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6-Phosphogluconate dehydrogenase 2 bridges the OPP and shikimate pathways to enhance aromatic amino acid production in plants

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Science China Life Sciences 2024年

作者： Qian Tang Yuxin Huang Zhuanglin Shen Linhui Sun Yang Gu Huiqing He Yanhong Chen Jiahai Zhou Limin Zhang Cuihuan Zhao Shisong Ma Yunhai Li Jie Wu Qiao Zhao Shenzhen key laboratory of synthetic Genomics Guangdong Provincial Key Laboratory of Synthetic Genomics Key Laboratory of Quantitative Synthetic Biology Shenzhen Institute of Synthetic BiologyShenzhen Institute of Advanced Technology Chinese Academy of Sciences University of Chinese Academy of Sciences CAS key laboratory for Quantitative Engineering Biology Shenzhen Institute of Synthetic Biology Shenzhen Institute of Advanced Technology Chinese Academy of Sciences key laboratory of Quantitative synthetic Biology Shenzhen Institute of Synthetic Biology Shenzhen Institute of Advanced Technology Chinese Academy of Sciences key laboratory of Agricultural Microbiology of Heilongjiang Province Northeast Agricultural University Center for Plant Biology School of Life Sciences Tsinghua University State key laboratory of Plant Cell and Chromosome Engineering CAS Centre for Excellence in Molecular Plant Biology Institute of Genetics and Developmental Biology The Innovative Academy of Seed Design Chinese Academy of Sciences moe key laboratory for Membraneless Organelles and Cellular Dynamics School of Life Sciences University of Science and Technology of China Innovation Academy for Seed Design Chinese Academy of Sciences

The oxidative pentose phosphate(OPP) pathway provides metabolic intermediates for the shikimate pathway and directs carbon flow to the biosynthesis of aromatic amino acids(AAAs), which serve as basic protein building blocks and precursors of numerous metabolites essential for plant growth. However, genetic evidence linking the two pathways is largely unclear. In this study, we identified 6-phosphogluconate dehydrogenase 2(PGD2), the rate-limiting enzyme of the cytosolic OPP pathway, through suppressor screening of arogenate dehydrogenase 2(adh2) in Arabidopsis. Our data indicated that a single amino acid substitution at position 63(glutamic acid to lysine) of PGD2 enhanced its enzyme activity by facilitating the dissociation of products from the active site of PGD2, thus increasing the accumulation of AAAs and partially restoring the defective phenotype of adh2. Phylogenetic analysis indicated that the point mutation occurred in a well-conserved amino acid residue. Plants with different amino acids at this conserved site of PGDs confer diverse catalytic activities, thus exhibiting distinct AAAs producing capability. These findings uncover the genetic link between the OPP pathway and AAAs biosynthesis through PGD2. The gain-of-function point mutation of PGD2 identified here could be considered as a potential engineering target to alter the metabolic flux for the production of AAAs and downstream compounds.

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Genome engineering of the human gut microbiome

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Journal of Genetics and Genomics 2024年第5期51卷 479-491页

作者： Linggang Zheng Juntao Shen Ruiyue Chen Yucan Hu Wei Zhao Elaine Lai-Han Leung Lei Dai Dr Neher's Biophysics laboratory for Innovative Drug Discovery/State key laboratory of Quality Research in Chinese Medicine Macao University of Science and TechnologyTaipaMacao 999078China CAS key laboratory of Quantitative Engineering Biology Shenzhen Institute of Synthetic BiologyShenzhen Institutes of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China University of Chinese Academy of Sciences Beijing 100049China Cancer Center Faculty of Health ScienceUniversity of MacaoMacao 999078China moe Frontiers Science Center for Precision Oncology University of MacaoMacao 999078China

The human gut microbiome,a complex ecosystem,significantly influences host health,impacting crucial aspects such as metabolism and immunity.To enhance our comprehension and control of the molecular mechanisms orchestrating the intricate interplay between gut commensal bacteria and human health,the exploration of genome engineering for gut microbes is a promising frontier.Nevertheless,the complexities and diversities inherent in the gut microbiome pose substantial challenges to the development of effective genome engineering tools for human gut microbes.In this comprehensive review,we provide an overview of the current progress and challenges in genome engineering of human gut commensal bacteria,whether executed in vitro or in situ.A specific focus is directed towards the advancements and prospects in cargo DNA delivery and high-throughput techniques.Additionally,we elucidate the immense potential of genome engineering methods to enhance our understanding of the human gut microbiome and engineer the microorganisms to enhance human health.

