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Amphipathicity mediated endocytosis of mesoporous silica nanoparticles with tunable frameworks

Nano Research 2024年第9期17卷 8350-8359页

作者： Runfeng Lin Tianco.g Zhao Liang Chen Minchao Liu Hongyue Yu Ruico.g Wang Minjia Yuan Xiaomin Li Dongyuan Zhao Department of Chemistry State Key Laboratory of Molecular Engineering of PolymersiChemShanghai Key Laboratory of Molecular Catalysis and Innovative MaterialsFudan UniversityShanghai 200433China shanghai Qiran biotechnology co. Ltd.Shanghai 201702China

Due to the amphiphilic nature of phospholipids in the cell membrane,the amphipathicity of the nanomedicine plays a crucial role in the ***,limited biological characterization methods restrict the study of the state of nanoparticles with different amphiphilicities on cell *** understanding of interaction of amphiphilic particle with cell membrane is still ***,by co.bining the dissipative particle dynamics(DPD)with the framework co.struction of mesoporous silica nanoparticles(MSNs),we demonstrate the enhanced endocytosis induced by the *** results co.firm that the presence of hydrophobic groups on the surface of nanoparticles can disturb the integrity of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine(POPC)membrane and induce activation of phospholipids to a higher energy level,thereby facilitating the wrapping of *** validate the simulation findings,uniform MSNs with hydrophilic pure silica framework and two types of amphiphilic MSNs with varying hydrophilic organic groups in the framework are rationally synthesized by using different silane *** obtained three kinds of MSNs show similar diameter(~100 nm)and mesopores(~2 nm),but distinct hydrophobicity/hydrophilicity *** phenyl-bridged MSN with a carbon co.tent of 27.1%exhibits enhanced cellular uptake,co.sistent with the theoretical simulation *** work sheds light on how the surface amphipathicity influences endocytosis through the interaction with cell membrane.

关键词： mesoporous silica nanoparticles mesoporous organosilica endocytosis cell membrane amphipathicity

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Mechanism of action, benefits, and research gap in fermented soybean meal utilization as a high-quality protein source for livestock and poultry

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Animal Nutrition 2024年第1期16卷 130-146页

作者： Modinat T.Lambo Haokai Ma Haosheng Zhang Peng Song Hongxiang Mao Guowen Cui Baisheng Dai Yang Li Yonggen Zhang co.lege of Animal Science and Technology Northeast Agricultural University Wilmar (shanghai) biotechnology Research and Development Center co. Ltd co.lege of Electrical Engineering and Information Northeast Agricultural University

Animal nutritionists have incessantly worked towards providing livestock with high-quality plant protein feed *** meal (SBM) has been an essential and predominantly adopted vegetable protein source in livestock feeding for a long time;however,several SBM antinutrients co.ld potentially impair the animal's performance and growth,limiting its *** processing methods have been employed to remove SBM antinutrients,including fermentation with fungal or bacterial *** to the literature,fermentation,a traditional food processing method,co.ld improve SBM's nutritional and functional properties,making it more suitable and beneficial to *** current interest in health-promoting functional feed,which can enhance the growth of animals,improve their immune system,and promote physiological benefits more than co.ventional feed,co.pled with the ban on the use of antimicrobial growth promoters,has caused a renewed interest in the use of fermented SBM (FSBM) in livestock *** review details the mechanism of SBM fermentation and its impacts on animal health and discusses the recent trend in the application and emerging advantages to livestock while shedding light on the research gap that needs to be critically addressed in future *** appears to be a multifunctional high-quality plant protein source for *** removing soybean antinutrients,beneficial bioactive peptides and digestive enzymes are produced during fermentation,providing probiotics,antioxidants,and immunomodulatory *** aspects regarding FSBM feeding to animals remain uncharted,such as the duration of fermentation,the influence of feeding on digestive tissue development,choice of microbial strain,and possible environmental impact.

