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Chromosome-level genome assembly of the glass catfish(Kryptopterus vitreolus)reveals molecular clues to its transparent phenotype

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Zoological Research 2024年第5期45卷 1027-1036页

作者： Chao Bian Rui-Han Li Zhi-Qiang Ruan Wei-Ting Chen Yu Huang Li-Yue Liu Hong-Ling Zhou cheong-meng chong Xi-Dong Mu Qiong Shi Laboratory of Aquatic Genomics College of Life Sciences and OceanographyShenzhen UniversityShenzhenGuangdong 518057China Key Laboratory of Prevention and Control for Aquatic Invasive Alien Species Ministry of Agriculture and Rural AffairsGuangdong Modern.Recreational Fisheries Engineering Technology CenterPearl River Fisheries Research InstituteChinese Academy of Fishery SciencesGuangzhouGuangdong 510380China Shenzhen Key Lab of Marine Genomics Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic AnimalsBGI Academy of Marine SciencesBGI MarineShenzhenGuangdong 518081China CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization&Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province Chengdu Institute of BiologyChinese Academy of SciencesChengduSichuan 610041China School of Life Sciences Jiaying UniversityMeizhouGuangdong 514015China China Zebrafish Resource Center National Aquatic Biological Resource CenterState Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of ScienceWuhanHubei 430072China Shenzhen Branch Guangdong Laboratory for Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhenGuangdong 518116China State Key Laboratory of Quality Research in Chinese Medicine Institute of Chinese Medical SciencesUniversity of MacaoMacaoMacao 999078China Center for Aquatic Genomics College of Life SciencesNeijiang Normal UniversityNeijiangSichuan 641100China

Glass catfish(Kryptopterus vitreolus)are notable in the aquarium trade for their highly transparent body *** transparency is due to the loss of most reflective iridophores and light-absorbing melanophores in the main body,although certain black and silver pigments remain in the face and *** date,however,the molecular mechanisms underlying this transparent phenotype remain largely *** explore the genetic basis of this transparency,we constructed a chromosome-level haplotypic genome assembly for the glass catfish,encompassing 32 chromosomes and 23344 protein-coding genes,using PacBio and Hi-C sequencing technologies and standard assembly and annotation *** revealed a premature stop codon in the putative albinism-related tyrp1b gene,encoding tyrosinase-related protein 1,rendering it a nonfunctional ***,a synteny comparison with over 30 other fish species identified the loss of the endothelin-3(edn3b)gene in the glass catfish *** investigate the role of edn3b,we generated edn3b^(−/−)mutant zebrafish,which exhibited a remarkable reduction in black pigments in body surface stripes compared to wild-type *** findings indicate that edn3b loss contributes to the transparent phenotype of the glass *** high-quality chromosome-scale genome assembly and identification of key genes provide important molecular insights into the transparent phenotype of glass *** findings not only enhance our understanding of the molecular mechanisms underlying transparency in glass catfish,but also offer a valuable genetic resource for further research on pigmentation in various animal species.

关键词： Glass catfish Whole-genome sequencing edn3b−/−mutant Transparent phenotype

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Using induced pluripotent stem cells for modeling Parkinson’s disease

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World Journal of Stem Cells 2019年第9期11卷 634-649页

作者： Minjing Ke cheong-meng chong Huanxing Su State Key Laboratory of Quality Research in Chinese Medicine Institute of Chinese Medical Sciences University of Macao

Parkinson’s disease(PD)is an age-related neurodegenerative disease caused by the progressive loss of dopaminergic(DA)neurons in the substantia *** DA neurons degenerate,PD patients gradually lose their ability of *** date no effective therapies are available for the treatment of PD and its pathogenesis remains *** models that appropriately mimic the development of PD are certainly needed for gaining mechanistic insights into PD pathogenesis and identifying new therapeutic *** induced pluripotent stem cells(iPSCs)could provide a promising model for fundamental research and drug *** this review,we summarize various iPSCs-based PD models either derived from PD patients through reprogramming technology or established by gene-editing technology,and the promising application of iPSC-based PD models for mechanistic studies and drug testing.

