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Zhao D, Lu Y, Zong H, Cao X, Lu M, Tang C, Zhou Y, Li K, Xiao J. Rapid Real-Time PCR Based on Core-Shell Tecto-Dendrimer-Entrapped Au Nanoparticles. ACS Biomater Sci Eng 2024. [PMID: 39233659 DOI: 10.1021/acsbiomaterials.4c01089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/06/2024]
Abstract
Rapid real-time PCR (generally <1 h) has broad prospects. In this study, we synthesized a new type of nanomaterial core-shell tecto-dendrimer coated with Au nanoparticles (Au CSTDs) for research in this field. The experimental results showed that Au CSTDs could significantly shorten the time of real-time PCR (from 72 to 28 min) with different templates, while the detection limit reached 10 copies and the nonspecific amplification was significantly reduced. Furthermore, experimental analyses and theoretical studies using the finite element simulation method confirmed that Au CSTDs function by synergistically enhancing electrostatic adsorption and thermal conductivity. These properties play a key role in improving real-time PCR, especially in particle-particle interactions. This study contributes an advanced method to rapid real-time PCR, which is expected to remarkably improve the efficiency, lower the detection limit, and enhance the specificity of molecular detection.
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Affiliation(s)
- Dongqing Zhao
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Yao Lu
- State Key Laboratory for Modification of Chemical Fibers and Polymer Materials, College of Materials Science and Engineering, Donghua University, Shanghai 201620, China
| | - Huanhuan Zong
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Xueyan Cao
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Meng Lu
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Chen Tang
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Yuxun Zhou
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Kai Li
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
| | - Junhua Xiao
- College of Biological Science and Medical Engineering, Donghua University, Shanghai 201620, China
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Liu Y, Hu Z, Yang S, Xu N, Song Q, Gao Y, Wen W. Fabrication of Cost-Effective Microchip-Based Device Using Sandblasting Technique for Real-Time Multiplex PCR Detection. MICROMACHINES 2024; 15:944. [PMID: 39203595 PMCID: PMC11356311 DOI: 10.3390/mi15080944] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/23/2024] [Revised: 07/18/2024] [Accepted: 07/22/2024] [Indexed: 09/03/2024]
Abstract
The combination of multiplex polymerase chain reaction (mPCR) and microfluidic technologies demonstrates great significance in biomedical applications. However, current microfluidics-based molecular diagnostics face challenges in multi-target detection due to their limited fluorescence channels, complicated fabrication process, and high cost. In this research, we proposed a cost-effective sandblasting method for manufacturing silicon microchips and a chip-based microdevice for field mPCR detection. The atomic force microscopy (AFM) images showed a rough surface of the sandblasted microchips, leading to poor biocompatibility. To relieve the inhibitory effect, we dip-coated a layer of bovine serum albumin (BSA) on the irregular substrate. The optimized coating condition was determined by scanning electron microscope (SEM) and energy-dispersive X-ray spectroscopy (EDS) (65 °C for 60 min). After sufficient coating, we performed on-chip PCR tests with 500 copies/mL Coronavirus Disease 2019 (COVID-19) standard sample within 20 min, and the sandblasted microchip displayed a higher amplification rate compared to dry etching chips. Finally, we achieved a 50 min mPCR for screening five resistance genes of the endophthalmitis pathogens on our microdevices, with strong specificity and reliability. Thus, this sandblasted microchip-based platform not only provides a rapid, accessible, and effective solution for multiplex molecular detection but also enables large-scale microfabrication in a low-cost and convenient way.
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Affiliation(s)
- Yiteng Liu
- Division of Emerging Interdisciplinary Areas, Academy of Interdisciplinary Studies, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong SAR 999077, China; (Y.L.)
- Thrust of Advanced Materials, The Hong Kong University of Science and Technology (Guangzhou), Nansha, Guangzhou 511400, China
| | - Zhiyang Hu
- Division of Emerging Interdisciplinary Areas, Academy of Interdisciplinary Studies, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong SAR 999077, China; (Y.L.)
