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Single-cell omics: experimental workflow, data analyses and applications

science China life sciences 2025年第1期68卷 5-102页

作者： Fengying Sun Haoyan Li Dongqing Sun Shaliu Fu Lei Gu Xin Shao Qinqin Wang Xin Dong Bin Duan Feiyang Xing Jun Wu Minmin Xiao Fangqing Zhao Jing-Dong J.Han Qi Liu Xiaohui Fan Chen Li Chenfei Wang Tieliu Shi Department of Clinical Laboratory the Affiliated Wuhu Hospital of East China Normal University (The Second People's Hospital of Wuhu City) Pharmaceutical Informatics institute College of Pharmaceutical SciencesZhejiang University Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration (Tongji University) Ministry of EducationOrthopaedic DepartmentTongji HospitalBioinformatics DepartmentSchool of Life Sciences and TechnologyTongji University Frontier science Center for Stem Cells School of Life Sciences and TechnologyTongji University Translational Medical Center for Stem Cell Therapy and institute for Regenerative Medicine Shanghai East HospitalBioinformatics DepartmentSchool of Life Sciences and TechnologyTongji University Research institute of Intelligent Computing Zhejiang Lab Shanghai Research institute for Intelligent Autonomous Systems Center for Single-cell Omics School of Public HealthShanghai Jiao Tong University School of Medicine National Key Laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River DeltaZhejiang University Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biologythe Institute of Biomedical Sciences and School of Life SciencesEast China Normal University Beijing institutes of life science Chinese Academy of Sciences Peking-Tsinghua Center for life sciences Academy for Advanced Interdisciplinary StudiesCenter for Quantitative Biology (CQB)Peking University Zhejiang Key Laboratory of Precision Diagnosis and Therapy for Major Gynecological Diseases Women's HospitalZhejiang University School of Medicine Key Laboratory of Advanced Theory and Application in Statistics and Data science-MOE School of StatisticsEast China Normal University

Cells are the fundamental units of biological systems and exhibit unique development trajectories and molecular features. Our exploration of how the genomes orchestrate the formation and maintenance of each cell, and control the cellular phenotypes of various organismsis, is both captivating and intricate. Since the inception of the first single-cell RNA technology, technologies related to single-cell sequencing have experienced rapid advancements in recent years. These technologies have expanded horizontally to include single-cell genome, epigenome,proteome, and metabolome, while vertically, they have progressed to integrate multiple omics data and incorporate additional information such as spatial sc RNA-seq and CRISPR screening. Single-cell omics represent a groundbreaking advancement in the biomedical field,offering profound insights into the understanding of complex diseases, including cancers. Here, we comprehensively summarize recent advances in single-cell omics technologies, with a specific focus on the methodology section. This overview aims to guide researchers in selecting appropriate methods for single-cell sequencing and related data analysis.

关键词： single-cell sequencing genome epigenome proteomics metabolomics multimodal spatial transcriptomics CRISPR screening

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Tangled but ordered human mitochondrial tRNA maturation

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science China life sciences 2025年

作者： Shi-Ying Yao Xiao-Long Zhou Key Laboratory of RNA Innovation Science and Engineering CAS Center for Excellence in Molecular Cell Science Shanghai Institute of Biochemistry and Cell Biology Chinese Academy of Sciences University of Chinese Academy of Sciences Key Laboratory of Systems Health science of Zhejiang Province School of Life Science Hangzhou Institute for Advanced Study University of Chinese Academy of Sciences

Mitochondria are cellular organelles that originate from an endosymbiotic bacterial ancestor and are primarily responsible for ATP generation via oxidative phosphorylation (OXPHOS). OXPHOS is conducted by five mitochondrial respiratory complexes in the inner mitochondrial membrane. Human mitochondria possess a distinct genome, a small, circular, doublestranded DNA (mtDNA) of 16,569 base pairs.

