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Whole-genome sequencing in medicinal plants:current progress and prospect

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Science China(Life Sciences) 2024年第2期67卷 258-273页

作者： yifei Pei Liang Leng Wei sun Baocai Liu Xue Feng Xiwen Li Shilin Chen Institute of Chinese Materia Medica China Academy of Chinese Medical SciencesBeijing 100700China Institute of Herbgenomics Chengdu University of Traditional Chinese MedicineChengdu 611137China Innovative Institute of Chinese Medicine and Pharmacy Chengdu University of Traditional Chinese MedicineChengdu 611137China Institute of Agricultural Bioresource Fujian Academy of Agricultural SciencesFuzhou 350003China

Advancements in genomics have dramatically accelerated the research on medicinal plants,and the development of herbgenomics has promoted the“Project of 1K Medicinal Plant Genome”to decipher their genetic ***,it is difficult to obtain their high-quality whole genomes because of the prevalence of polyploidy and/or high genomic *** genomes of 123 medicinal plants were published until September *** published genome sequences were investigated in this review,covering their classification,research teams,ploidy,medicinal functions,and sequencing *** than 1,000 institutes or universities around the world and 50 countries are conducting research on medicinal plant *** species account for a majority of sequenced medicinal *** whole genomes of plants in the Poaceae family are the most *** 40%of the published papers studied species with tonifying,replenishing,and heat-cleaning medicinal *** plants are still in the process of domestication as compared with crops,thereby resulting in unclear genetic backgrounds and the lack of pure lines,thus making their genomes more difficult to *** addition,there is still no clear routine framework for a medicinal plant to obtain a high-quality whole ***,a clear and complete strategy has been originally proposed for creating a high-quality whole genome of medicinal ***,whole genome-based biological studies of medicinal plants,including breeding and biosynthesis,were *** also advocate that a research platform of model medicinal plants should be established to promote the genomics research of medicinal plants.

关键词： herbgenomics whole genome high throughput sequencing research strategy model species application

KHK-A promotes fructose-dependent colorectal cancer liver metastasis by facilitating the phosphorylation and translocation of PKM2

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Acta Pharmaceutica Sinica B 2024年第7期14卷 2959-2976页

作者： Chaofan Peng Peng Yang Dongsheng Zhang Chi Jin Wen Peng Tuo Wang Qingyang sun Zhihao Chen yifei Feng Yueming sun Department of General Surgery the First Affiliated Hospital of Nanjing Medical UniversityNanjing 210029China Colorectal Institute of Nanjing Medical University Nanjing 210029China The First School of Clinical Medicine Nanjing Medical UniversityNanjing 210029China Jiangsu Province Engineering Research Center of Colorectal Cancer Precision Medicine and Translational Medicine Nanjing 210029China

Excessive fructose diet is closely associated with colorectal cancer(CRC)***,fructose’s specific function and precise mechanism in colorectal cancer liver metastasis(CRLM)is rarely ***,this study reported that the fructose absorbed by primary colorectal cancer could accelerate CRLM,and the expression of KHK-A,not KHK-C,in liver metastasis was higher than in paired primary ***,KHK-A facilitated fructose-dependent CRLM in vitro and in vivo by phosphorylating PKM2 at ***2 phosphorylated by KHK-A inhibited its tetramer formation and pyruvic acid kinase activity but promoted the nuclear accumulation of *** and aerobic glycolysis activated by nuclear PKM2 enhance CRC cells’migration ability and anoikis resistance during CRLM ***-46 treatment,targeting the phosphorylation of PKM2,inhibited the pro-metastatic effect of ***,c-myc activated by nuclear PKM2 promotes alternative splicing of KHK-A,forming a positive feedback loop.

关键词： CRC CRLM Fructose KHK-A PKM2

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基于生成对抗网络的工控协议模糊测试研究

网络安全与数据治理 2024年第7期43卷 13-20页

作者：宗学军隋一凡王国刚宁博伟何戡连莲孙逸菲沈阳化工大学信息工程学院辽宁沈阳110142 辽宁省石油化工行业信息安全重点实验室辽宁沈阳110142 沈阳工业大学人工智能学院辽宁沈阳110870

传统模糊测试依赖专家经验和协议规范,基于神经网络的方法受限于训练数据质量和模型结构,面对不同的ICPs(Industrial Control Protocols)有效性差,缺乏通用有效的模糊测试方法。针对上述问题,提出一种基于WGAN-GP(Wasserstein Generativ... 详细信息

传统模糊测试依赖专家经验和协议规范,基于神经网络的方法受限于训练数据质量和模型结构,面对不同的ICPs(Industrial Control Protocols)有效性差,缺乏通用有效的模糊测试方法。针对上述问题,提出一种基于WGAN-GP(Wasserstein Generative Adversarial Network with Gradient Penalty)的ICP模糊测试方法,结合统计语言模型N-gram修正训练结果,并构建了面向多种ICPs的通用模糊测试框架GPFuzz。在油气集输全流程工业攻防靶场中对3种常见工控协议(Modbus/TCP,Ethernet/IP,S7comm)进行实验,结果表明该框架生成的测试用例具有多样性,在接受率和异常触发指标上优于其他模糊测试方法,为ICS提供一种高效、通用的安全性评估方法,提升系统整体的安全性。