- Thrust of Advanced Materials, The Hong Kong University of Science and Technology (Guangzhou), Nansha, Guangzhou 511400, China
| | - Siyu Yang
- Department of Physics, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong SAR 999077, China
| | - Na Xu
- Shenzhen Shineway Technology Corporation, Shenzhen 518048, China
| | - Qi Song
- Department of Physics, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong SAR 999077, China
| | - Yibo Gao
- Shenzhen Shineway Technology Corporation, Shenzhen 518048, China
| | - Weijia Wen
- Thrust of Advanced Materials, The Hong Kong University of Science and Technology (Guangzhou), Nansha, Guangzhou 511400, China
- Department of Physics, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong SAR 999077, China
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Zhao X, Bhat A, O’Connor C, Curtin J, Singh B, Tian F. Review of Detection Limits for Various Techniques for Bacterial Detection in Food Samples. NANOMATERIALS (BASEL, SWITZERLAND) 2024; 14:855. [PMID: 38786811 PMCID: PMC11124167 DOI: 10.3390/nano14100855] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2024] [Revised: 05/07/2024] [Accepted: 05/12/2024] [Indexed: 05/25/2024]
Abstract
Foodborne illnesses can be infectious and dangerous, and most of them are caused by bacteria. Some common food-related bacteria species exist widely in nature and pose a serious threat to both humans and animals; they can cause poisoning, diseases, disabilities and even death. Rapid, reliable and cost-effective methods for bacterial detection are of paramount importance in food safety and environmental monitoring. Polymerase chain reaction (PCR), lateral flow immunochromatographic assay (LFIA) and electrochemical methods have been widely used in food safety and environmental monitoring. In this paper, the recent developments (2013-2023) covering PCR, LFIA and electrochemical methods for various bacterial species (Salmonella, Listeria, Campylobacter, Staphylococcus aureus (S. aureus) and Escherichia coli (E. coli)), considering different food sample types, analytical performances and the reported limit of detection (LOD), are discussed. It was found that the bacteria species and food sample type contributed significantly to the analytical performance and LOD. Detection via LFIA has a higher average LOD (24 CFU/mL) than detection via electrochemical methods (12 CFU/mL) and PCR (6 CFU/mL). Salmonella and E. coli in the Pseudomonadota domain usually have low LODs. LODs are usually lower for detection in fish and eggs. Gold and iron nanoparticles were the most studied in the reported articles for LFIA, and average LODs were 26 CFU/mL and 12 CFU/mL, respectively. The electrochemical method revealed that the average LOD was highest for cyclic voltammetry (CV) at 18 CFU/mL, followed by electrochemical impedance spectroscopy (EIS) at 12 CFU/mL and differential pulse voltammetry (DPV) at 8 CFU/mL. LOD usually decreases when the sample number increases until it remains unchanged. Exponential relations (R2 > 0.95) between LODs of Listeria in milk via LFIA and via the electrochemical method with sample numbers have been obtained. Finally, the review discusses challenges and future perspectives (including the role of nanomaterials/advanced materials) to improve analytical performance for bacterial detection.
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Affiliation(s)
- Xinyi Zhao
- School of Food Science and Environmental Health, Technological University Dublin, Grangegorman, D07 ADY7 Dublin, Ireland; (X.Z.); (A.B.); (C.O.); (B.S.)
- FOCAS Research Institute, Technological University Dublin, Camden Row, D08 CKP1 Dublin, Ireland
| | - Abhijnan Bhat
- School of Food Science and Environmental Health, Technological University Dublin, Grangegorman, D07 ADY7 Dublin, Ireland; (X.Z.); (A.B.); (C.O.); (B.S.)
- MiCRA Biodiagnostics Technology Gateway and Health, Engineering & Materials Sciences (HEMS) Research Hub, Technological University Dublin, D24 FKT9 Dublin, Ireland
| | - Christine O’Connor
- School of Food Science and Environmental Health, Technological University Dublin, Grangegorman, D07 ADY7 Dublin, Ireland; (X.Z.); (A.B.); (C.O.); (B.S.)
| | - James Curtin
- Faculty of Engineering and Built Environment, Technological University Dublin, Bolton Street, D01 K822 Dublin, Ireland;
| | - Baljit Singh
- School of Food Science and Environmental Health, Technological University Dublin, Grangegorman, D07 ADY7 Dublin, Ireland; (X.Z.); (A.B.); (C.O.); (B.S.)