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Enhanced post-combustion CO2 capture and direct air capture by plasma surface functionalization of graphene adsorbent

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Journal of Energy Chemistry 2025年第1期100卷 653-664页

作者： Rahul Navik Eryu Wang Xiao Ding Huang Yunyi Yiyu Liu Jia Li Guangdong-Hong Kong Joint Laboratory for Carbon Neutrality Jiangmen Laboratory of Carbon and Science and Technology Guangzhou HKUST Fok Ying Tung Research institute The Hong Kong University of science and Technology (Guangzhou) Carbon Neutrality and Climate Change Thrust Society Hub The Hong Kong University of Science and Technology (Guangzhou) Stoddart institute of Molecular science Department of Chemistry Zhejiang University

Graphene has enormous potential to capture CO2due to its unique properties and ***,graphene-based adsorbents have drawbacks of lower CO2adsorption capacity and poor *** work demonstrates a one-step rapid and sustainable N2/H2plasma treatment process to prepare graphene-based sorbent material with enhanced CO2adsorption *** treatment directly enriches amine species,increases surface area,and improves textural *** CO2adsorption capacity increases from 1.6 to 3.3 mmol/g for capturing flue gas,and from 0.14 to 1.3 mmol/g for direct air capture （DAC）.Importantly,the electrothermal property of the plasma-modified aerogels has been significantly improved,resulting in faster heating rates and significantly reducing energy consumption compared to conventional external heating for regeneration of *** aerogels display improved selectivity of 42 and 87 after plasma modification for 5 and 10 min,*** plasma-treated aerogels display minimal loss between 17%and 19% in capacity after 40 adsorption/desorption cycles,rendering excellent *** N2/H2plasma treatment of adsorbent materials would lower energy expenses and prevent negative effects on the global economy caused by climate change.

关键词： Carbon neutrality CO 2 capture Climate change Plasma treatment Graphene aerogel

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Meta-analysis of the Occurrence Characteristics and Influencing Factors of Microplastics in Agricultural Soil in China

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Huanjing Kexue/Environmental science 2025年第1期46卷 498-509页

作者： Wu, Ting Jiao, Yang-Yang Jiao, Hai-Hua School of life science Shanxi Normal University Taiyuan 030032 China Department of life sciences Changzhi University Changzhi 046011 China Henan institute of Advanced Technology Zhengzhou University Zhengzhou 450003 China

The potential threat of soil microplastics（MPs，particle sizes smaller than 5 mm）to the agricultural environment and food security production has become a hot issue，but there are few systematic studies on the characteristics and influencing factors of MP pollution in agricultural soil in China. Based on the data of soil MPs and related environmental factors（temperature，precipitation，soil pH，and organic carbon）and social and economic factors（permanent population，gross regional product per capita，gross industrial product per capita，and cultivated land area per capita）extracted from 6 694 samples from 85 published studies from 2020 to 2023，meta-analysis was performed. The characteristics of MPs pollution in agricultural soil and the key factors affecting the accumulation of MPs in soil in six administrative regions of China were analyzed. The results showed that soil MPs had six colors：（semi-）transparent，black，white，yellow，blue，green，and red. There were five kinds of shapes：fragment，fiber，film，particle，and foam. The particle size was between 0.01 and 5.0 mm. There were nine types of MPs：polyethylene（PE），polypropylene（PP），polystyrene（PS），polyester（PES），polyethylene terephthalate（PET），polyvinyl chloride （PVC），rayon（RY），polyacrylonitrile（PAN），and polyamide（PA）. The abundance gradient of soil MPs in different regions was as follows：South-central region > Northwest region > Southwest region > East China region > North China region > Northeast region. The（semi-）transparent（27.6%），fragmented（32.2%），0.01~0.5 mm（66.3%），and PE （37%）types of MPs had the highest detection rates. The characteristics of soil MPs are the result of natural environmental factors（temperature，precipitation，soil pH，organic carbon）and social factors（permanent population，gross regional product per capita，gross industrial product per capita，cultivated land area per capita）. © 2025 science Press. All rights reserved.

关键词： Polyvinyl chlorides

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High-energy-density lithium manganese iron phosphate for lithium-ion batteries: Progresses, challenges, and prospects

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Journal of Energy Chemistry 2025年第1期100卷 1-17页

作者： Bokun Zhang Xiaoyun Wang Shuai Wang Yan Li Libo Chen Handong Jiao Zhijing Yu Jiguo Tu State Key Laboratory of Advanced Metallurgy University of Science and Technology Beijing Research institute for Intelligent Wearable Systems The Hong Kong Polytechnic University institute of Advanced Structure Technology Beijing Institute of Technology

