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CircPTEN-MT from PTEN regulates mitochondrial energy metabolism

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Journal of Genetics and Genomics 2024年第5期51卷 531-542页

作者： Danhui Ruan Jiancheng Xu Yang Liu Juan Luo Xuyang Zhao Yuhua Li Guangxi Wang Jiawen Feng Hui Liang Yue Yin Jianyuan Luo Yuxin Yin institute of systems Biomedicine Department of PathologySchool of Basic Medical SciencesBeijing Key Laboratory of Tumor Systems BiologyPeking University International Cancer InstitutePeking-Tsinghua Center of Life SciencesPeking University Health Science CenterBeijing 100191China institute of Precision Medicine Peking University Shenzhen HospitalShenzhenGuangdong 518036China Department of Pharmacology School of Basic Medical SciencesPeking University Health Science CenterBeijing 100191China Department of Medical Genetics Center for Medical GeneticsSchool of Basic Medical SciencesPeking University Health Science CenterBeijing 100191China Soochow university Cancer institute SuzhouJiangsu 215127China

Phosphatase and tensin homolog(PTEN)is a multifunctional gene involved in a variety of physiological and pathological *** RNAs(circRNAs)are generated from back-splicing events during mRNA processing and participate in cell biological processes through binding to RNAs or ***,PTEN-related circRNAs are largely ***,we report that circPTEN-mitochondria(MT)(hsa_circ_0002934)is a circular RNA encoded by exons 3,4,and 5 of PTEN and is a critical regulator of mitochondrial energy ***-MT is localized to mitochondria and physically associated with leucine-rich pentatricopeptide repeat-containing protein(LRPPRC),which regulates posttranscriptional gene expression in *** down circPTEN-MT reduces the interaction of LRPPRC and steroid receptor RNA activator(SRA)stem-loop interacting RNA binding protein(SLIRP)and inhibits the polyadenylation of mitochondrial mRNA,which decreases the mRNA level of the mitochondrial complex I subunit and reduces mitochondrial membrane potential and adenosine triphosphate *** data demonstrate that circPTEN-MT is an important regulator of cellular energy *** study expands our understanding of the role of PTEN,which produces both linear and circular RNAs with different and independent functions.

关键词： Circular RNA LRPPRC Mitochondrial energy metabolism mtDNA post-transcriptional regulation

Immune functions of C-type lectins in medical arthropods

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Insect Science 2024年第3期31卷 652-662页

作者： Zhihao Ming Zhiqiang Chen Hao Tong Xia Zhou Tingting Feng Jianfeng Dai institute of biology and Medical Sciences Jiangsu Key Laboratory of Infection and ImmunitySoochow UniversitySuzhouJiangsu ProvinceChina School of biology and Basic Medical Science Suzhou Medical College of Soochow UniversitySuzhouJiangsu ProvinceChina

C-type lectins(CTLs)are a family of proteins that contain 1 or more carbohydrate-recognition domains(CRDs)and bind to a broad repertoire of ligands in the presence of calcium *** play important roles in innate immune defenses against microorganisms by acting as pattern-recognition receptors(PRRs)for invading pathogens,such as bacteria,viruses,and *** binding to pathogen-associated ligands,CTLs mediate immune responses,such as agglutination,phagocytosis,and the activation of phenol oxidase progenitors,thereby clearing *** are an evolutionarily conserved family found in almost all vertebrates and *** arthropods can acquire and transmit a range pathogens through various approaches,such as bloodsucking,lancing,and parasitism,thus infecting humans and animals with related diseases,some of which can be *** studies have shown that lectins are important components of the arthropod immune system and are essential for the immune responses of arthropods to arthropod-borne *** article reviews the current understanding of the structure,function,and signaling pathways involved in CTLs derived from important medical arthropods.