- MiCRA Biodiagnostics Technology Gateway and Health, Engineering & Materials Sciences (HEMS) Research Hub, Technological University Dublin, D24 FKT9 Dublin, Ireland
| | - Furong Tian
- School of Food Science and Environmental Health, Technological University Dublin, Grangegorman, D07 ADY7 Dublin, Ireland; (X.Z.); (A.B.); (C.O.); (B.S.)
- FOCAS Research Institute, Technological University Dublin, Camden Row, D08 CKP1 Dublin, Ireland
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Li Y, Lin S, Xue Y, Jia Q, Wang Y, Xie Y, Shi C, Ma C. Boron nitride nanoplate-based improvement of the specificity and sensitivity in loop-mediated isothermal amplification for Vibrio parahaemolyticus detection. Anal Chim Acta 2023; 1280:341851. [PMID: 37858548 DOI: 10.1016/j.aca.2023.341851] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Revised: 09/24/2023] [Accepted: 09/26/2023] [Indexed: 10/21/2023]
Abstract
BACKGROUND Nucleic acid testing based on DNA amplification is gradually entering people's modern life for clinical diagnosis, food safety monitoring and infectious disease prevention. Polymerase chain reaction (PCR) and loop-mediated isothermal amplification (LAMP) are the most powerful techniques that have been the gold standard for quantitative nucleic acid analysis. However, the high nonspecific amplification rate caused by the formation of primer dimers, hairpin structures and mismatched hybridization severely restricts their real-world applications. It is highly desirable to explore a way for improving the specificity and sensitivity of PCR and LAMP assays. RESULTS In this work, we demonstrated that a nanomaterial boron nitride nanoplate (BNNP), due to its unique surface properties, can interact with the main components of the amplification reaction, such as single stranded primers and Bst DNA polymerase, and increase the thermal conductivity of the solution. As a result, the presence of BNNPs dramatically improved the specificity of PCR and LAMP. And BNNPs maintained the specificity even after five rounds of PCR. Moreover, the sensitivity of LAMP was also enhanced by BNNPs, and the detection limit of BNNP-based LAMP was two orders of magnitude lower than that of classical LAMP. Then the BNNP-based LAMP was applied to detect Vibrio parahaemolyticus in contaminated seafood samples with high specificity and a 10-fold increase in sensitivity. SIGNIFICANCE This is the first systematic demonstration of BNNPs as a promising additive to enhance the efficiency and fidelity of PCR and LAMP amplification reactions, thereby greatly expanding the application of nucleic acid detection in a wide range of laboratory and clinical settings.
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Affiliation(s)
- Yong Li
- Shandong Provincial Key Laboratory of Biochemical Engineering, Qingdao Nucleic Acid Rapid Detection Engineering Research Center, Qingdao Key Laboratory of Nucleic Acid Rapid Detection, Sino-UAE International Cooperative Joint Laboratory of Pathogenic Microorganism Rapid Detection, College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, 266042, Qingdao, China
| | - Shuo Lin
- Shandong Provincial Key Laboratory of Biochemical Engineering, Qingdao Nucleic Acid Rapid Detection Engineering Research Center, Qingdao Key Laboratory of Nucleic Acid Rapid Detection, Sino-UAE International Cooperative Joint Laboratory of Pathogenic Microorganism Rapid Detection, College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, 266042, Qingdao, China
| | - Yuxin Xue
- Shandong Provincial Key Laboratory of Biochemical Engineering, Qingdao Nucleic Acid Rapid Detection Engineering Research Center, Qingdao Key Laboratory of Nucleic Acid Rapid Detection, Sino-UAE International Cooperative Joint Laboratory of Pathogenic Microorganism Rapid Detection, College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, 266042, Qingdao, China
| | - Qianyue Jia
- Shandong Provincial Key Laboratory of Biochemical Engineering, Qingdao Nucleic Acid Rapid Detection Engineering Research Center, Qingdao Key Laboratory of Nucleic Acid Rapid Detection, Sino-UAE International Cooperative Joint Laboratory of Pathogenic Microorganism Rapid Detection, College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, 266042, Qingdao, China
| | - Ye Wang
- Clinical Laboratory, Qingdao Central Hospital, The Second Affiliated Hospital of Medical College of Qingdao University, 266042, Qingdao, China
| | - Yingqiu Xie
- Department of Biology, School of Sciences and Humanities, Nazarbayev University, Astana, Kazakhstan
| | - Chao Shi
- Qingdao Nucleic Acid Rapid Testing International Science and Technology Cooperation Base, College of Life Sciences, Department of Pathogenic Biology, School of Basic Medicine, Department of the Clinical Laboratory, The Affiliated Hospital of Qingdao University, Qingdao University, 266071, Qingdao, China
| | - Cuiping Ma
- Shandong Provincial Key Laboratory of Biochemical Engineering, Qingdao Nucleic Acid Rapid Detection Engineering Research Center, Qingdao Key Laboratory of Nucleic Acid Rapid Detection, Sino-UAE International Cooperative Joint Laboratory of Pathogenic Microorganism Rapid Detection, College of Marine Science and Biological Engineering, Qingdao University of Science and Technology, 266042, Qingdao, China.
