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Single-cell transcriptomic landscape of peripheral blood cells provides insights into adaptation of red-eared sliders(Trachemys scripta elegans)

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Integrative Zoology 2024年第3期19卷 468-479页

作者： rui GUO Guangwei MA Xiaofei ZHAI Haitao shi Jichao WANG Ministry of Education Key Laboratory for Ecology of Tropical Islands Key Laboratory of Tropical Animal and Plant Ecology of Hainan ProvinceCollege of Life SciencesHainan Normal UniversityHaikouChina

Red-eared sliders(Trachemys scripta elegans),as one of the 100 most threatening aliens,have stronger immunity than the native species in response to environmental stress.Blood cells are an important component of immunity in the body.However,the blood cell researches of turtle are still in the traditional blood cell classification and morphological structure observation.Furthermore,turtle granulocytes cannot be accurately identified using traditional methods.Single-cell RNA sequencing techniques have been successfully implemented to study cells based on the mRNA expression patterns of each cell.The present study profiled the transcriptomes of peripheral blood cells in red-eared sliders to construct a single-cell transcriptional landscape of the different cell types and explored environmental adaptation mechanism from the perspective of hematology.All 14 transcriptionally distinct clusters(platelets,erythrocytes1,erythrocytes2,CSF1R monocytes,POF1B monocytes,neutrophils,GATA2high basophils,GATA2low basophils,CD4 T cells,CD7 T cells,B cells,ACKR4 cells,serotriflin cells,and ficolin cells)were identified in the peripheral blood cells of the red-eared sliders.In particular,a subtype of erythrocytes(erythrocytes1)that expressed immune signals was identified.Peripheral blood cells were grouped into three lineages:platelet,erythroid/lymphoid,and myeloid cell lineages.Furthermore,based on differentiation trajectory and up-regulated gene expression,ACKR4 cells were newly identified as lymphocytes,and serotriflin and ficolin cells as granulocytes.The single-cell transcriptional atlas of the peripheral blood cells in red-eared sliders provided in the present study will offer a comprehensive transcriptome reference for the exploration of physiological and pathological hematology in this species.

关键词： blood cells single-cell RNA-seq Trachemys scripta elegans

Stability of the Phase Separation State for Compressible Navier-Stokes/Allen-Cahn System

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Acta Mathematicae Applicatae Sinica 2024年第1期40卷 45-74页

作者： ya-zhou Chen Hakho Hong Xiao-ding shi Department of Mathematics College of Mathematics and PhysicsBeijing University of Chemical TechnologyBeijing100029China Institute of Mathematics State Academy of SciencesPyongyangKorea

This paper is concerned with the large time behavior of the Cauchy problem for Navier-Stokes/AllenCahn system describing the interface motion of immiscible two-phase flow in 3-D. The existence and uniqueness of global solutions and the stability of the phase separation state are proved under the small initial perturbations. Moreover, the optimal time decay rates are obtained for higher-order spatial derivatives of density,velocity and phase. Our results imply that if the immiscible two-phase flow is initially located near the phase separation state, then under small perturbation conditions, the solution exists globally and decays algebraically to the complete separation state of the two-phase flow, that is, there will be no interface fracture, vacuum, shock wave, mass concentration at any time, and the interface thickness tends to zero as the time t → +∞.

关键词： Navier-Stokes/Allen-Cahn system existence uniqueness large time behavior decay rate

Vortex identification based on the Liutex method and its effect on fish passage upstream

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Journal of Hydrodynamics 2024年第1期36卷 130-141页

作者： Chun-ying Shen rui-guo yang Xiao-tao shi Ming-ming Wang shi-hua He Faculty of Electrical Power Engineering Kunming University of Science and TechnologyKunming650500China Hubei International Science and Technology Cooperation Base of Fish Passage China Three Gorges UniversityYichang443002China Shanghai Investigation Design and Research Institute Co.LtShanghai200434China