关键词： Non-model gut commensals Genomeediting reagents Cargo delivery High-throughput genome engineering

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Biomimetic MXene membranes with negatively thermo-responsive switchable 2D nanochannels for graded molecular sieving

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Green Energy & Environment 2024年第6期9卷 1058-1067页

作者： Yi Wang Yangyang Wang Chang Liu Dongjian Shi Weifu Dong Baoliang Peng Liangliang Dong Mingqing Chen The key laboratory of synthetic and Biological Colloids Ministry of EducationSchool of Chemical and Material EngineeringJiangnan UniversityWuxiJiangsu214122China International Research Center for Photo-responsive Molecules and Materials Jiangnan UniversityWuxiJiangsu214122China Research Institute of Petroleum Exploration&Development(RIPED) PetroChina/Key Laboratory of Oilfield ChemistryCNPCBeijing100083China

Negatively thermo-responsive 2D membranes,which mimic the stomatal opening/closing of plants,have drawn substantial interest for tunable molecular separation processes.However,these membranes are still restricted significantly on account of low water permeability and poor dynamic tunability of 2D nanochannels under temperature stimulation.Here,we present a biomimetic negatively thermo-responsive MXene membrane by covalently grafting poly(N-isopropylacrylamide)(PNIPAm)onto MXene nanosheets.The uniformly grafted PNIPAm polymer chains can enlarge the interlayer spacings for increasing water permeability while also allowing more tunability of 2D nanochannels for enhancing the capability of gradually separating multiple molecules of different sizes.As expected,the constructed membrane exhibits ultrahigh water permeance of 95.6 L m^(-2) h^(-1) bar^(-1) at 25℃,which is eight-fold higher than the state-of-the-art negatively thermoresponsive 2D membranes.Moreover,the highly temperature-tunable 2D nanochannels enable the constructed membrane to perform excellent graded molecular sieving for dye-and antibiotic-based ternary mixtures.This strategy provides new perspectives in engineering smart 2D membrane and expands the scope of temperature-responsive membranes,showing promising applications in micro/nanofluidics and molecular separation.

关键词： Thermo-responsive 2D membrane MXene nanosheets PNIPAm Temperature-tunable 2D nanochannels Graded molecular sieving

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Auto-Detection Method Using Convolution Neural Network for Bottom-Simulating Reflectors

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Journal of Ocean University of China 2024年第3期23卷 683-694页

作者： XU Haowei XING Junhui YANG Boxue LIU Chuang key laboratory of Submarine Geosciences and Prospecting Techniques MOE and College of Marine GeosciencesOcean University of ChinaQingdao 266100China laboratory for Marine Mineral Resources Qingdao National Laboratory for Marine Science and TechnologyQingdao 266071China

In studies on gas hydrate,bottom-simulating reflectors(BSR)are used to determine the potential hydrate-bearing sedimentary layers.Usually,BSR detection is performed manually by experienced interpreters.Therefore,a method for implementing an auto-matic BSR detection process should be established.In this study,we develop a novel architecture for BSR characterization using the convolutional neural network(CNN)technique.We propose the use of Stokes’transform(ST)to obtain a time-frequency spectrum for the input of CNN.ST fully uses the frequency content of the seismic data,and a part of the 3D seismic data collected from the Blake Ridge is utilized to train the CNN.synthetic seismic records with variable signal-to-noise ratios(SNR),as well as Blake Ridge seismic data,were used to validate the detection effect of the CNN.Results show that the CNN trained by this method exhibits excellent performance in noise-resistant testing and achieves an accuracy of more than 89% in field seismic data detection.