关键词：漏洞挖掘模糊测试工业控制协议生成对抗网络

Molecular quantification of herbs(Herb-Q):a pyrosequencingbased approach and its application in Pinellia ternata

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Chinese Journal of Natural Medicines 2024年第7期22卷 663-672页

作者： PEI yifei LIU Ziyi YU Dade ZHANG Xiangyu sun Wei CHEN Xiaofang FENG Xue LI Xiwen Institute of Chinese Materia Medica China Academy of Chinese Medical SciencesBeijing 100700China Bijie Institute of Traditional Chinese Medicine Bijie 551700China The Key Laboratory for Health Industry of Bijie Bijie Medical CollegeBijie 551700China

Variations in herb dosage due to species adulteration and dosing inaccuracies can substantially affect clinical safety and *** species quantification remains challenging,as current methods often yield inconsistent *** study introduces a novel pyrosequencing-based technique,termed herb molecular quantification(Herb-Q),designed to precisely quantify herbal *** evaluated its effectiveness using Pinellia ternata and five of its ***,we assessed commonly used DNA barcodes with sequences from a public database,identifying two candidate regions,Maturase K(matK)and internal transcribed spacer 2(ITS2),for screening specific single nucleotide polymorphism(SNP)loci,allowing for species-specific *** loci were validated by amplifying and sequencing genomic material from collected *** validation studies showed that Herb-Q demonstrated excellent linearity,accuracy,repeatability,and detection *** established quantitative standard curves with high R^(2)values(>0.99)to enable precise species quantification,which were combined with external standards to provide clear and accurate visual quantification *** average bias in quantifying the tuber of *** was 2.38%,confirming that Herb-Q can accurately identify and quantify herbal product ***,the entire quantification process took less than 4 *** study presents a novel,rapid method for accurately quantifying species in herbal products and advances the application of DNA barcoding from species identification to quantitative detection.

关键词： Quantification Adulterant DNA barcodes Single nucleotide polymorphism

A Deep Deterministic Policy Gradient-Based Method for Enforcing Service Fault-Tolerance in MEC

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Chinese Journal of Electronics 2024年第4期33卷 899-909页

作者： Tingyan LONG Peng CHEN Yunni XIA Yong MA Xiaoning sun Jiale ZHAO yifei LYU College of Computer Science Chongqing University School of Computer and Software Engineering Xihua University School of Computer and Information Engineering Jiangxi Normal University School of Computer and Information Science Chongqing Normal University

Mobile edge computing(MEC) provides edge services to users in a distributed and on-demand *** to the heterogeneity of edge applications, deploying latency and resource-intensive applications on resourceconstrained devices is a key challenge for service providers. This is especially true when underlying edge infrastructures are fault and error-prone. In this paper, we propose a fault tolerance approach named DFGP, for enforcing mobile service fault-tolerance in MEC. It synthesizes a generative optimization network(GON) model for predicting resource failure and a deep deterministic policy gradient(DDPG) model for yielding preemptive migration *** show through extensive simulation experiments that DFGP is more effective in fault detection and guaranteeing quality of service, in terms of fault detection accuracy, migration efficiency, task migration time, task scheduling time,and energy consumption than other existing methods.

关键词： Fault tolerance Multi-access edge computing Processor scheduling Fault detection Image edge detection Fault tolerant systems Quality of service

Displacement-pressure biparametrically regulated softness sensory system for intraocular pressure monitoring

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National Science Review 2024年第6期11卷 159-168页

作者： Yu Cheng yifei Zhan Fangyi Guan Junli Shi Jingxiao Wang Yi sun Muhammad Zubair Cunjiang Yu Chuan Fei Guo Department of Materials Science and Engineering Southern University of Science and Technology Department of Engineering Science and Mechanics Pennsylvania State University Department of Biomedical Engineering Pennsylvania State University Department of Materials Science and Engineering Materials Research Institute Pennsylvania State University

High intraocular pressure(IOP) is one of the high-risk pathogenic factors of glaucoma. Existing methods of IOP measurement are based on the direct interaction with the cornea. Commercial ophthalmic tonometers based on snapshot measurements are expensive, bulky, and their operation requires trained *** contact lenses are easy to use, but they may block vision and cause infection. Here, we report a sensory system for IOP assessment that uses a soft indentor with two asymmetrically deployed iontronic flexible pressure sensors to interact with the eyelid-eyeball in an eye-closed situation. Inspired by human fingertip assessment of softness, the sensory system extracts displacement-pressure information for soft evaluation, achieving high accuracy IOP monitoring(>96%). We further design and custom-make a portable and wearable ophthalmic tonometer based on the sensory system and demonstrate its high efficacy in IOP screening. This sensory system paves a way towards cost-effective, robust, and reliable IOP monitoring.