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Ji D, Zhao J, Liu Y, Wei D. Electrical Nanobiosensors for Nucleic Acid Based Diagnostics. J Phys Chem Lett 2023; 14:4084-4095. [PMID: 37125726 DOI: 10.1021/acs.jpclett.3c00495] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
Recent advances in nanotechnologies have promoted the iterative updating of nucleic acid sensors. Among various sensing technologies, the electrical nanobiosensor is regarded as one of the most promising prospects to achieve rapid, precise, and point-of-care nucleic acid based diagnostics. In this Perspective, we introduce recent progresses in electrical nanobiosensors for nucleic acid detection. First, the strategies for improving detection performance are summarized, including chemical amplification and electrical amplification. Then, the detection mechanism of electrical nanobiosensors, such as electrochemical biosensors, field-effect transistors, and photoelectric enhanced biosensors, is illustrated. At the same time, their applications in cancer screening, pathogen detection, gene sequencing, and genetic disease diagnosis are introduced. Finally, challenges and future prospects in clinical application are discussed.
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Affiliation(s)
- Daizong Ji
- State Key Laboratory of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
- Department of Macromolecular Science, Fudan University, Shanghai 200433, China
- Laboratory of Molecular Materials and Devices, Fudan University, Shanghai 200433, China
| | - Junhong Zhao
- State Key Laboratory of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
- Department of Macromolecular Science, Fudan University, Shanghai 200433, China
- Laboratory of Molecular Materials and Devices, Fudan University, Shanghai 200433, China
| | - Yunqi Liu
- Laboratory of Molecular Materials and Devices, Fudan University, Shanghai 200433, China
- Institute of Chemistry, Chinese Academy of Science, Beijing 100190, China
| | - Dacheng Wei
- State Key Laboratory of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
- Department of Macromolecular Science, Fudan University, Shanghai 200433, China
- Laboratory of Molecular Materials and Devices, Fudan University, Shanghai 200433, China
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6
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Recent advance in nucleic acid amplification-integrated methods for DNA methyltransferase assay. Trends Analyt Chem 2023. [DOI: 10.1016/j.trac.2023.116998] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/25/2023]
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7
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Electrochemical biosensor based on efficient target-trigger T-structure recycling with dual strand displacement amplification for sensing miRNA-155. Anal Chim Acta 2022; 1238:340609. [DOI: 10.1016/j.aca.2022.340609] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Revised: 11/02/2022] [Accepted: 11/10/2022] [Indexed: 11/18/2022]
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Du Z, Lin S, Li J, Tian J, Xu W, Huang K, Liu Q, Sun Y. Nano-gold-enhanced LAMP method for qualitative visual detection of Salmonella in milk. Mikrochim Acta 2022; 189:365. [PMID: 36048255 DOI: 10.1007/s00604-022-05459-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Accepted: 08/09/2022] [Indexed: 10/14/2022]
Abstract
Since Salmonella can cause foodborne disease and public health safety issues and requires a robust, rapid, on-site detection method, a novel visual qualitative method with nano-gold-enhanced loop-mediated isothermal amplification (LAMP) reaction was established for detecting Salmonella in an integrated tube. During the experiment, nano-gold were used to enhance LAMP amplification, improving amplification efficiency and shortening the reaction time to within 30 min. Visual qualitative detection is achieved via negative staining, involving the addition of CuSO4 to the final products of the LAMP reaction. Ring-like white accumulation occurs in the absence of Salmonella targets but not when they are present. After completing the LAMP reaction, the integration tube was shaken gently for 1 min to observe the liquid phase system changes, realizing the closed tube detection of Salmonella. The process resolved the challenge presented by cross-contamination, false positives, and nonspecific amplification during the LAMP reaction. This method was used to detect Salmonella in milk, further highlighting its prospects in the field of rapid food safety detection.