关键词： Parkinson’s disease Dopaminergic neurons Induced pluripotent stem cells Somatic cell reprogramming Aging

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Chromosome-level genome assembly of the glass catfish (Kryptopterus vitreolus) reveals molecular clues to its transparent phenotype

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动物学研究 2024年第5期 1027页

作者： Chao Bian Rui-Han Li Zhi-Qiang Ruan Wei-Ting Chen Yu Huang Li-Yue Liu Hong-Ling Zhou cheong-meng chong Xi-Dong Mu Qiong Shi Laboratory of Aquatic Genomics College of Life Sciences and Oceanography Shenzhen University Key Laboratory of Prevention and Control for Aquatic Invasive Alien Species Ministry of Agriculture and Rural Affairs Guangdong Modern.Recreational Fisheries Engineering Technology Center Pearl River Fisheries Research Institute Chinese Academy of Fishery Sciences Shenzhen Key Lab of Marine Genomics Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals BGI Academy of Marine SciencesBGI Marine CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province Chengdu Institute of Biology Chinese Academy of Sciences School of Life Sciences Jiaying University China Zebrafish Resource Center National Aquatic Biological Resource Center State Key Laboratory of Freshwater Ecology and Biotechnology Institute of Hydrobiology Chinese Academy of Science Shenzhen Branch Guangdong Laboratory for Lingnan Modern Agriculture Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs Agricultural Genomics Institute at Shenzhen Chinese Academy of Agricultural Sciences State Key Laboratory of Quality Research in Chinese Medicine Institute of Chinese Medical Sciences University of Macau Center for Aquatic Genomics College of Life Sciences Neijiang Normal University

Glass catfish(Kryptopterus vitreolus) are notable in the aquarium trade for their highly transparent body *** transparency is due to the loss of most reflective iridophores and light-absorbing melanophores in the main body, although certain black and silver pigments remain in the face and head. To date, however, the molecular mechanisms underlying this transparent phenotype remain largely unknown. To explore the genetic basis of this transparency, we constructed a chromosome-level haplotypic genome assembly for the glass catfish,encompassing 32 chromosomes and 23 344 protein-coding genes, using PacBio and Hi-C sequencing technologies and standard assembly and annotation pipelines. Analysis revealed a premature stop codon in the putative albinismrelated tyrp1b gene, encoding tyrosinase-related protein 1,rendering it a nonfunctional pseudogene. Notably, a synteny comparison with over 30 other fish species identified the loss of the endothelin-3(edn3b) gene in the glass catfish genome. To investigate the role of edn3b, we generated edn3b-/-mutant zebrafish, which exhibited a remarkable reduction in black pigments in body surface stripes compared to wild-type zebrafish. These findings indicate that edn3b loss contributes to the transparent phenotype of the glass catfish. Our high-quality chromosome-scale genome assembly and identification of key genes provide important molecular insights into the transparent phenotype of glass catfish. These findings not only enhance our understanding of the molecular mechanisms underlying transparency in glass catfish, but also offer a valuable genetic resource for further research on pigmentation in various animal species.

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Transient Stability Analysis of Converter-based Islanded Microgrids Based on Iterative Equal Area Criterion Considering Reactive Power Loop Dynamics and Varying Damping

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Journal of Modern Power Systems and Clean Energy 2024年第4期12卷 1170-1182页

作者： Xilin Li Jingyi Zhang Zhen Tian Xiaoming Zha Wei Wang meng Huang chong Shao Hubei Key Laboratory of Power Equipment&System Security for Integrated Energy School of Electrical Engineering and AutomationWuhan UniversityWuhanChina NARI Technology Co. Ltd.NanjingChina State Grid Gansu Electric Power Company LanzhouChina

With the rapid increase in the installed capacity of renewable energy in modern power systems,the stable operation of power systems with considerable power electronic equipment requires further *** converter-based islanded mi-crogrid(CIM)systems equipped with grid-following(GFL)and grid-forming(GFM)voltage-source converters(VSCs),it is chal-lenging to maintain stability due to the mutual coupling effects between different VSCs and the loss of voltage and frequency sup-port from the power *** previous studies,quantitative transient stability analysis was primarily used to assess the active power loop of ***,frequency and voltage dy-namics are found to be strongly coupled,which strongly affects the estimation result of stability *** addition,the vary-ing damping terms have not been fully *** bridge these gaps,this paper investigates the transient stability of CIM consid-ering reactive power loop dynamics and varying ***,an accuracy-enhanced nonlinear model of the CIM is derived based on the effects of reactive power loop and post-disturbance frequency jump *** these effects will elimi-nates the risk of *** reactive power loop dynamics make the model coefficients be no longer constant and thus vary with the power *** evaluate quantitatively the effects of re-active power loop and varying damping on the transient stability of CIM,an iterative criterion based on the equal area criterion theory is *** addition,the effects of parameters on the stable boundary of power system are analyzed,and the dynamic interaction mechanisms are *** and experiment results verify the merits of the proposed method.