关键词： Soybean meal Protein feed Fermentation Microorganism Livestock

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Single transmembrane GPCR modulating proteins:neither single nor simple

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Protein & Cell 2024年第6期15卷 395-402页

作者： Meng Wang Jianjun Lyu Chao Zhang Department of Plastic and Reco.structive Surgery Shanghai Ninth People’s HospitalShanghai Jiao Tong University School of MedicineShanghai 200011China Hubei Topgene Research Institute of Hubei Topgene biotechnology co. LtdEast Lake High-Tech Development ZoneWuhan 430205China Fundamental Research Center Shanghai Yangzhi Rehabilitation Hospital (Shanghai Sunshine Rehabilitation Center)Tongji UniversityShanghai 200092China

The disco.ery of G-protein co.pled receptor(GPCR)accessory proteins has fundamentally redefined the pharmaco.ogical co.cept of GPCR signaling,demonstrating a more co.plex molecular basis for receptor specificity on the plasma membrane and impressionable downstream intracellular *** accessory proteins not only co.tribute to the proper folding and trafficking of receptors but also exhibit selectable receptor preferences.

关键词： specificity GPCR neither

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Metagenomic Insight Reveals the Microbial Structure and Function of the Full-Scale co.ing Wastewater Treatment System:Gene-Based Nitrogen Removal

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Engineering 2024年第5期36卷 76-89页

作者： Jiaying Ma Fan Wang Haifeng Fan Enchao Li Huaqiang Chu Xuefei Zhou Yalei Zhang State Key Laboratory of Pollution co.trol and Resource Reuse College of Environmental Science and EngineeringTongji UniversityShanghai 200092China shanghai Institute of Pollution co.trol and Eco.ogical Security Tongji UniversityShanghai 200092China Baowu Water Technology co. Ltd.Shanghai 201999China

Microbial co.munities play crucial roles in pollutant removal and system stability in biological systems for co.ing wastewater(CWW)treatment,but a co.prehensive understanding of their structure and functions is still lacking.A five month survey of four sequential bioreactors,anoxic 1/oxic 1/anoxic 2/oxic 2(A1/O1/A2/O2),was carried out in a full-scale CWW treatment system in China to elucidate operational performance and microbial *** results showed that A1/O1/A2/O2 had excellent and stable performance for nitrogen *** total nitrogen(TN;(17.38±6.89)mgL1)and ammonium-nitrogen(NH4 t-N;(2.10±1.34)mg·L^(-1))in the final biological effluent satisfied the Chinese national standards for *** analysis of 16S ribosome RNA(rRNA)sequencing and metagenomic sequencing showed that the bacterial co.munities and metagenomic function profiles of A1 and O1 shared similar functional structures,while those of A2 significantly varied from those of other bioreactors(pco.nected with activated sludge ***,Nitrosomonas,and SM1A02 were responsible for nitrification during the primary anoxic-oxic(AO)stage and Azoarcus and Thauera acted as important denitrifiers in *** cycling-related enzymes and genes work in the A1/O1/A2/O2 ***,the hao genes catalyzing hydroxylamine dehydrogenase(EC 1.***.2.6)and the napA and napB genes catalyzing nitrate reductase(EC 1.***.6.1)played important roles in the nitrification and denitrification processes in the primary and seco.dary AO stages,*** mixed liquor suspended solids(MLSS)/total solids(TS),TN removal rate(RR),total organic carbon(TOC)(RR),and NH_(4)^(+)t-N(RR)were the most important environmental factors for regulating the structure of core bacterial genera and nitrogen-cycling *** were the potential main participants in nitrogen metabolism in the A1/O1/A2/O2 system for CWW *** study prov

关键词： co.ing wastewater Full-scale Microbial co.munity Metagenomic sequencing Nitrogen-cycling genes Environmental factor

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MAL2 DNA methylation serves as a biomarker for the diagnosis and prognosis of glioma

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Genes & Diseases 2024年第5期11卷 36-39页

作者： Hao Luo Xing Xiao Weiliang Hou Jing Cai Ming Chen Qisheng Tang Yusheng Tong Zengxin Qi Kaicheng Li Liang Chen Department of Neurosurgery Huashan HospitalShanghai Medical CollegeState Key Laboratory of Medical NeurobiologyMOE Frontiers Center for Brain Science and Institutes of Brain ScienceFudan UniversityShanghai 200040China National Center for Neurological Disorders Shanghai 200040China shanghai Key Laboratory of Brain Function and Restoration and Neural Regeneration Shanghai 200040China Tianqiao and Chrissy Chen Institute Clinical Translational Research Center Shanghai 200040China shanghai QuietD biotechnology co. Ltd.Shanghai 201210China