关键词： BSR CNN Stocks’transform gas hydrate Blake Ridge

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Level pinning of anti-PT-symmetric circuits for efficient wireless power transfer

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National Science Review 2024年第1期11卷 215-224页

作者： Zhiwei Guo Fengqing Yang Haiyan Zhang Xian Wu Qiong Wu Kejia Zhu Jun Jiang Haitao Jiang Yaping Yang Yunhui Li Hong Chen moe key laboratory of Advanced Micro-Structured Materials School of Physics Sciences and Engineering Tongji University Department of Electrical Engineering Tongji University School of Automotive Studies Tongji University

Wireless power transfer(WPT) technology based on magnetic resonance(a basic physical phenomenon)can directly transfer energy from the source to the load without wires and other physical contacts, and has been successfully applied to implantable medical devices, electric vehicles, robotic arms and other fields.However, due to the frequency splitting of near-field coupling, the resonant WPT system has some unique limitations, such as poor transmission stability and low efficiency. Here, we propose anti-resonance with level pinning for high-performance WPT. By introducing the anti-resonance mode into the basic WPT platform, we uncover the competition between dissipative coupling and coherent coupling to achieve novel level pinning, and construct an effective anti-parity-time(anti-PT)-symmetric non-Hermitian system that is superior to previous PT-symmetric WPT schemes. On the one hand, the eigenvalue of the anti-PT-symmetric system at resonance frequency is always pure real in both strong and weak coupling regions, and can be used to overcome the transmission efficiency decrease caused by weak coupling, as brought about by, for example, a large size ratio of the transmitter to receiver, or a long transmission distance.On the other hand, due to the level pinning effect of the two kinds of coupling mechanisms, the working frequency of the system is guaranteed to be locked, so frequency tracking is not required when the position and size of the receiver change. Even if the system deviates from the matching condition, an efficient WPT can be realized, thereby demonstrating the robustness of the level pinning. The experimental results show that when the size ratio of the transmitter coil to the receiver coil is 4.29(which is in the weak coupling region), the transfer efficiency of the anti-PT-symmetric system is nearly 4.3(3.2) times higher than that of the PT-symmetric system when the matching conditions are satisfied(deviated). With the miniaturization and integration of devices in mind, a synthetic anti-PT-symmetric sy

关键词： non-Hermitian system wireless power transfer anti-PT-symmetric circuits synthetic dimension metamaterials

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Real-time tracking of ER turnover during ERLAD by a rhenium complex via lifetime imaging

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National Science Review 2022年第7期9卷 80-87页

作者： Liang Hao Yu-Yi Ling Zhi-Xin Huang Zheng-Yin Pan Cai-Ping Tan Zong-Wan Mao moe key laboratory of bioinorganic and synthetic chemistry School of ChemistryState Key Laboratory of Oncology in South China Sun Yat-Sen University

Endoplasmic reticulum(ER) degradation by autophagy(ER-phagy) is a recently revealed selective autophagy pathway that plays important roles in organelle turnover and protein degradation,but the biological functions of ER-phagy are largely unknown.Here,we present an ER-targeting Re(I) tricarbonyl complex(Re-ERLAD) that can accumulate in the ER,induce ER-to-lys osome-associated degradation(ERLAD) upon visible light irradiation,and label ER buds and track their morphological alterations during ER-phagy.The emission of Re-ERLAD is sensitive to viscosity,which is a key parameter reflecting the amount of unfolded protein in the ER.Quantitative detection using two-photon fluorescence lifetime imaging microscopy shows that ER viscosity initially increases and then decreases during ERLAD,which reveals that ERLAD is a pathway for alleviating ER stress caused by unfolded proteins.In conclusion,our work presents the first specific photoinducer and tracker of ERLAD,which can be used in studying the regulatory mechanism and function of this process.

