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Two-dimensional material-based virus detection

Science China Chemistry 2022年第3期65卷 497-513页

作者： Wenbin Wang Wei Zhai Ye Chen Qiyuan He Hua Zhang Department of Materials Science and Engineering City University of Hong KongHong KongChina Department of Chemistry City University of Hong KongHong KongChina Department of Chemistry The Chinese University of Hong KongShatinHong KongChina Hong Kong Branch of National Precious Metals Material Engineering Research Center(NPMM) City University of Hong KongHong KongChina Shenzhen Research Institute City University of Hong KongShenzhen 518057China

Cost-effective, rapid, and accurate virus detection technologies play key roles in reducing viral transmission. Prompt and accurate virus detection enables timely treatment and effective quarantine of virus carrier, and therefore effectively reduces the possibility of large-scale spread. However, conventional virus detection techniques often suffer from slow response, high cost or sophisticated procedures. Recently, two-dimensional(2D) materials have been used as promising sensing platforms for the highperformance detection of a variety of chemical and biological substances. The unique properties of 2D materials, such as large specific area, active surface interaction with biomolecules and facile surface functionalization, provide advantages in developing novel virus detection technologies with fast response and high sensitivity. Furthermore, 2D materials possess versatile and tunable electronic, electrochemical and optical properties, making them ideal platforms to demonstrate conceptual sensing techniques and explore complex sensing mechanisms in next-generation biosensors. In this review, we first briefly summarize the virus detection techniques with an emphasis on the current efforts in fighting again COVID-19. Then, we introduce the preparation methods and properties of 2D materials utilized in biosensors, including graphene, transition metal dichalcogenides(TMDs) and other 2D materials. Furthermore, we discuss the working principles of various virus detection technologies based on emerging 2D materials, such as field-effect transistor-based virus detection, electrochemical virus detection, optical virus detection and other virus detection techniques. Then, we elaborate on the essential works in 2D material-based high-performance virus detection. Finally, our perspective on the challenges and future research direction in this field is discussed.

关键词： two-dimensional materials virus detection field-effect transistor biosensor COVID-19

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Biofunctionalized semiconductor quantum dots for virus detection

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Journal of Semiconductors 2023年第2期44卷 25-39页

作者： Yingqi Liang Guobin Mao Junbiao Dai Yingxin Ma CAS Key Laboratory of Quantitative Engineering Biology Guangdong Provincial Key Laboratory of Synthetic Genomics and Shenzhen Key Laboratory of Synthetic GenomicsShenzhen Institute of Synthetic BiologyShenzhen Institutes of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China

virus is a kind of microorganism and possesses simple structure and contains one nucleic acid,which must be replicated using the host cell *** causes large-scale infectious diseases and poses serious threats to the health,social well-being,and economic conditions of millions of people ***,there is an urgent need to develop novel strategies for accurate diagnosis of virus infection to prevent disease *** dots(QDs)are typical fluorescence nanomaterials with high quantum yield,broad absorbance range,narrow and size-dependent emission,and good ***-based nanotechnology has been found to be effective method with rapid response,easy operation,high sensitivity,and good specificity,and has been widely applied for the detection of different ***,until now,no systematic and critical review has been published on this important research ***,in this review,we aim to provide a comprehensive coverage of various QDs-based virus detection *** fundamental investigations have been reviewed,including information related to the synthesis and biofunctionalization of QDs,QDs-based viral nucleic acid detection strategies,and QDs-based *** challenges and perspectives regarding the potential application of QDs for virus detection is also discussed.

关键词： quantum dot synthesis and biofunctionalization virus detection molecule biology detection immunoassays

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An immune local concentration based virus detection approach

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Journal of Zhejiang University-Science C(Computers and Electronics) 2011年第6期12卷 443-454页

作者： Wei WANG MOE Key Laboratory of Machine Perception Peking University Beijing 100871 China Department of Machine Intelligence School of Electronics Engineering and Computer Science Peking University Beijing 100871 China