关键词： Transient stability converter iterative criterion reactive power loop post-disturbance frequency jump

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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 *** 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 *** 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 *** 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 *** 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 *** 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 *** 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

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Advanced Strategies for Overcoming Endosomal/Lysosomal Barrier in Nanodrug Delivery

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Research 2024年第1期2023卷 315-337页

作者： chong Qiu Fei Xia Junzhe Zhang Qiaoli Shi Yuqing meng Chen Wang Huanhuan Pang Liwei Gu Chengchao Xu Qiuyan Guo Jigang Wang Artemisinin Research Center and Institute of Chinese Materia MedicaChina Academy of Chinese Medical SciencesBeijing 100700China Department of Nephrology and Shenzhen Clinical Research Centre for GeriatricsShenzhen People's HospitalThe First Affiliated HospitalSouthern University of Science and TechnologyShenzhenGuangdong 518020China

Nanocarriers have therapeutic potential to facilitate drug delivery,including biological agents,smallmolecule drugs,and nucleic ***,their efficiency is limited by several factors;among which,endosomal/lysosomal degradation after endocytosis is the most *** review summarizes advanced strategies for overcoming endosomal/lysosomal barriers to efficient nanodrug delivery based on the perspective of cellular uptake and intracellular transport *** strategies include promoting endosomal/lysosomal escape,using non-endocytic methods of delivery to directly cross the cell membrane to evade endosomes/lysosomes and making a detour pathway to evade endosomes/*** the basis of the findings of this review,we proposed several promising strategies for overcoming endosomal/lysosomal barriers through the smarter and more efficient design of nanodrug delivery systems for future clinical applications.

关键词： somal drugs finding

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DLX3(Q178R)mutation delays osteogenic differentiation via H19/miR-29c-3p/KDM5B axis in TDO-iPSCs-derived MSCs

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Genes & Diseases 2024年第4期11卷 49-52页

作者： Liying Dong Na Zhao Dongmei Wang meng Wang Yixin Zhang Liangjie Sun chong Ding Yixiang Wang Zeyun Ma Central Laboratory Peking University School and Hospital of StomatologyBeijing 100081China Department of Oral and Maxillofacial Surgery Peking University School and Hospital of StomatologyBeijing 100081China National Engineering Laboratory for Digital and Material Technology of Stomatology Peking University School and Hospital of StomatologyBeijing 100081China Beijing Key Laboratory of Digital Stomatology Peking University School and Hospital of StomatologyBeijing 100081China The Second Clinical Division Peking University School and Hospital of StomatologyBeijing 100081China Department of VIP Service Peking University School and Hospital of StomatologyBeijing 100081China Department of Restorative Dentistry and Biomaterials Sciences Harvard School of Dental MedicineBostonMA 02115USA Department of Prosthodontics Fudan UniversityShanghai 200001China Shanghai Key Laboratory of Craniomaxillofacial Development and Diseases Shanghai Stomatological HospitalFudan UniversityShanghai 200001China

Tricho-dento-osseous(TDO)syndrome is a rare autosomal dominant disease resulting from distal-less homeobox 3(DLX3)mutation.1,2 Accumulative bone density in alveolar bone is a clinically favorable phenotype for TDO ***... 详细信息

关键词： patients clinically alveolar

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A comparative study of the pore characteristics and phenol adsorption performance of activated carbons prepared from oil-palm shell wastes by steam and combined steam-chemical activation

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Green Chemical Engineering 2024年第1期5卷 85-96页

作者： Aik chong Lua School of Mechanical and Aerospace Engineering Nanyang Technological University50 Nanyang AvenueSingapore639798Republic of Singapore

Oil-palm shell wastes were successfully converted into useful activated carbons in a systematic and novel approach by optimizing the pyrolysis conditions and subsequent steam activation conditions to maximize the BET surface *** optimal activation conditions were a steam flow rate of 1.13 kg/h,hold time of 1.5 h and temperature of 950℃,yielding BET areas of 1432.94 and 1382.95 m^(2)/g for nitrogen-pyrolyzed and vacuumpyrolyzed chars,*** steam-chemical activation,one-step activation of oil-palm shell in steam with potassium carbonate(K_(2)CO_(3)),sodium carbonate(Na_(2)CO_(3))or potassium chloride(KCl)was conducted,resulting in BET area output order of shell/K_(2)CO_(3)(710.56 m^(2)/g)>shell/KCl(498.55 m^(2)/g)>shell(366.7 m^(2)/g)>shell/Na_(2)CO_(3)(326.62 m^(2)/g).This study reported the first use of KCl and Na_(2)CO_(3)as chemical reagents in one-step steam-chemical activation of ***-activated carbon exhibited retardation of tar formation property,resulting in better pore development than pure steam activated *** adsorption of activated carbon is not only a function of the BET surface area but also the type of pyrolysis used prior to physical *** carbon(BET area of 1192.29 m^(2)/g)pyrolyzed under vacuum could adsorb 87%more phenol than that pyrolyzed in nitrogen flow which had a higher BET area of 1432.94 m^(2)/*** adsorption capacities of activated carbons are:shell pyrolyzed under vacuum(275.5 mg/g)>shell pyrolyzed in N_(2)flow(147.1 mg/g)>shell/K_(2)CO_(3)(145.7 mg/g)>shell without pyrolysis(12.1 mg/g).These activated carbons would be highly suitable in industry processes to remove phenolic contaminants.