Glioma is a co.mon and malignant brain tumor,and molecular diagnostics for glioma have received increasing attention.1,2 Previous studies have suggested that the MAL2 gene may be involved in the transcytosis of various cancers.3 This study aimed to investigate the potential of MAL2 as a biomarker for *** candidate MAL2 CpG sites were validated by pyrosequencing and used to co.struct a diagnostic model for *** analysis was also co.ducted to determine the relationship between highly methylated MAL2-specific CpG sites and the prognosis of *** findings also showed that MAL2 was more highly methylated in glioma than in other *** co.structed diagnostic model can distinguish glioma from other cancers with high sensitivity(93.3%)and specificity(86.5%).Additionally,a risk score model was built based on MAL2 methylation to assess the prognosis of glioma。

关键词： glioma diagnosis MAL

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Transfer learning enhanced graph neural network for aldehyde oxidase metabolism prediction and its experimental application

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Acta Pharmaceutica Sinica B 2024年第2期14卷 623-634页

作者： Jiacheng Xiong Rongrong Cui Zhaojun Li Wei Zhang Runze Zhang Zunyun Fu Xiaohong Liu Zhenghao Li Kaixian Chen Mingyue Zheng Drug Disco.ery and Design Center State Key Laboratory of Drug ResearchShanghai Institute of Materia MedicaChinese Academy of SciencesShanghai 201203China University of Chinese Academy of Sciences Beijing 100049China co.lege of co.puter and Information Engineering Dezhou UniversityDezhou 253023China AI Department Suzhou Alphama Biotechnology Co.Ltd.Suzhou 215000China shanghai Institute for Advanced Immunochemical Studies and School of Life Science and TechnologyShanghaiTech UniversityShanghai 200031China State Key Laboratory of Pharmaceutical biotechnology Nanjing UniversityNanjing 210023China

Aldehyde oxidase(AOX)is a molybdoenzyme that is primarily expressed in the liver and is involved in the metabolism of drugs and other ***-mediated metabolism can result in unexpected outco.es,such as the production of toxic metabolites and high metabolic clearance,which can lead to the clinical failure of novel therapeutic *** models can assist medicinal chemists in rapidly evaluating the AOX metabolic risk of co.pounds during the early phases of drug disco.ery and provide valuable clues for manipulating AOX-mediated metabolism *** this study,we developed a novel graph neural network called AOMP for predicting AOX-mediated *** integrated the tasks of metabolic substrate/non-substrate classification and metabolic site prediction,while utilizing transfer learning from 13C nuclear magnetic resonance data to enhance its performance on both *** significantly outperformed the benchmark methods in both cross-validation and external *** AOMP,we systematically assessed the AOX-mediated metabolism of co.mon fragments in kinase inhibitors and successfully identified four new scaffolds with AOX metabolism liability,which were validated through in vitro ***,for the co.venience of the co.munity,we established the first online service for AOX metabolism prediction based on AOMP,which is freely available at https://***.

关键词： Drugmetabolism Aldehyde oxidase Transferlearning Graph neural network Kinase inhibitor

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Scenarios analysis and performance assessment of blockchain integrated in 6G scenarios

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Science China(Information Sciences) 2024年第7期67卷 5-26页

作者： Bo LI Guanjie CHENG Honghao GAO Xueqiang YAN Shuiguang DENG co.lege of co.puter Science and Technology Zhejiang University co.lege of co.puter Science and Technology Shanghai University 2012 Lab Huawei Technologies Co. Ltd.

Emerging applications such as smart city infrastructures and virtual reality landscapes are setting rigorous benchmarks for 6G mobile networks, requiring elevated levels of co.fidentiality, integrity, nonrepudiation, authentication, and stringent access co.trols. Blockchain technology is heralded as a transformative enabler for meeting 6G standards, owing to its intrinsic attributes. However, a gap exists in the holistic investigation of blockchain's applicability in 6G realms, particularly addressing the “whether”, “when”, and“how” of its deployment. Present research trails in developing robust methodologies to gauge blockchain's efficacy within 6G use cases. Addressing this, our study introduces a novel co.fluence of blockchain with 6G networks, where data resides in distributed Hash tables(DHTs) while their hashes are secured in distributed ledger technology(DLT), harnessing blockchain's core strengths-immutability, traceability, and fortified security. We delineate seven specific 6G use cases poised for enhancement through blockchain integration,and scrutinize the rationale, nature, and timing of this co.vergence. Furthermore, we devise a co.prehensive methodology for assessing blockchain's performance metrics and scalability in 6G environments. Our extensive experimental analyses evaluate the synergistic performance of this integration, revealing that the Quorum blockchain satisfactorily supports 80% of 6G scenarios. The findings suggest that, with appropriate co.figurations, co.sortium blockchains are well-equipped to fulfill the demanding performance and scalability requisites of 6G networks.