关键词： arthropod C-type lectin innate immunity vector-borne disease

N6-methyladenosine facilitates mitochondrial fusion of colorectal cancer cells via induction of GSH synthesis and stabilization of OPA1 mRNA

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National Science Review 2024年第3期11卷 72-91页

作者： Jiawang Zhou Haisheng Zhang Ke Zhong Lijun Tao Yu Lin Guoyou Xie Yonghuang Tan You Wu Yunqing Lu Zhuojia Chen Jiexin Li Xin Deng Qin Peng Zigang Li Hongsheng Wang Guangdong Provincial Key Laboratory of New Drug Design and Evaluation School of Pharmaceutical Sciences Sun Yat-sen University Sun Yat-sen university Cancer Center State Key Laboratory of Oncology in South China and Collaborative Innovation Center for Cancer Medicine Department of Biomedical Sciences City University of Hong Kong institute of systems and Physical biology Shenzhen Bay Laboratory

Mitochondria undergo fission and fusion that are critical for cell survival and cancer development, while the regulatory factors for mitochondrial dynamics remain elusive. Herein we found that RNA m6A accelerated mitochondria fusion of colorectal cancer（CRC） cells. Metabolomics analysis and function studies indicated that m6A triggered the generation of glutathione（GSH） via the upregulation of RRM2B——a p53-inducible ribonucleotide reductase subunit with anti-reactive oxygen species potential. This in turn resulted in the mitochondria fusion of CRC cells. Mechanistically, m6A methylation of A1240 at 3 UTR of RRM2B increased its m RNA stability via binding with IGF2BP2. Similarly, m6A methylation of A2212 at the coding sequence（CDS） of OPA1——an essential GTPase protein for mitochondrial inner membrane fusion——also increased m RNA stability and triggered mitochondria fusion. Targeting m6A through the methyltransferase inhibitor STM2457 or the dm6ACRISPR system significantly suppressed mitochondria fusion. In vivo and clinical data confirmed the positive roles of the m6A/mitochondrial dynamics in tumor growth and CRC progression. Collectively, m6A promoted mitochondria fusion via induction of GSH synthesis and OPA1 expression, which facilitated cancer cell growth and CRC development.

关键词： m6A mitochondrial fusion glutathione OPA1 colorectal cancer

Distributed scheduling for multi-energy synergy system considering renewable energy generations and plug-in electric vehicles:A level-based coupled optimization method

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Energy and AI 2024年第2期16卷 213-226页

作者： Linxin Zhang Zhile Yang Qinge Xiao Yuanjun Guo Zuobin Ying Tianyu Hu Xiandong Xu Sohail Khan Kang Li Faculty of Data Science City University of MacaoTaipa999078Macao Shenzhen institute of Advanced Technology Chinese Academy of SciencesShenzhenGuangdong518055China Tianjin university Tianjin 300072China School of Electronic and Electrical Engineering University of LeedsLeedsLS29JTUK institute of Applied Sciences&Technology Pak-Austria FachhochschuleHaripurKhyber PakhtunkhwaPakistan

Multi-energy synergy systems integrating high-penetration large-scale plug-in electric vehicles, distributed renewable energy generations, and battery energy storage systems have great potential to reduce the reliance of the grid on traditional fossil fuels. However, the random charging characteristics of plug-in electric vehicles and the uncertainty of photovoltaics may impose an additional burden on the grid and affect the supply–demand equilibrium. To address this issue, judicious scheduling optimization offers an effective solution. In this study, considering charge and discharge management of plug-in electric vehicles and intermittent photovoltaics, a novel Multi-energy synergy systems scheduling framework is developed for solving grid instability and unreliability issues. This formulates a large-scale mixed-integer problem, which calls for a powerful and effective optimizer. The new binary level-based learning optimization algorithm is proposed to address nonlinear large-scale high-coupling unit commitment problems. To investigate the feasibility of the proposed scheme, numerical experiments have been carried out considering multiple scales of unit numbers and various scenarios. Finally, the results confirm that the proposed scheduling framework is reasonable and effective in solving unit commitment problems, can achieve 3.3% cost reduction and demonstrates superior performance in handling large-scale energy optimization problems. The integration of plug-in electric vehicles, distributed renewable energy generations, and battery energy storage systems is verified to reduce the output power of 192.72 MW units during peak periods to improve grid stability. Therefore, optimizing energy utilization and distribution will become an indispensable part of future power systems.