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Affiliation(s)
- ZaiHui Du
- College of Food Science and Nutritional Engineering (Institute of Nutrition and Health), China Agricultural University, Beijing, 100083, China
| | - ShengHao Lin
- College of Food Science and Nutritional Engineering (Institute of Nutrition and Health), China Agricultural University, Beijing, 100083, China
| | - JiaLe Li
- College of Food Science and Nutritional Engineering (Institute of Nutrition and Health), China Agricultural University, Beijing, 100083, China
| | - JingJing Tian
- College of Food Science and Nutritional Engineering (Institute of Nutrition and Health), China Agricultural University, Beijing, 100083, China
| | - WenTao Xu
- College of Food Science and Nutritional Engineering (Institute of Nutrition and Health), China Agricultural University, Beijing, 100083, China. .,Key Laboratory of Agricultural Genetically Modified Organisms Safety Evaluation (Edible), Ministry of Agriculture, Beijing, 100083, China.
| | - KunLun Huang
- College of Food Science and Nutritional Engineering (Institute of Nutrition and Health), China Agricultural University, Beijing, 100083, China.,Key Laboratory of Agricultural Genetically Modified Organisms Safety Evaluation (Edible), Ministry of Agriculture, Beijing, 100083, China
| | - QingLiang Liu
- Shandong Baier Testing Co., Ltd, No.1, Fuhua Lane 2, Weifang City, 261061, Shandong Province, China
| | - YanLi Sun
- Shandong Baier Testing Co., Ltd, No.1, Fuhua Lane 2, Weifang City, 261061, Shandong Province, China
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Ning Z, Chen M, Wu G, Zhang Y, Shen Y. Recent advances of functional nucleic acids-based electrochemiluminescent sensing. Biosens Bioelectron 2021; 191:113462. [PMID: 34198172 DOI: 10.1016/j.bios.2021.113462] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2021] [Revised: 06/12/2021] [Accepted: 06/21/2021] [Indexed: 12/19/2022]
Abstract
Electroluminescence (ECL) has been used in extensive applications ranging from bioanalysis to clinical diagnosis owing to its simple device requirement, low background, high sensitivity, and wide dynamic range. Nucleic acid is a significant theme in ECL bioanalysis. The inherent versatile selective molecular recognition of nucleic acids and their programmable self-assembly make it desirable for the robust construction of nanostructures. Benefiting from their unique structures and physiochemical properties, ECL biosensing based on nucleic acids has experienced rapid growth. This review focuses on recent applications of nucleic acids in ECL sensing systems, particularly concerning the employment of nucleic acids as molecular recognition elements, signal amplification units, and sensing interface schemes. In the end, an outlook of nucleic acid-based ECL biosensing will be provided for future developments and directions. We envision that nucleic acids, which act as an essential component for both bioanalysis and clinical diagnosis, will provide a new thinking model and driving force for developing next-generation sensing systems.
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Affiliation(s)
- Zhenqiang Ning
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 210009, China
| | - Mengyuan Chen
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 210009, China
| | - Guoqiu Wu
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 210009, China; Center of Clinical Laboratory Medicine, Zhongda Hospital, Southeast University, Nanjing, 210009, China; Jiangsu Provincial Key Laboratory of Critical Care Medicine, Southeast University, Nanjing, 210009, China
| | - Yuanjian Zhang
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 210009, China
| | - Yanfei Shen
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 210009, China; Center of Clinical Laboratory Medicine, Zhongda Hospital, Southeast University, Nanjing, 210009, China; Jiangsu Provincial Key Laboratory of Critical Care Medicine, Southeast University, Nanjing, 210009, China.
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