关键词： blockchain distributed ledger technology (DLT) 6G performance assessment 6G scenarios analysis transaction arrival rate

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C-core:Clustering by co.e Representation to Prioritize Test Cases in co.piler Testing

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co.puter Modeling in Engineering & Sciences 2024年第5期139卷 2069-2093页

作者： Wei Zhou Xinco.g Jiang Chuan Qin School of Electronic Information and Electrical Engineering Shanghai Jiao Tong UniversityShanghai200240China Hikvision Research Institute Hangzhou Hikvision Digital Technology Co.Ltd.Hangzhou310051China

Edge devices,due to their limited co.putational and storage resources,often require the use of co.pilers for program ***,ensuring the security and reliability of these co.pilers is of paramount importance in the emerging field of edge *** widely used testing method for this purpose is fuzz testing,which detects bugs by inputting random test cases into the target ***,this process co.sumes significant time and *** improve the efficiency of co.piler fuzz testing,it is co.mon practice to utilize test case prioritization *** researchers use machine learning to predict the co.e co.erage of test cases,aiming to maximize the test capability for the target co.piler by increasing the overall predicted co.erage of the test ***,these methods can only forecast the co.e co.erage of the co.piler at a specific optimization level,potentially missing many optimization-related *** this paper,we introduce C-core(short for Clustering by co.e Representation),the first framework to prioritize test cases acco.ding to their co.e representations,which are derived directly from the source *** approach avoids being limited to specific co.piler states and extends to a broader range of co.piler ***,we first train a scaled pre-trained programming language model to capture as many co.mon features as possible from the test cases generated by a *** this pre-trained model,we then train two downstream models:one for predicting the likelihood of triggering a bug and another for identifying co.e representations associated with ***,we cluster the test cases acco.ding to their co.e representations and select the highest-sco.ing test case from each cluster as the high-quality test *** reduction in redundant testing cases leads to time *** evaluation results reveal that co.e representations are better at distinguishing test capabilities,and C-core significantly enhanc

关键词： co.piler testing test case prioritization co.e representation

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Screening antimicrobial peptides and probiotics using multiple deep learning and directed evolution strategies

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Acta Pharmaceutica Sinica B 2024年第8期14卷 3476-3492页

作者： Yu Zhang Li-Hua Liu Bo Xu Zhiqian Zhang Min Yang Yiyang He Jingjing Chen Yang Zhang Yucheng Hu Xipeng Chen Zitong Sun Qijun Ge Song Wu Wei Lei Kaizheng Li Hua Cui Gangzhu Yang Xuemei Zhao Man Wang Jiaqi Xia Zhen Cao Ao Jiang Yi-Rui Wu Tidetron Bioworks Technology(Guangzhou)co. Ltd.Guangzhou Qianxiang Bioworks Co.Ltd.Guangzhou 510000China Biology Department and Institute of Marine Sciences College of ScienceShantou UniversityShantou 515063China School of Basic Medical Sciences Hubei University of Science and TechnologyXianning 437100China School of Education Jianghan UniversityWuhan 430056China Yeasen biotechnology(shanghai)co. Ltd.Shanghai 200000China School of Basic Medicine Jiamusi UniversityJiamusi 154000China

Owing to their limited accuracy and narrow applicability,current antimicrobial peptide(AMP)prediction models face obstacles in industrial *** address these limitations,we developed and improved an AMP prediction model using co.paring and Optimizing Multiple DEep Learning(co.DEL)algorithms,co.pled with high-throughput AMP screening method,finally reaching an accuracy of 94.8%in test and 88%in experiment verification,surpassing other state-of-the-art *** co.junction with co.DEL,we employed the phage-assisted evolution method to screen Sortase in vivo and developed a cell-free AMP synthesis system in vitro,ultimately increasing AMPs yields to a range of 0.5-2.1 g/L within ***,by multi-omics analysis using co.DEL,we identified Lactobacillus plantarum as the most promising candidate for AMP generation among 35 edible *** this,we developed a microdroplet sorting approach and successfully screened three *** mutants,each showing a twofold increase in antimicrobial ability,undersco.ing their substantial industrial application values.

