developments also in other fields of optoelectronic devices.
  •  
46.
  • Geng, Xin, et al. (author)
  • Construction of Phenanthridinone Skeletons through Palladium-Catalyzed Annulation
  • 2023
  • In: Journal of Organic Chemistry. - : American Chemical Society (ACS). - 0022-3263 .- 1520-6904. ; 88:17, s. 12738-12743
  • Journal article (peer-reviewed)abstract
    • Herein, a straightforward synthetic approach for the construction of phenanthridin-6(5H)-one skeletons is disclosed. The developed protocol relies on palladium catalysis, providing controlled access to a range of functionalized phenanthridin-6(5H)-ones in 59-88% yields. Furthermore, plausible reaction pathways are proposed based on mechanistic experiments.
  •  
47.
  • Geng, Xin, et al. (author)
  • Tandem Palladium/Copper-Catalyzed Decarboxylative Approach to Benzoimidazo- and Imidazophenanthridine Skeletons
  • 2022
  • In: Organic Letters. - : American Chemical Society (ACS). - 1523-7060 .- 1523-7052. ; 24:50, s. 9194-9199
  • Journal article (peer-reviewed)abstract
    • A protocol for a tandem Pd/Cu-catalyzed intermolecular cross-coupling cascade between o-bromobenzoic acids and 2-(2-bromoaryl)-1H-benzo[d]imidazoles or the corresponding imidazoles is presented. The protocol provides conceptually novel and controlled access to synthetically useful N-fused (benzo)imidazophenanthridine scaffolds with high efficiency, a broad substrate scope, and excellent functional group compatibility.
  •  
48.
  • Gutman, Boris A, et al. (author)
  • A meta-analysis of deep brain structural shape and asymmetry abnormalities in 2,833 individuals with schizophrenia compared with 3,929 healthy volunteers via the ENIGMA Consortium
  • 2022
  • In: Human Brain Mapping. - : John Wiley & Sons. - 1065-9471 .- 1097-0193. ; 43:1, s. 352-372
  • Journal article (peer-reviewed)abstract
    • Schizophrenia is associated with widespread alterations in subcortical brain structure. While analytic methods have enabled more detailed morphometric characterization, findings are often equivocal. In this meta-analysis, we employed the harmonized ENIGMA shape analysis protocols to collaboratively investigate subcortical brain structure shape differences between individuals with schizophrenia and healthy control participants. The study analyzed data from 2,833 individuals with schizophrenia and 3,929 healthy control participants contributed by 21 worldwide research groups participating in the ENIGMA Schizophrenia Working Group. Harmonized shape analysis protocols were applied to each site's data independently for bilateral hippocampus, amygdala, caudate, accumbens, putamen, pallidum, and thalamus obtained from T1-weighted structural MRI scans. Mass univariate meta-analyses revealed more-concave-than-convex shape differences in the hippocampus, amygdala, accumbens, and thalamus in individuals with schizophrenia compared with control participants, more-convex-than-concave shape differences in the putamen and pallidum, and both concave and convex shape differences in the caudate. Patterns of exaggerated asymmetry were observed across the hippocampus, amygdala, and thalamus in individuals with schizophrenia compared to control participants, while diminished asymmetry encompassed ventral striatum and ventral and dorsal thalamus. Our analyses also revealed that higher chlorpromazine dose equivalents and increased positive symptom levels were associated with patterns of contiguous convex shape differences across multiple subcortical structures. Findings from our shape meta-analysis suggest that common neurobiological mechanisms may contribute to gray matter reduction across multiple subcortical regions, thus enhancing our understanding of the nature of network disorganization in schizophrenia.
  •  
49.
  • Ishfaq, Muhammad, et al. (author)
  • Improvement of nutritional quality of food crops with fertilizer : a global meta-analysis
  • 2023
  • In: Agronomy for Sustainable Development. - : Springer Nature. - 1774-0746 .- 1773-0155. ; 43:6
  • Journal article (peer-reviewed)abstract
    • Providing the world’s population with sufficient and nutritious food through sustainable food systems is a major challenge of the twenty-first century. Fertilizer use is a major driver of crop yield, but a comprehensive synthesis of the effect of fertilizer on the nutritional quality of food crops is lacking. Here we performed a comprehensive global meta-analysis using 7859 data pairs from 551 field experiment-based articles published between 1972 and 2022, assessing the contribution of fertilization with a wide set of plant nutrients to the nutritional quality of food crops (i.e., fruits, vegetables, cereals, pulses/oil crops, and sugar crops). On average, fertilizer application improved crop yield by 30.9% (CI: 28.2–33.7%) and nutritional quality (referring to all nutritionally relevant components assessed; carbohydrates, proteins, oil, vitamin C, representative mineral nutrients, and total soluble solids) by 11.9% (CI: 10.7–12.1%). The improvements were largely nutrient- and crop species dependent, with vegetables being the most responsive. Potassium, magnesium, and micronutrients played important roles in promoting crop nutritional quality, whereas the combined application of inorganic and organic source(s) had the greatest impact on quality. Desirable climatic conditions and soil properties (i.e., silt loam, soil organic matter 2.5–5.0%, and pH 4.5–8.5) supported further enhancements. Considering cross-continent responsiveness, the increase in the nutritional quality of food crops with fertilizer application was greatest in Africa. In a nutshell, our findings pave the way towards a quantitative understanding of nutrient management programs and responsible plant nutrition solutions that foster the sustainable production of nutritious and healthy food crops for human consumption.
  •  
50.
  • Jaradat, Ahmad, et al. (author)
  • A High-Rate Li–CO2 Battery Enabled by 2D Medium-Entropy Catalyst
  • 2023
  • In: Advanced Functional Materials. - 1616-301X .- 1616-3028. ; 33:21
  • Journal article (peer-reviewed)abstract
    • Lithium-air batteries based on CO2 reactant (Li–CO2) have recently been of interest because it has been found that reversible Li/CO2 electrochemistry is feasible. In this study, a new medium-entropy cathode catalyst, (NbTa)0.5BiS3, that enables the reversible electrochemistry to operate at high rates is presented. This medium entropy cathode catalyst is combined with an ionic liquid-based electrolyte blend to give a Li–CO2 battery that operates at high current density of 5000 mA g−1 and capacity of 5000 mAh g−1 for up to 125 cycles, far exceeding reported values in the literature for this type of battery. The higher rate performance is believed to be due to the greater stability of the multi-element (NbTa)0.5BiS3 catalyst because of its higher entropy compared to previously used catalysts with a smaller number of elements with lower entropies. Evidence for this comes from computational studies giving very low surface energies (high surface stability) for (NbTa)0.5BiS3 and transmission electron microscopystudies showing the structure being retained after cycling. In addition, the calculations indicate that Nb-terminated surface promotes Li–CO2 electrochemistry resulting in Li2CO3 and carbon formation, consistent with the products found in the cell. These results open new direction to design and develop high-performance Li–CO2 batteries. 
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