Fishway research is important for mitigating the fragmentation of river habitats caused by hydraulic projects.The vertical slit fishway is a broadly used fishway type because of its high efficiency and adaptability to water levels.However,the resulting vortex current disrupts the fish passage hence directly affecting fish migration.This study aims to accurately capture the vortex structure in the fishway and analyze the effect of vortex elements(vortex structure,vortex intensity,etc.)on fish.We conducted an analysis of the 3-D current flow field in the fishway through the utilization of an experimental model and the large eddy simulation(LES)method.Moreover,we captured the vortex information in the fishway at different flow rates using the Liutex vortex identification method and investigated the effect of the vortex on fish migration.The results revealed that the structures inside the fishway pool occupy most of the room,however,the areas with higher vortex strength were primarily located in the vortex near the vertical seam and the mainstream,the vortex strength inside the fishway gradually increases with increasing flow,suppressing fish migration.Fish experienced significantly increased resistance when encountering strong vortices.This suggests that the vortex may act as a physical barrier to fish migration.These findings highlight the potential negative effects of vortex on fish movement and reiterate the importance of understanding vortex dynamics for aquatic environmental management.As an effective tool for identifying vortices in fluid flow,the Liutex method demonstrates features of vortex within the fishway,thereby providing important insights into the interaction between fluid dynamics and aquatic organisms.

关键词： Vertical slit fishway vortex identification method Liutex large eddy simulation(LES) fish experiment computational fluid dynamics

Washed microbiota transplantation for Crohn’s disease:A metagenomic,metatranscriptomic,and metabolomic-based study

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World Journal of Gastroenterology 2024年第11期30卷 1572-1587页

作者： shi-Ju Chen Da-ya Zhang Xia Wu Fa-Ming Zhang Bo-Ta Cui Yi-Hao Huang Zu-Lun Zhang rui Wang Fei-Hu Bai Graduate School Hainan Medical UniversityHaikou 571199Hainan ProvinceChina Department of Microbiota Medicine&Medical Center for Digestive Diseases The Second Affiliated Hospital of Nanjing Medical UniversityNanjing 210011Jiangsu ProvinceChina Department of Gastroenterology The Second Affiliated Hospital of Hainan Medical UniversityHaikou 570216Hainan ProvinceChina

BACKGROUND Fecal microbiota transplantation(FMT)is a promising therapeutic approach for treating Crohn’s disease(CD).The new method of FMT,based on the automatic washing process,was named as washed microbiota transplantation(WMT).Most existing studies have focused on observing the clinical phenomena.However,the mechanism of action of FMT for the effective management of CD-particularly in-depth multi-omics analysis involving the metagenome,metatranscriptome,and metabolome-has not yet been reported.AIM To assess the efficacy of WMT for CD and explore alterations in the microbiome and metabolome in response to WMT.METHODS We conducted a prospective,open-label,single-center clinical study.Eleven CD patients underwent WMT.Their clinical responses(defined as a decrease in their CD Activity Index score of>100 points)and their microbiome(metagenome,metatranscriptome)and metabolome profiles were evaluated three months after the procedure.RESULTS Seven of the 11 patients(63.6%)showed an optimal clinical response three months post-WMT.Gut microbiome diversity significantly increased after WMT,consistent with improved clinical symptoms.Comparison of the metagenome and metatranscriptome analyses revealed consistent alterations in certain strains,such as Faecalibac-terium prausnitzii,Roseburia intestinalis,and Escherichia coli.In addition,metabolomics analyses demonstrated that CD patients had elevated levels of various amino acids before treatment compared to the donors.However,levels of vital amino acids that may be associated with disease progression(e.g.,L-glutamic acid,gamma-glutamyl-leucine,and prolyl-glutamine)were reduced after WMT.CONCLUSION WMT demonstrated therapeutic efficacy in CD treatment,likely due to the effective reconstruction of the patient’s microbiome.Multi-omics techniques can effectively help decipher the potential mechanisms of WMT in treating CD.

关键词： Crohn’s disease Clinical trials Fecal microbiota transplant Metagenome Metatranscriptome Metabolome

Exploring mechanism of hidden,steep obliquely inclined bedding landslides using a 3DEC model:A case study of the Shanyang landslide in Shaanxi Province,China

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China Geology 2024年第2期7卷 303-314,I0001-I0003页

作者： Jia-yun Wang Zi-long Wu Xiao-ya shi Long-wei yang rui-ping Liu Na Lu Xi’an Center of China Geological Survey/Northwest China Center for Geoscience Innovation Xi’an 710119China Xi’an University of Science and Technology Xi’an 710054China Wuhan Design&Research Institute Co. Ltd.of China Coal Technology&Engineering GroupWuhan 430064China