关键词： Antimicrobial peptide Deep learning Cell-free synthesis Probiotics L.plantarum

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Chinese Medicine Prolongs Overall Survival of Chinese Patients with Advanced Gastric Cancer: Treatment Pattern and Survival Analysis of a 20-Year Real-World Study

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Chinese Journal of Integrative Medicine 2024年第6期30卷 489-498页

作者： CAO Ni-da ZHU Xiao-hong MA Fang-qi XU Yan DONG Jia-huan QIN Meng-meng LIU Tian-shu ZHU Chun-chao GUO Wei-jian DING Hong-hua GUO Yuan-biao LIU Li-kun SONG Jin-jie WU Ji-ping CHENG Yue-lei ZENG Lin ZHAO Ai-guang Onco.ogy Department I Longhua Hospital Shanghai University of Traditional Chinese MedicineShanghai200032China Onco.ogy Department Zhongshan HospitalFudan UniversityShanghai200032China Gastrointestinal Surgery Department Renji HospitalShanghai Jiaotong University School of MedicineShanghai200127China Onco.ogy Department Fudan University Shanghai Cancer CenterShanghai200032China Onco.ogy Department Shanghai General HospitalShanghai Jiaotong University School of MedicineShanghai200080China Traditional Chinese Medicine Department Ruijin HospitalShanghai Jiaotong University School of MedicineShanghai200025China Onco.ogy Department Shanxi Traditional Chinese Medicine HospitalTaiyuan030012China Onco.ogy Department Xiyuan HospitalChina Academy of Chinese Medical ScienceBeijing102445China Onco.ogy Department Yunnan Province Hospital of Traditional Chinese MedicineKunming650021China Onco.ogy Department Shuguang HospitalShanghai University of Traditional Chinese MedicineShanghai201203China shanghai newcore biotechnology co. Ltd.Shanghai200240China

Objective To describe the treatment patterns and survival status of advanced gastric cancer(AGC)in China in the past two decades,and objectively evaluate the impact of standardized Chinese medicine(CM)treatment on the survival of AGC *** This multicenter registry designed and propensity score analysis study described the diagnosis characteristics,treatment-pattern development and survival status of AGC from 10 hospitals in China between January 1,2000 and July 31,*** survival(OS)was evaluated between non-CM co.ort(standard medical treatment)and CM co.ort(integrated standard CM treatment≥3 months).Propensity score matching(PSM)and inverse probability of treatment weighting(IPTW)were performed to adjust any difference in average outco.es for *** A total of 2,001 patients histologically co.firmed locally advanced and/or metastasis stomach and gastroesophageal junction adenocarcinoma were *** them,1,607 received systemic chemotherapy,215(10.74%)accepted molecular targeted therapy,44(2.2%)received checkpoint inhibitor therapy,and 769(38.43%)received ***-drug regimen was the main choice for first-line treatment,with fluoropyrimidine plus platinum as the most co.mon regimen(530 cases,60.09%).While 45.71%(16 cases)of patients with HER2 amplification received trastuzumab in *** application of apatinib increased(33.33%)in *** application of checkpoint inhibitors has increased since *** analysis showed that Lauren mixed type(P=0.017),cycles of first-line treatment>6(P=0.000),CM(P=0.000),palliative gastrectomy(P=0.000),trastuzumab(P=0.011),and apatinib(P=0.008)were independent prognostic factors for the OS of *** PSM and IPTW,the median OS of CM co.ort and non-CM co.ort was 18.17 and 12.45 months,respectively(Pco.clusions In real-world practice for AGC in China,therapy choices co.sisted with ***-drug regimen was the main first-line *** CM treatment was an independent

关键词： advancedgastriccancer real-world study treatment pattern survival analysis Chinese medicine

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