关键词： Pore surface area Oil-palm shell Activated carbon Steam activation Phenol adsorption

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Toward tunable shape memory effect of NiTi alloy by grain size engineering:A phase field study

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Journal of Materials Science & Technology 2024年第1期168卷 276-289页

作者： Bo Xu chong Wang Qingyuan Wang Failure Mechanics and Engineering Disaster Prevention Key Laboratory of Sichuan ProvinceSichuan UniversityChengdu 610065China Department of Mechanical Science and Engineering College of Architecture and EnvironmentSichuan UniversityChengdu 610065China Key Laboratory of Deep Underground Science and Engineering (Sichuan University)Ministry of EducationChengdu 610065China

The inelastic deformations of shape memory alloys(SMAs)always show poor controllability due to the avalanche-like martensite transformation,and the effective control for the deformation of precision de-vices has been not yet *** this work,the phase field method was used to investigate the shape memory effects(SMEs)of NiTi SMAs undergoing grain size(GS)engineering,to obtain tunable one-way and stress-assisted two-way SMEs(OWSME and SATWSME).The OWSME and SATWSME of the systems with various gradient-nanograin structures and bimodal grain structure,as well as that with geometric gradients were *** simulated results indicate that due to the GS dependences of martensite transformation and reorientation,the occurrence and expansion of martensite reorientation,martensite transformation and its reverse can be efficaciously controlled via the GS *** combining the GS engineering and geometric gradient design,since the effects of GS and stress gradient can be su-perimposed or competing,and the responses of martensite reorientation,martensite transformation and its reverse to this are different,the OWSME and SATWSME of the geometrically graded systems with various nanograin structures can exhibit different improvements in *** short,the reorienta-tion hardening modulus during OWSME is increased and the transformation temperature window during SATWSME is widened by GS engineering,indicating the improved controllability of *** optimal GS engineering schemes revealed in this work provide the basic reference and guidance for designing tun-able SMEs and producing NiTi-based driving devices catering to desired functional performance in various engineering fields.

关键词： Phase field NiTi Shape memory effect Grain size engineering Geometric gradient

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Lesson Learned from COVID-19 Retrospective Study: An Entropy-Based Clinical-Interpretable Scorecard for Mortality Risk Control at ICU Admission

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Tsinghua Science and Technology 2024年第1期29卷 34-45页

作者： chong Yao chonghui Huangqi Anpeng Huang Laboratory of Network Information Security Beihang UniversityBeijing 100191China Andrew and Erna Viterbi School of Engineering University of Southern CaliforniaLos AnglesCA 90089USA Beijing Goodwill Information and Technology Co. Ltd.and Mobile Health LaboratoryPeking UniversityBeijing 100871China

With severe acute respiratory syndrome coronavirus 2 spreading globally and causing 2019 coronavirus disease(COVID-19),a challenge that we unprepared for was about how to optimally plan and distribute limited top-medical resources for patients in need of urgent *** address this challenge,physicians desperately needed a scientific tool to methodically differentiate between cases with varying *** this study,the unique data of COVID-19 intensive care unit(ICU)patients provided by the national medical team in Wuhan were classified into discrete and continuous variable *** continuous data were discretized using an entropy-based method and transformed into serial information margins,in which each information margin is related to a specific symptom or clinical ***,all these native and processed discrete data were used to configure a readable scorecard through logistic regression,which is the desired scientific tool aforementioned.A total of 322 ICU patients(age:[median:64,interquartile range:54-75],males:178[55.28%],and death:72[22.36%])were included in the *** of mortality in COVID-19 patients can be evaluated using a scorecard model(calibration slope:1.343,Brier:0.048,Dxy=0.972,and population stability index=0.071),with desired model performances(accuracy=0.948,area under curve=0.99,sensitivity=1,and specificity=0.939).This new model can interpret clinical meanings from complex data,and compare it with existing machine learning methods through a black-box *** new data-information model answers a critical question of how a computing algorithm produces clinically meaningful results that will help physicians logically allocate medical resources for COVID-19 ***,this tool has limitations,giving that this research is a retrospective ***,this tool will be tested further and optimized for adaptation to similar clinical cases in the future.

关键词： COVID-19 scorecard clinical-interpretable machine learning ICU admission control

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