The soaring demand for smart portable electronics and electric vehicles is propelling the advancements in high-energy–density lithium-ion *** manganese iron phosphate (LiMnxFe1-xPO4) has garnered significant attention as a promising positive electrode material for lithium-ion batteries due to its advantages of low cost,high safety,long cycle life,high voltage,good high-temperature performance,and high energy *** LiMnxFe1-xPO4has made significant breakthroughs in the past few decades,there are still facing great challenges in poor electronic conductivity and Li-ion diffusion,manganese dissolution affecting battery cycling performance,as well as low tap *** review systematically summarizes the reaction mechanisms,various synthesis methods,and electrochemical properties of LiMnxFe1-xPO4to analyze reaction processes accurately and guide material ***,the main challenges currently faced are concluded,and the corresponding various modification strategies are discussed to enhance the reaction kinetics and electrochemical performance of LiMnxFe1-xPO4,including multi-scale particle regulation,heteroatom doping,surface coating,as well as microscopic morphology ***,in view of the current research challenges faced by intrinsic reaction processes,kinetics,and energy storage applications,the promising research directions are *** importantly,it is expected to provide key insights into the development of high-performance and stable LiMnxFe1-xPO4materials,to achieve practical energy storage requirements.

关键词： Semiconductor doping

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Dielectric-ion-conductive ZnNb2O6 layer enabling rapid desolvation and diffusion for dendrite-free Zn metal batteries

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Journal of Energy Chemistry 2025年第1期100卷 693-701页

作者： Haifeng Yang Jian Wang Panpan Zhang Xiaomin Cheng Qinghua Guan Jing Dong Bixian Chen Lujie Jia Jing Zhang Yongzheng Zhang Yunjian Liu Hongzhen Lin School of Materials science and Engineering Jiangsu University i-Lab & CAS Key Laboratory of Nanophotonic Materials and Devices Suzhou Institute of Nano-Tech and Nano-Bionics Chinese Academy of Sciences Helmholtz institute Ulm (HIU) Karlsruhe institute of Technology (KIT) School of Materials science and Engineering Xi'an University of Technology State Key Laboratory of Chemical Engineering East China University of Science and Technology

Rechargeable aqueous zinc-metal batteries （AZMBs） are promising candidates for large-scale energy storage systems due to their low cost and high ***,their performance and sustainability are significantly hindered by the sluggish desolvation kinetics at the electrode/electrolyte interface and the corresponding hydrogen evolution reaction where active water molecules tightly participate in the Zn（H2O）62+solvation ***,learnt from self-generated solid electrolyte interphase （SEI） in anodes,the dielectric but ion-conductive zinc niobate nanoparticles artificial layer is constructed on metallic Zn surface （ZNB@Zn）,acting as a rapid desolvation *** zincophilic and dielectric-conductive properties of ZNB layer accelerate interfacial desolvation/diffusion and suppress surface corrosion or dendrite formation,achieving uniform Zn plating/stripping behavior,as confirmed by electronic/optical microscopies and interface spectroscopical measurements together with theoretical ***,the as-prepared ZNB@Zn electrode exhibits excellent cycling stability of over 2000 h and robust reversibility （99.54%） even under high current density and depth of discharge ***,the assembled ZNB@Zn-based full cell displays high capacity-retention rate of 80.21%after 3000 cycles at 5 A g-1and outstanding rate performance up to 10 A *** large-areal pouch cell is stabilized for hundreds of cycles,highlighting the bright prospects of the dielectric but ion-conductive layer in further application of AZMBs.

关键词： Zn metal battery Dielectric artificial layer Rapid ion diffusion Zincophilic diffusion Active water inhibition

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Electrochemical sensor for dopamine detection based on multiwalled carbon nanotube/molybdenum disulfide quantum dots with machine learning integration and anti-interference capability

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Tungsten 2025年第1期7卷 137-151页

作者： Geethukrishnan Onkar Apte Kiran Kumar Tadi Energy Electrodics and Electrocatalysis (EEE) Lab Department of Chemistry School of Advanced Sciences Vellore Institute of Technology School of Computer science and Engineering Vellore Institute of Technology