关键词： Electric vehicle Unit commitment Renewable energy Battery energy storage system Synergy optimization

Antibacterial properties of cerium oxide nanoparticles:Recent progresses and future challenges

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Particuology 2024年第10期93卷 264-283页

作者： Heishu Zheng Jiajing Tang Yanhua Wei Xi Deng Yingjuan Zhang Xiangyu Ma Xudong Jiang Zhi Ping Xu Hongbing Liao College&Hospital of Stomatology Guangxi Medical UniversityNanning530021China Guangxi Key Laboratory of Oral and Maxillofacial Rehabilitation and Reconstruction Guangxi Medical UniversityNanning530021China The First Affiliated Hospital of Guangxi Medical university Nanning530021China School of Medicine Guangxi University of Science and TechnologyLiuzhou545005China institute of Biomedical Health Technology and Engineering and institute of systems and Physical biology Shenzhen Bay LaboratoryShenzhen518107China Australian institute for Bioengineering and Nanotechnology(Bld 75) The University of QueenslandSt LuciaQueensland 4074Australia

Use of cerium oxide nanoparticles(CeO_(2) NPs)to optimize management of resistant microorganisms has received increasing attention due to non-specific activity of inorganic antibacterial *** the mechanism of action is essential to elucidating the antibacterial activity of CeO_(2) NPs against ***,this review aims to summarize the antibacterial mechanisms of CeO_(2) NPs and correlate the structural and physicochemical properties of CeO_(2) NPs to their antibacterial *** further summarize the strategies for the improvement of the antibacterial performance of CeO_(2) NPs and provide our opinions for future challenges as a conclusion.

关键词： Nanoparticles Cerium oxide Antibacterial activity Nanozyme Fenton reaction

A framework for dynamic modelling of railway track switches considering the switch blades,actuators and control systems

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Railway Engineering Science 2024年第2期32卷 162-176页

作者： Saikat Dutta Tim Harrison Christopher Ward Roger Dixon Phil Winship institute of Thermofluids School of Mechanical EngineeringUniversity of LeedsLeedsWest YorkshireUK Wolfson School of Mechanical Electrical and Manufacturing EngineeringLoughborough UniversityLoughboroughLeicestershireUK Birmingham Centre for Railway Research and Education School of EngineeringUniversity of BirminghamBirminghamWest MidlandsUK Network Rail Milton KeynesBuckinghamshireUK

The main contribution of this paper is the development and demonstration of a novel methodology that can be followed to develop a simulation twin of a railway track switch system to test the functionality in a digital *** is important because,globally,railway track switches are used to allow trains to change routes;they are a key part of all railway ***,because track switches are single points of failure and safety-critical,their inability to operate correctly can cause significant delays and concomitant *** order to better understand the dynamic behaviour of switches during operation,this paper has developed a full simulation twin of a complete track switch *** approach fuses finite element for the rail bending and motion,with physics-based models of the electromechanical actuator system and the control ***,it provides researchers and engineers the opportunity to explore and understand the design space around the dynamic operation of new switches and switch machines before they are *** is useful for looking at the modification or monitoring of existing switches,and it becomes even more important when new switch concepts are being considered and *** simulation is capable of running in real time or faster meaning designs can be iterated and checked *** paper describes the modelling approach,demonstrates the methodology by developing the system model for a novel“REPOINT”switch system,and evaluates the system level performance against the dynamic performance requirements for the *** the context of that case study,it is found that the proposed new actuation system as designed can meet(and exceed)the system performance requirements,and that the fault tolerance built into the actuation ensures continued operation after a single actuator failure.

关键词： Railway track switch Mathematical modelling Redundant actuation Finite element analysis

Simultaneously quantifying hundreds of acylcarnitines in multiple biological matrices within ten minutes using ultrahigh-performance liquid-chromatography and tandem mass spectrometry

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Journal of Pharmaceutical Analysis 2024年第1期14卷 140-148页

作者： Jingxian Zhang Qinsheng Chen Lianglong Zhang Biru Shi Men Yu Qingxia Huang Huiru Tang State Key Laboratory of Genetic Engineering School of Life SciencesHuman Phenome InstituteZhangjiang Fudan International Innovation CenterMetabonomics and Systems Biology Laboratory at Shanghai International Centre for Molecular PhenomicsZhongshan HospitalFudan UniversityShanghai200032China Wuhan Laboratory for Shanghai Metabolome institute(SMI)Ltd. Wuhan430000China