Along with the evolution of computer viruses, the number of file samples that need to be analyzed has constantly increased. An automatic and robust tool is needed to classify the file samples quickly and efficiently. Inspired by the human immune system, we developed a local concentration based virus detection method, which connects a certain number of two-element local concentration vectors as a feature vector. In contrast to the existing data mining techniques, the new method does not remember exact file content for virus detection, but uses a non-signature paradigm, such that it can detect some previously unknown viruses and overcome the techniques like obfuscation to bypass signatures. This model first extracts the viral tendency of each fragment and identifies a set of statical structural detectors, and then uses an information-theoretic preprocessing to remove redundancy in the detectors’ set to generate ‘self’ and ‘nonself’ detector libraries. Finally, ‘self’ and ‘nonself’ local concentrations are constructed by using the libraries, to form a vector with an array of two elements of local concentrations for detecting viruses efficiently. Several standard data mining classifiers, including K -nearest neighbor (KNN), radial basis function (RBF) neural networks, and support vector machine (SVM), are leveraged to classify the local concentration vector as the feature of a benign or malicious program and to verify the effectiveness and robustness of this approach. Experimental results show that the proposed approach not only has a much faster speed, but also gives around 98% of accuracy.

关键词： Local concentration Artificial immune system virus detection

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Hepatitis associated with hepatitis B virus in broilers

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Journal of Integrative Agriculture 2016年第1期15卷 191-199页

作者： ZHAO Yue MAO Jing-jing SHE Rui-ping HU Feng-jiao Majid H Soomro LIANG Rui-ping YANG Yi-fei DU Fang WANG Tong-tong GUO Zhao-jie CHENG Min-heng Laboratory of Animal Pathology and Public Health/Key Laboratory of Zoonosis Ministry of Agriculture/College of Veterinary Medicine China Agricultural University Beijing 100193 P.R. China National Shanghai Center for New Drug Safety Evaluation Research Center Shanghai 201203 P.R. China

Infection by hepatitis B virus （HBV） results in acute and chronic liver damages in humans. Liver products of broilers as a primary food consumed in our daily life have a close connection with public health. The prevalence of the virus in livers and serum of broilers is of great significance, owning to the potential transmission between chickens and humans. Liver tissues and serum samples were tested to investigate the prevalence of hepatitis B virus infection in slaughtered broilers, for expression of HBV antigens and antibodies. The distribution and positive rate of hepatitis B surface antigen （HBsAg）, hepatitis B core antigen （HBcAg） and hepatitis B e antigen （HBeAg） in liver samples were examined using immunohistochemistry. HBsAg was mainly located in the cytoplasm of hepatocytes with a positivity of 81.61% whereas HBeAg and HBcAg were primarily located in the nucleus of hepatocytes with a positivity of 40.13 and 49.10%, respectively. Enzyme-linked immunosorbent assay （ELISA） analysis of serum for HBV serological markers demonstrated a high prevalence of hepatiits B surface antibody （HBsAb, 54.91%） and hepatitis B core antibody （HBcAb, 27.68%）, whereas HBeAb, HBsAg and HBeAg were rarely detectable. Classic hepatitis pathological changes, including swollen hepatocytes, focal parenchymal necrosis, lymphocytic infiltration and hyperplasia of fibrous connective tissues were observed using histopathological analysis. Some of the liver samples were found positive for HBV DNA using nested PCR. Sequence comparison confirmed that all sequences shared 97.5-99.3% identity with human HBV strains. These results demonstrated the existence of HBV in livers and serums of broilers. Animals or animal products contaminated with HBV could raise an important public health concern over food safety and zoonotic risk.

关键词： broilers hepatitis B virus detection prevalence investigation

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Complete Genome Sequence Analysis of Guangdong Isolates of Cymbidium Mosaic virus

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Plant Diseases and Pests 2022年第3期13卷 15-20页

作者： Yonglu WEI Rui REN Jie GAO Weiping LIU Qi XIE Genfa ZHU Fengxi YANG Environmental Horticulture Research Institute Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory of Ornamental Plant Germplasm Innovation and UtilizationGuangzhou 510640China Guangdong Wengshan Orchid Research Co. LtdWengyuan 512600China

[Objectives]The paper was to explore the genetic information and evolution of CymMV,and to provide an important scientific basis for monitoring and early warning of orchid virus disease and anti-virus genetic engineering of orchid in Guangdong Province.[Methods]RT-PCR and DASELISA were used to detect and identify CymMV from leaves with suspected virus disease of Cymbidium sinense collected from Guangzhou *** genome sequence assembly,annotation,phylogeny and selection pressure analysis of CymMV isolates were performed with related molecular biology software.[Results]Two CymMV isolates(GZV013 and ZC29)were found in Guangdong Province for the first time in this *** genome of both GZV013 and ZC29 were 6227 nt in length,encoding 5 functional *** similarity analysis of the full sequence showed that the nucleotide sequence identity of GZV013 and Taiwan isolate M2 was 97.03% and that of ZC29 and Nanjing isolate NJ-1 was 97.11%.The complete genome sequence identity among CymMV isolates ranged from 86.85% to 98.31%,and the differentiation of diverse populations was closely related to host species and geographical *** region of CymMV genome was affected by negative selection and conformed to the neutral evolution *** genes encoding RdRp,TGB1 and TGB2 had the highest mutation rates in the genome.[Conclusions]GZV013 was most closely related to Taiwan isolate M2,and ZC29 was most closely related to Nanjing isolate NJ-1,belonging to the same branch of a family.