Catastrophic geological disasters frequently occur on slopes with obliquely inclined bedding structures(also referred to as obliquely inclined bedding slopes),where the apparent dip sliding is not readily visible.This phenomenon has become a focal point in landslide research.Yet,there is a lack of studies on the failure modes and mechanisms of hidden,steep obliquely inclined bedding slopes.This study investigated the Shanyang landslide in Shaanxi Province,China.Using field investigations,laboratory tests of geotechnical parameters,and the 3DEC software,this study developed a numerical model of the landslide to analyze the failure process of such slopes.The findings indicate that the Shanyang landslide primarily crept along a weak interlayer under the action of gravity.The landslide,initially following a dip angle with the support of a stable inclined rock mass,shifted direction under the influence of argillization in the weak interlayer,moving towards the apparent dip angle.The slide resistance effect of the karstic dissolution zone was increasingly significant during this process,with lateral friction being the primary resistance force.A reduction in the lateral friction due to karstic dissolution made the apparent dip sliding characteristics of the Shanyang landslide more pronounced.Notably,deformations such as bending and uplift at the slope’s foot suggest that the main slide resistance shifts from lateral friction within the karstic dissolution zone to the slope foot’s resistance force,leading to the eventual buckling failure of the landslide.This study unveils a novel failure mode of apparent dip creep-buckling in the Shanyang landslide,highlighting the critical role of lateral friction from the karstic dissolution zone in its failure mechanism.These insights offer a valuable reference for mitigating risks and preventing disasters related to obliquely inclined bedding landslides.

关键词： Landslide Steep obliquely inclined bedding slope Failure mode Failure mechanism Apparent dip creep-buckling Lateral friction 3DEC model Landslide numerical model Geological hazards survey engineering

Biomimetic chitin hydrogel via chemical transformation

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Nano Research 2024年第2期17卷 771-777页

作者： rui-rui Liu Qian-Qian shi Yu-Feng Meng Yong Zhou Li-Bo Mao Shu-Hong Yu Division of Nanomaterials&Chemistry Hefei National Research Center for Physical Sciences at the MicroscaleDepartment of ChemistryInstitute of Biomimetic Materials&ChemistryAnhui Engineering Laboratory of Biomimetic MaterialsUniversity of Science and Technology of ChinaHefei 230026China College&Hospital of Stomatology Key Laboratory of Oral Diseases Research of Anhui ProvinceAnhui Medical UniversityHefei 230032China Department of Dental Implantology College&Hospital of StomatologyAnhui Medical UniversityHefei 230032China

Chitin hydrogel has been recognized as a promising material for various biomedical applications because of its biocompatibility and biodegradability.However,the fabrication of strong chitin hydrogel remains a big challenge because of the insolubility of chitin in many solvents and the reduced chain length of chitin regenerated from solutions.We herein introduce the fabrication of chitin hydrogel with biomimetic structure through the chemical transformation of chitosan,which is a water-soluble deacetylated derivative of chitin.The reacetylation of the amino group in chitosan endows the obtained chitin hydrogel with outstanding resistance to swelling,degradation,extreme temperature and pH conditions,and organic solvents.The chitin hydrogel has excellent mechanical properties while retaining a high water content(more than 95 wt.%).It also shows excellent antifouling performance that it resists the adhesion of proteins,bacteria,blood,and cells.Moreover,as the initial chitosan solution can be feasibly frozen and templated by ice crystals,the chitin hydrogel structure can be either nacre-like or wood-like depending on the freezing method of the precursory chitosan solution.Owing to these anisotropic structures,such chitin hydrogel can exhibit anisotropic mechanics and mass transfer capabilities.The current work provides a rational strategy to fabricate chitin hydrogels and paves the way for its practical applications as a superior biomedical material.