关键词： intraocular pressure tonometer deep learning softness iontronic sensor

Characterization of Passive Film Formed on 304 SS in Simulated Alkaline Water Chemistries Containing Sulfur at 300℃

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Transactions of Tianjin University 2015年第6期21卷 554-561页

作者：夏大海孙毅飞范洪强 Tianjin Key Laboratory of Composite and Functional Materials Tianjin University Department of Chemical and Materials Engineering University of Alberta School of Materials Science and Engineering Tianjin University

Passivity degradation of 304 stainless steel(SS) in simulated alkaline water chemistries at 300℃ was investigated using polarization curve, scanning electron microscope, time-of-flight secondary ion mass spectrometry(SIMS) and X-ray photoelectron spectroscopy(XPS). Experimental results indicated that 304,SS was selfpassive in the test solution and the thickness of passive film was about 500 nm. Hydroxide was enriched in the outer layer whereas oxide was enriched in the inner layer. Sulfur in thiosulfate could be reduced into lower valence of sulfur and enter the passive film so that the composition of passive film was modified by sulfur. Fe and Cr were enriched in the passive film whereas Ni was depleted in the passive film.

关键词： passive film 304 stainless steel thiosulfate SIMS polarization curve

Exciting lattice oxygen of nickel–iron bi-metal alkoxide for efficient electrochemical oxygen evolution reaction

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Journal of Energy Chemistry 2024年第1期88卷 194-201,I0005页

作者： Saihang Zhang Senchuan Huang Fengzhan sun Yinghui Li Li Ren Hao Xu Zhao Li yifei Liu Wei Li Lina Chong Jianxin Zou National Engineering Research Center of Light Alloy Net Forming&State Key Laboratory of Metal Matrix Composites Center of Hydrogen ScienceSchool of Materials Science and EngineeringShanghai Jiao Tong UniversityShanghai 200240China Department of Chemistry Laboratory of Advanced MaterialsShanghai Key Laboratory of Molecular Catalysis and Innovative MaterialsiChEM and State Key Laboratory of Molecular Engineering of PolymersCollege of Chemistry and MaterialsFudan UniversityShanghai 200433China

High efficiency,cost-effective and durable electrocatalysts are of pivotal importance in energy conversion and storage *** electro-oxidation of water to oxygen plays a crucial role in such energy conversion ***,we report a robust method for the synthesis of a bimetallic alkoxide for efficient oxygen evolution reaction(OER)for alkaline electrolysis,which yields current density of 10 mA cm^(-2)at an overpotential of 215 mV in 0.1 M KOH *** catalyst demonstrates an excellent durability for more than 540 h operation with negligible degradation in *** spectra revealed that the catalyst underwent structure reconstruction during OER,evolving into oxyhydroxide,which was the active site proceeding OER in alkaline ***-situ synchrotron X-ray absorption experiment combined with density functional theory calculation suggests a lattice oxygen involved electrocatalytic reaction mechanism for the in-situ generated nickel–iron bimetal-oxyhydroxide *** mechanism together with the synergy between nickel and iron are responsible for the enhanced catalytic activity and *** findings provide promising strategies for the rational design of nonnoble metal OER catalysts.

关键词： Oxygen evolution reaction Nickel-iron bi-metal alkoxide Lattice oxygen-mediated reaction mechanism Alkaline electrolysis Electrocatalysts

An overview of pigment gland morphogenesis and its regulatory mechanism

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Journal of Cotton Research 2024年第2期7卷 207-214页

作者： sun Yue YANG Ping HAN yifei LI Huazu sun Deli CHEN Jinhong ZHU Shuijin ZHAO Tianlun College of Agriculture and Biotechnology Zhejiang UniversityHangzhou 310058China Agricultural Experiment Station Zhejiang UniversityHangzhou 310058China Institute of Hainan Zhejiang UniversitySanyaHainan 572025China

Cotton has enormous economic potential,providing high-quality protein,oil,and *** the comprehensive utilization of cottonseed is limited by the presence of pigment gland and its *** gland is a common characteristic of Gossypium genus and its relatives,appearing as visible dark opaque dots in most tissues and organs of cotton *** metabolites,such as gossypol,synthesized and stored in the cavities of pigment glands act as natural phytoalexins,but are toxic to humans and other monogastric ***,only a few cotton genes have been identified as being associated with pigment gland morphogenesis to date,and the developmental processes and regulatory mechanism involved in pigment gland formation remain largely ***,the research progress on the process of pigment gland morphogenesis and the genetic basis of cotton pigment glands is reviewed,for providing a theoretical basis for cultivating cotton with the ideal pigment gland trait.

关键词： Cotton Pigment gland morphogenesis Transcriptional regulation Terpenoids biosynthesis