关键词： rhenium ER-phagy viscosity TPFLIM

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Catalytically generated noncovalent ammonium dienolate:a versatile platform for the development of organocatalytic asymmetric cascade reactions

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Science China chemistry 2024年第8期 2524-2546页

作者： Jun-Bing Lin Dong-Sheng Ji Peng-Fei Xu State key laboratory of Applied Organic chemistry College of Chemistry and Chemical Engineering Lanzhou University Shaanxi key laboratory of Chemical Reaction Engineering College of Chemistry and Chemical Engineering Yan'an University

Organocatalytic cascade reactions represent a powerful strategy for the rapid construction of complex chiral molecules with multiple stereocenters from simple substrates under mild conditions. The intriguing structural feature and diverse reactivity of catalytically generated dienolate species render them competent and versatile intermediates for the development of practical and valuable cascade reactions. Over the past years, a plethora of innovative and pioneering noncovalent ammonium dienolatemediated cascade reactions have been designed and implemented under the catalysis of chiral organocatalysts, making dienolate activation a general, robust, and complementary method for the functionalization of unsaturated carbonyl compounds and related substances. This review illustrates the recent advances in organocatalytic noncovalent ammonium dienolate-mediated cascade reactions(mainly from 2010 to 2023), including the cascade transformations of ammonium dienolates directly generated from unsaturated ketone/aldehyde, ester/lactone/azlactone, amide/lactam/pyrazolone/oxindole, and alkylidene nitrile compounds. The contents are arranged based on the reaction types of the ammonium dienolates, with an emphasis on cascade 2,5-, 3,5-, and 4,5-difunctionalizations of these intermediates. Furthermore, other cascade reactions involving the 1,3-, 2,3-, and even more complex 3,4,5-reactivities of ammonium dienolates were also discussed. The reaction pathway, reaction stereoinduction, and synthetic applications of the ammonium dienolate-mediated cascade reactions were highlighted throughout the article. As a stimulating and ever-growing research area, the organocatalytic noncovalent ammonium dienolate-mediated cascade reactions are expected to continue demonstrating their magic power for constructing chiral targets in the future and further expanding the boundaries of asymmetric catalysis.

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Unveiling non-radiative center control in CsPbBr_(3) nanocrystals:A comprehensive comparative analysis of hot injection and ligandassisted reprecipitation approaches

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Nano Research 2024年第5期17卷 4525-4534页

作者： Daocheng Hong Yuchen Zhang Shuhan Pan Hanyu Liu Wei Mao Wanli Zhang Yuhui Ye Zhihong Wei Xuxing Lu Xiaoyong Wang Zhenda Lu Yuxi Tian key laboratory for Advanced Technology in Environmental Protection of Jiangsu Province Yancheng Institute of TechnologyYancheng 224051China laboratory of Mesoscopic chemistry of moe School of Chemistry and Chemical EngineeringNanjing UniversityNanjing 210023China College of Engineering and Applied Sciences Nanjing UniversityNanjing 210023China National laboratory of Solid State Microstructures School of PhysicsCollaborative Innovation Center of Advanced MicrostructuresNanjing UniversityNanjing 210093China School of Electronic Electrical Engineering and PhysicsFujian University of TechnologyFuzhou 350118China

Metal-halide perovskite nanocrystals(NCs)have gained significant attention in the field of optoelectronic and photonic devices due to their promising applications.Despite their exceptional optical properties,the impact of different synthetic strategies on the fundamental nature of NCs,such as nonradiative recombination centers,remains poorly understood.In this study,we investigated the photophysical properties of CsPbBr_(3) NCs synthesized using two distinct methods,hot injection and ligand-assisted reprecipitation,at the individual particle level.We observed different blinking behaviors under specific photoexcitation power densities and proposed,through intensity-lifetime analysis and Monte-Carlo simulations,that these different synthetic strategies can fabricate NCs with similar crystal structures but distinct surface quenchers with varying energy levels,which significantly affected the photo-induced blinking-down and blinking-up behaviors in individual NCs.Our findings indicate a practical and feasible approach for controlling defect engineering in perovskite NCs,with significant implications for their use in optoelectronic and other technological applications.