关键词： chitin hydrogel biomimetic structure chemical stability mechanical strength antifouling

Reduction behavior of iron ore powder by high-volatile coal in thermogravimetric-gas chromatographic and kinetic analysis

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Journal of Iron and Steel Research(International) 2024年第1期31卷 92-107页

作者： rui-meng shi Qi-yuan Mi Bin Li Xiao shi Chong Zou Jing Guo Han-jie Guo School of Metallurgical Engineering Xi’an University of Architecture and TechnologyXi’an710055ShaanxiChina China International Engineering Consulting Corporation Beijing100048China School of Metallurgical and Ecological Engineering University of Science and Technology BeijingBeijing100083China

The reduction behavior of iron ore powder by high-volatile coal was investigated,and its kinetic mechanism was clarified.The effect of volatiles in coal on the reduction reaction of iron ore was compared by utilizing a Xinjiang lignite with a high volatile content and its pyrolysis carbon produced by high-temperature pyrolysis to remove volatiles,serving as a reductant.The mass loss and gas composition of the samples during the reduction process were detected using thermo-gravimetric analysis and gas chromatography,and the morphological changes of iron ore powder were observed through scanning electron microscopy.The kinetic parameters of the iron oxide reduction reaction were calculated by the Flynn-Ozawa-Wall method,and the kinetic mechanism of volatile participation in the iron oxide reduction reaction was determined through the Coats-Redfern method.The results indicate that the coupling effect between the high-volatile coal pyrolysis and reduction reactions occurs during the second stage of the entire coupling process,which corresponds to the late stage of coal pyrolysis with a substantial release of H_(2)and CO.The volatiles in coal actively participated in the reduction reaction,reducing the initiation temperature of the reaction by around 200℃.The reduction of iron oxides by high-volatile coal was jointly promoted by the"hydrogen cycle"and"carbon cycle",resulting in a higher reduction extent and metallization rate at the end of the reaction.When high-volatile coal was used as the reductant,the average activation energy for the entire process was 76.5 kJ/mol,a significant decrease compared to the employment of pyrolysis carbon without volatiles as the reductant(1167 kJ/mol).

关键词： Direct reduction High-volatile coal Volatile Kinetics Reduction mechanism

Chemical Composition, Pharmacological Effects and Clinical Applications of Cinobufacini

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Chinese Journal of Integrative Medicine 2024年第4期30卷 366-378页

作者： ZUO Qian XU Ding-qiao YUE shi-jun FU rui-jia TANG Yu-ping Key Laboratory of Shaanxi Administration of Traditional Chinese Medicine for TCM Compatibility Shaanxi University of Chinese MedicineXi'an(712046)China

Chinese medicine cinobufacini is an extract from the dried skin of Bufo bufo gargarizans Cantor,with active ingredients of bufadienolides and indole alkaloids.With further research and clinical applications,it is found that cinobufacini alone or in combination with other therapeutic methods can play an anti-tumor role by controlling proliferation of tumor cells,promoting apoptosis,inhibiting formation of tumor neovascularization,reversing multidrug resistance,and regulating immune response;it also has the functions of relieving cancer pain and regulating immune function.In this paper,the chemical composition,pharmacological effects,clinical applications,and adverse reactions of cinobufacini are summarized.However,the extraction of monomer components of cinobufacini,the relationship between different mechanisms,and the causes of adverse reactions need to be further studied.Also,high-quality clinical studies should be conducted.

关键词： cinobufacini chemical composition Chinese medicine pharmacological effect clinical application adverse effect

Highly efficient labelling of extracellular vesicles for enhanced detection on a microfluidic platform

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Chinese Chemical Letters 2024年第2期35卷 441-445页

作者： shi Hu rui Hao Zitong Yu Huitao Zhang Hui yang Bionic Sensing and Intelligence Center Institute of Biomedical and Health EngineeringShenzhen Institute of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China

Developing precise extracellular vesicles(EVs)labelling techniques with minimal disturbance is of great importance to the follow-up EVs detection and analysis.However,currently available methods such as using probes to conjugate phospholipids or membrane proteins have certain limitations due to EV steric hindrance,dye aggregation,etc.Here,we present a microfluidic platform to enhance EVs’labelling efficiency and improve their detection.This platform provides excellent sample throughput and high-efficiency EV labelling at lower label concentrations with an optimized flowing rate.Flow cytometry analysis(FCM)and cellular uptake results show that EV labelling by utilizing this platform possesses the merits of a higher labelling efficiency with 64.1%relative improvement than conventional co-incubation method and a lower background noise.Moreover,this technique maintains EVs’size,morphology and biological activities.After the recipient cells uptake the EVs treated by the microfluidic platform,the spatial and temporal distribution of EVs in the cells are clearly observed.These results demonstrate that our method holds great potential in efficient labelling of EVs,which is essential to subsequent EV quantification and analysis.

关键词： Microfluidic platform Extracellular vesicles Labelling PKH dye Flow cytometry