关键词： Orchid virus detection Cymbidium mosaic virus(CymMV) Sequence analysis Selection pressure

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A mini review and hypothesis for coronavirus detection using photonics: surface enhanced Raman scattering and fluorescence resonance energy transfer

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Infectious Diseases Research 2023年第1期4卷 10-13页

作者： Akshat Dharmeshkumar Modi Austin Tian Yang Akriti Sharma Department of Biological Sciences University of Toronto ScarboroughToronto M1C1A4Canada Department of Genetics and Development Krembil Research InstituteUniversity Health NetworkToronto M5T0S8Canada Department of Computer and Mathematical Sciences University of Toronto ScarboroughToronto M1C1A4Canada Department of Biomedical Engineering University of TorontoToronto M5S1A1Canada.

COVID-19 has devastated numerous nations around the world and has overburdened numerous healthcare systems,which has also caused the loss of livelihoods due to prolonged shutdowns and further led to a cascading effect on the global ***-19 infections have an incubation period of 2–7 days,but 40 to 45%of cases are asymptomatic or show mild to moderate respiratory symptoms after the period due to subclinical lung abnormalities,making it more likely to spread the pandemic *** restrict the spread of the virus,on-site diagnosis methods that are quicker,more precise,and easily accessible are *** Antigen detection Tests and Polymerase Chain Reaction tests are currently the primary methods used to determine the presence of COVID-19 *** tests are typically time-consuming,not accurate,and,more importantly,not available to ***,in this review and hypothesis,we proposed equipment that employs the properties of photonics to improve the detection of COVID-19 viruses by taking the advantage of typical binding of coronavirus with angiotensin-converting enzyme 2(ACE2)*** hypothetical model would combine Surface-Enhanced Raman Scattering(SERS)and Fluorescence Resonance Energy Transfer(FRET)to provide great flexibility,high sensitivities,and enhanced accessibility.

关键词： COVID-19 coronavirus ACE2 virus detection photonics surface-enhanced Raman scattering fluorescence resonance energy transfer

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A Universal Real-Time Fluorescence qPCR Method for Identifying Epidemic Strains of African Swine Fever virus

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Open Journal of Genetics 2021年第4期11卷 102-119页

作者： Meihui Lv Qiuyue Zheng Lili Yang Lin Wang Lili Chen Aifu Yang Jijuan Cao Key Laboratory of Biotechnology and Bioresources Utilization of Ministry of Education Dalian Minzu University Dalian China Dalian Polytechnic University Dalian China Beijing Animal Disease Prevention and Control Center Beijing China Zhonglianrui (Beijing) Biotechnology Co. Ltd. Beijing China Dalian Customs Technology Center Dalian China

Objective Establishing a highly sensitive real-time fluorescence quantitative PCR (qPCR) method for universal testing of epidemic African swine fever virus (ASFV) strains. Methods The ASFV p72 gene was targeted to design primer probes covering 24 p72 genotypes. The optimal amount of dimethylsulphoxide (DMSO) for qPCR amplification was determined, Various sensitivity and limit of detection (LOD) tests were performed, and clinical samples from China and imported goods were tested. Results The optimal primer-probe combination could specifically detect ASFV, 1.5% DMSO was optimal for qPCR, and LOD reached 3.2 copies/μL with good reproducibility (n = 20, p = 0.369). The method was employed to test 142 clinically suspected samples, of which 30 pig blood and 37 pig tissue samples were ASFV-positive. Moreover, the positive testing rate for ASFV was higher than for the standard qPCR method recommended by the Office International Des Epizooties (OIE), and for the commercially available kit. Thus, our method is superior for testing weakly positive samples with low virus titre, and epidemic strains present in imported goods. Conclusion Our method could be employed for universal testing of epidemic ASFV strains worldwide, ensuring wider coverage of hosts and ASFV strains/endemic strains, reducing false negatives, and benefitting early diagnosis.