Acylcarnitines are metabolic intermediates of fatty acids and branched-chain amino acids having vital biofunctions and pathophysiological significances. Here, we developed a high-throughput method for quantifying hundreds of acylcarnitines in one run using ultrahigh performance liquid chromatography and tandem mass spectrometry (UPLC-MS/MS). This enabled simultaneous quantification of 1136 acylcarnitines (C0–C26) within 10-min with good sensitivity (limit of detection 0.992), accuracy (relative error 0.998) for predicting retention time (tR) of acylcarnitines with no standards and built a database of their multiple reaction monitoring parameters (tR, ion-pairs, and collision energy). Furthermore, we quantified 514 acylcarnitines in human plasma and urine, mouse kidney, liver, heart, lung, and muscle. This provides a rapid method for quantifying acylcarnitines in multiple biological matrices.

关键词： Acylcarnitine UPLC-MS/MS Quantitative structure-retention relationship Molecular phenotype

Structural insights into AtABCG25,an angiosperm-specific abscisic acid exporter

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Plant Communications 2024年第1期5卷 284-295页

作者： Jian Xin Yeling Zhou Yichun Qiu He Geng Yuzhu Wang Yi Song Jiansheng Liang Kaige Yan Department of Chemical biology School of Life SciencesSouthern University of Science and TechnologyShenzhen 518055China institute of Plant and Food Science Department of BiologySchool of Life SciencesSouthern University of Science and TechnologyShenzhen 518055China Max Planck institute of Molecular Plant Physiology Potsdam-GolmGermany institute for Biological Electron Microscopy Southern University of Science and TechnologyShenzhenGuangdongChina

Cellular hormone homeostasis is essential for precise spatial and temporal signaling responses and *** acid(ABA)plays pivotal roles in orchestrating various developmental and stress re-sponses and confersfitness benefits over ecological and evolutionary timescales in terrestrial *** ABA level is regulated by complex processes,including biosynthesis,catabolism,and ***25 is thefirst ABA exporter identified through genetic screening and affects diverse ABA *** the structural basis of ABA export by ABCG25 is critical for further manipulations of ABA homeostasis and *** used cryo-electron microscopy to elucidate the structural dynamics of AtABCG25 and successfully characterized different states,including apo AtABCG25,ABA-bound AtABCG25,and ATP-bound AtABCG25(E232Q).Notably,AtABCG25 forms a homodimer that fea-tures a deep,slit-like cavity in the transmembrane domain,and we precisely characterized the critical residues in the cavity where ABA *** binding triggers closure of the nucleotide-binding domains and conformational transitions in the transmembrane *** show that AtABCG25 belongs to a conserved ABCG subfamily that originated during the evolution of *** subfamily neofunctionalized to regulate seed germination via the endosperm,in concert with the evolution of this angio-sperm-specific,embryo-nourishing ***,thesefindings provide valuable insights into the intricate substrate recognition and transport mechanisms of the ABA exporter AtABCG25,paving the way for genetic manipulation of ABA homeostasis and plantfitness.

关键词： AtABCG25 abscisic acid ABC transporters cryo-EM structure

DIProT:A deep learning based interactive toolkit for efficient and effective Protein design

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Synthetic and systems Biotechnology 2024年第2期9卷 217-222页

作者： Jieling He Wenxu Wu Xiaowo Wang Ministry of Education Key Laboratory of Bioinformatics Center for Synthetic and Systems BiologyBioinformatics DivisionBeijing National Research Center for Information Science and TechnologyDepartment of AutomationTsinghua UniversityBeijingChina

The protein inverse folding problem,designing amino acid sequences that fold into desired protein structures,is a critical challenge in biological *** numerous data-driven and knowledge-driven methods,there remains a need for a user-friendly toolkit that effectively integrates these approaches for in-silico protein *** this paper,we present DIProT,an interactive protein design *** leverages a non-autoregressive deep generative model to solve the inverse folding problem,combined with a protein structure prediction *** integration allows users to incorporate prior knowledge into the design process,evaluate designs in silico,and form a virtual design loop with human *** inverse folding model demonstrates competitive performance in terms of effectiveness and efficiency on TS50 and CATH4.2 datasets,with promising sequence recovery and inference *** studies further illustrate how DIProT can facilitate user-guided protein design.

关键词： Computational Protein design Interactive design toolkit Protein inverse folding Non-autoregressive decoding