The precise detection and measurement of dopamine（DA）,a crucial neurotransmitter in the human body,plays a significant role in diagnosing,preventing,and treating neurological diseases associated with its levels.A highly sensitive DA electrochemical sensor was constructed by combining molybdenum disulfide quantum dots（MSQDs） with multiwalled carbon nanotubes（MWCNTs）.The MSQDs were synthesized using the shear exfoliation *** sensors consist of MSQDs with Mo-S edge catalytic centers for the DA redox reaction,and MWCNTs amplify the sensor *** linearity of the sensor for the detection of DA was tested in the presence of ascorbic acid(AA,50 μmol·L-1) and uric acid(UA,200 μmol·L-1),and exhibited linearity from 2 to 966 μmol·L-1of DA with 0.097 μA(mol·L-1)-1sensitivity and a low limit of detection of0.6 μmol·L-1（the ratio between signal and noise,S/N=3）.Moreover,the sensitivity and selectivity of the sensor were also studied using *** is no increase in amperometric current after adding the most potentially interfering *** sensor was successfully applied to recover DA in human blood sera ***,machine learning algorithms were operated to aid in the near-precise detection of DA in the heterogeneous mixture containing AA and *** algorithms facilitate the identification and quantification of DA amidst coexisting interferents,including AA,that are commonly present in biological matrices.

关键词： Biosensor Complex mixture Dopamine Machine learning MoS2 Multiwalled carbon nanotubes

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Single-cell technologies: current and near future

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science China life sciences 2025年第1期68卷 1-4页

作者： Chenfei Wang Qi Liu Xiaohui Fan Tieliu Shi Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration Ministry of EducationOrthopedics DepartmentTongji HospitalBioinformatics DepartmentSchool of Life Sciences and TechnologyTongji University Frontier science Center for Stem Cells School of Life Sciences and TechnologyTongji University Translational Medical Center for Stem Cell Therapy and institute for Regenerative Medicine Shanghai East HospitalBioinformatics DepartmentSchool of Life Sciences and TechnologyTongji University Research institute of Intelligent Computing Zhejiang Lab Pharmaceutical Informatics institute College of Pharmaceutical SciencesZhejiang University National Key Laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River DeltaZhejiang University Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biologythe Institute of Biomedical Sciences and School of Life SciencesEast China Normal University Key Laboratory of Advanced Theory and Application in Statistics and Data science (MOE) School of StatisticsEast China Normal University

Single-cell technologies enable the indepth exploration of multiple biological hierarchies at the scale of individual cells,which have deepened our knowledge of cellular diversity, tissue organization, and overall organism function(Sun et al.,2024). In 2009, single-cell RNA sequencing(sc RNA-seq) was first developed as a powerful tool to dissect gene expression and uncover transcriptional *** the rapid advancement of technology, single-cell approaches have expanded to encompass other omics, such as genomics, epigenomics, proteomics,and metabolomics.

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Asking one mechanism in glial cells during neuroinflammation

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Neural Regeneration Research 2025年第4期20卷 1077-1078页

作者： Xiaoli Guo Chikako Harada Takayuki Harada Visual Research Project Tokyo Metropolitan Institute of Medical ScienceTokyoJapan

Multiple sclerosis(MS),which is characterized by inflammatory demyelination in the central nervous system(CNS),is the most common neurological disease in the young adult *** autoimmune encephalomyelitis(EAE),an animal model of MS,is often used in preclinical *** data indicate that in addition to immune cells such as T cells and dendritic cells,CNS resident microglia and astrocytes play important roles in demyelinating neuroinflammation(Healy et al.,2022).In particular,microglia are key immune-competent cells that can respond to environmental *** depletion of transforming growth factor-β-activated kinase 1,a mitogen-associated protein kinase kinase kinase,in microglia is reported to reduce CNS inflammation and diminish axonal and myelin damage *** suggests that elucidating the mechanisms of microglia-specific responses during pathologies may help in the development of treatments that reduce EAE/MS disease severity(Goldmann et al.,2013).

关键词： inflammation clinical

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Monogenic gene therapy for glaucoma and optic nerve injury

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Neural Regeneration Research 2025年第3期20卷 815-816页

作者： Chikako Harada Xiaoli Guo Takayuki Harada Visual Research Project Tokyo Metropolitan Institute of Medical ScienceTokyoJapan

The prevalence of glaucoma, the second leading cause of global blindness, is increasing due to aging populations. In glaucoma, degeneration of the optic nerve and retinal ganglion cells(RGCs) causes visual field defec... 详细信息

关键词： visual glaucoma degeneration

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