关键词： African Swine Fever virus Real-Time Fluorescence qPCR Epidemic Strain virus detection DMSO ASFV Testing

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Survey of Porcine Viral Diarrhea in Beijing Using Umbilical Cord Blood

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Animal Husbandry and Feed Science 2017年第3期9卷 170-171页

作者： Liu Yanhua Zheng Ruifeng Jin Yinji Zhang Xicheng Liu Xin Guo Feng Yue Shuang Wang Yutian Beijing Nongdao Zhonglian Technology Co. Ltd. Beijing General Station of Animal Husbandry Pinggu Animal Disease Control Center

[ Objective] The study aimed to understand the status of piglet diarrhea virus in large-scale farms in surrounding areas of Beijing. [ Method] By collecting 570 umbilical cord blood samples of diseased pigs, nucleic acids of porcine reproductive and respiratory syndrome virus （PRRSV） , classical swine fever virus （CSFV）, porcine pseudorabies virus （PRV）, porcine circovirus （PCV）, porcine epidemic diarrhea virus （PEDV）, transmissible gastroenteritis virus （TGEV）, and porcine rotavirus （RV） were detected by PCR or RT-PCR assay. [Result] The detection rates of PRRSV, PCV-2, PEI）V, PPV, TGEV, PRV, RV and CSFV were 38.7%, 29.6%, 21.8%, 13.03%, 5.6%, 4.2%, 3.8% and 1.7%, respectively. [ Conclusion] The major pathogens were PRRSV, PCV-2, PEDV and PPV, and mixed infection was serious.

关键词： Umbilical cord blood Porcine diarrhea PCR virus detection Survey

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A Study on the Intelligent Method for detection of Computer viruses

A Study on the Intelligent Method for Detection of Computer ...

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2011 IEEE 2nd International Conference on Computing, Control and Industrial Engineering(CCIE 2011)

作者： Limin Ren Tianjin Institute of Urban Construction Tianjin City P.R. China

This paper makes a virus detection study based on the D-S theory of evidence, which applies to two types of classifiers support vector machines and probabilistic neural networks to detect the virus. Then, the D-S theory of evidence is used to combine the contribution of each individual classifier to obtain the final decision. The experiment tests and result analyses demonstrate that it is efficient for unknown viruses and variant viruses to improve accuracy rate of integration virus detector by using D-S theory to create the isomeric classifier.

关键词： computer viruses virus detection D-S theory of evidence classifier credit distribution

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Selection of an aptamer against Muscovy duck parvovirus for highly sensitive rapid visual detection by label-free aptasensor

Selection of an aptamer against Muscovy duck parvovirus for ...

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第十三届中国实验动物科学年会

作者：陆涛峰 Qin Ma Wenzhuo Yan Yuanzhi Wang Yuanyuan Zhang Lili Zhao Hongyan Chen 哈尔滨兽医研究所 Heilongjiang Provincial Key Laboratory of Laboratory Animal and Comparative Medicine State Key Laboratory of Veterinary Biotechnology Harbin Veterinary Research Institute Chinese Academy of Agricultural Sciences

Muscovy duck parvovirus(MDPV) causes high mortality and morbidity in ducks. This study investigated a novel aptamer-based, label-free aptasensor detection of MDPV. In this study, we developed an ss DNA aptamer using the filtration partition and lambda exonuclease method with an affinity-based monitor and counter-screening process. After 15 rounds of SELEX(systematic evolution of ligands by exponential enrichment), the ss DNA aptamer Apt-10, which specifically bound to MDPV with high affinity(Kd=467 nM) was successfully screened, and the aptamer was also found to be good specific to MDPV. The selected Apt-10 aptamer can be used to distinguish MDPV and goose parvovirus(GPV). Three-dimensional structural analysis of the Apt-10 aptamer indicated that it folded into a compact stem-loop motif, which was related to its high affinity. Finally, a label-free detection method based on unmodified gold nanoparticles and Apt-10 aptamer was developed for MDPV determination. The concentration of Apt-10 aptamer at 5 μM was optimal for MDPV determination in the label-free aptasensor. Excellent linearity was acquired and the lowest detection limit was 1.5 or 3 EID50(50% egg infection dose) of MDPV, respectively, depending upon spectrophotometry or the naked eye were used. These results show the potential of the aptamer for the rapid detection of MDPV and antiviral research.

关键词： aptamer label-free aptasensor Muscovy duck parvovirus virus detection

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