关键词： metal-halide perovskite nanocrystals photophysical properties nonradiative recombination centers hot injection method ligand-assisted reprecipitation

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深低温保存下高效抗冻多肽的合理设计和机理探讨

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Engineering 2024年第3期34卷 164-173页

作者： Haishan Qi Yihang Gao Lin Zhang Zhongxin Cui Xiaojie Sui Jianfan Ma Jing Yang Zhiquan Shu Lei Zhang Department of Biochemical Engineering School of Chemical Engineering and TechnologyFrontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering(MOE)Tianjin UniversityTianjin 300350China School of Engineering and Technology University of Washington TacomaTacomaWA 98402USA

The development of effective antifreeze peptides to control ice growth has attracted a significant amount of attention yet still remains a great challenge.Here,we propose a novel design method based on in-depth investigation of repetitive motifs in various ice-binding proteins(IBPs)with evolution analysis.In this way,several peptides with notable antifreeze activity were developed.In particular,a designed antifreeze peptide named AVD exhibits ideal ice recrystallization inhibition(IRI),solubility,and biocompatibility,making it suitable for use as a cryoprotective agent(CPA).A mutation analysis and molecular dynamics(MD)simulations indicated that the Thr6 and Asn8 residues of the AVD peptide are fundamental to its ice-binding capacity,while the Ser18 residue can synergistically enhance their interaction with ice,revealing the antifreeze mechanism of AVD.Furthermore,to evaluate the cryoprotection potential of AVD,the peptide was successfully employed for the cryopreservation of various cells,which demonstrated significant post-freezing cell recovery.This work opens up a new avenue for designing antifreeze materials and provides peptide-based functional modules for synthetic biology.

关键词： Antifreeze peptides Evolution analysis Ice recrystallization inhibition Molecular dynamics simulation Cryopreservation synthetic biology

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Association analysis of an anti-obesity mechanism and key ripened Pu-erh tea bioactive components by mimicking human general tea drinking

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Food Science and Human Wellness 2024年

作者： Junyu Liu Zhengyang Song Haihong Chen Wen Zeng Guirong Han Wei Li Bing Xu Yuan Lu Canyang Zhang Zhenglian Xue Bin Lü Chong Zhang Song Yang Yi Wang Xinhui Xing Institute of Biomedical Health Technology and Engineering Shenzhen Bay Laboratory moe key laboratory for Industrial Biocatalysis Centre for synthetic and Systems Biology Department of Chemical Engineering Tsinghua University Shenzhen International Graduate School Tsinghua University Shandong Province key laboratory of Applied Mycology Qingdao International Center on Microbes Utilizing Biogas School of Life Sciences Qingdao Agricultural University Anhui University of Technology Yunnan Shujian Tea Co. Ltd.

Pu-erh tea， a traditional Chinese beverage， performs an anti-obesity function， but the correlation between its components and efficacy remains unknown. Here， we screened two Pu-erh teas with significant anti-obesity efficacies from 11 teas. In vitro experiments revealed that lipid accumulation in L02 cells and lipid synthesis in 3T3-L1 cells were significantly better inhibited by Tea-B than Tea-A. Further in vivo experiments using model mice revealed that the differences in chemical components generated two pathways in the anti-obesity efficacy and mechanism of Pu-erh teas. Tea-A changes the histomorphology of brown adipose tissue (BAT) and increases the abundance of Coriobacteriaceae＿UCG＿002 and cyclic AMP in guts through high chemical contents of cyclopentasiloxane， decamethyl， tridecane and 1，2，3-trimethoxybenzene， eventually increasing BAT activation and fat browning gene expression; the high content of hexadecane and 1，2-dimethoxy-benzene in Tea-B reduces white adipose tissue (WAT) accumulation and the process of fatty liver， increases the abundance of Odoribacter and sphinganine 1-phosphate， inhibits the expression of lipid synthesis and transport genes. These mechanistic findings on the association of the representative bioactive components in Pu-erh teas with the anti-obesity phenotypes， gut microbes， gut metabolite structure and anti-obesity pathways， which were obtained for the first time， provide foundations for developing functional Pu-erh tea.

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