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Verginelli D, Quarchioni C, Spinella K, La Rocca D, Bonini P, Fusco C, Misto M, Peddis S, Peroni L, Marchesi U. Comparative assessment of three commercial kits and in house optimized PCR assays for GMO screening in food and feed. MethodsX 2024; 13:102878. [PMID: 39188587 PMCID: PMC11345693 DOI: 10.1016/j.mex.2024.102878] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2024] [Accepted: 07/23/2024] [Indexed: 08/28/2024] Open
Abstract
Screening strategies for GMO detection in food and feed are a crucial aspect in GMO testing laboratories for streamlining the analytical workflow and reducing turnaround time and costs. These strategies can be more or less complex or even be targeted according to the ingredients in the product, but whatever the choice, a good basic approach is generally based on the search for 35S promoter (P35S), nos-terminator (T-nos) and FMV promoter (P-FMV). In this study, we compare the singleplex real time PCR method for P35S, T-nos and P-FMV detection currently adopted by the Italian National Reference Laboratory for GM food and feed (NRL) with three commercial kits available on the market for giving a greater choice to consider the best approach suitable to the official control laboratories that are different from each other.•The NRL optimized singleplex PCR methods and the three commercial kits fully respect all the validation parameters criteria according to the minimum performance requirements (MPR) of ENGL [1]•Screening strategies for GMO detection in food and feed are a crucial aspect in GMO testing laboratories and being the commercial kits different from each other, the laboratory can choose the methods best suit their needs reducing turnaround time and costs.
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Affiliation(s)
- Daniela Verginelli
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Cinzia Quarchioni
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Katia Spinella
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Davide La Rocca
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Pamela Bonini
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Cristiana Fusco
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Marisa Misto
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Stefania Peddis
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Lorella Peroni
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
| | - Ugo Marchesi
- National Reference Laboratory for GM Food and Feed, GMO Unit, Istituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”, Rome, Italy
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2
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Vahdani M, Sahari MA, Tanavar M. Quantitative and qualitative analysis of three DNA extraction methods from soybean, maize, and canola oils and investigation of the presence of genetically modified organisms (GMOs). FOOD CHEMISTRY. MOLECULAR SCIENCES 2024; 8:100201. [PMID: 38577346 PMCID: PMC10990853 DOI: 10.1016/j.fochms.2024.100201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2024] [Revised: 03/05/2024] [Accepted: 03/16/2024] [Indexed: 04/06/2024]
Abstract
The objective of this study was to develop a DNA-based method for the identification and tracking of edible oils, which is important for health management. Three different DNA extraction methods (CTAB, MBST kit, and manual hexane-based method) were used to obtain high-purity DNA from crude and refined soybean, maize, and canola oils. PCR was then conducted using specific primers to identify the presence of genes related to each oil type and to assess transgenicity. The results showed that DNA was present in crude and refined oils, but in very low amounts. However, using method 3 for DNA extraction provided sufficient quantity and quality of DNA for successful PCR amplification. The study concluded that the main challenge in DNA extraction from oils is the presence of PCR inhibitors, which can be overcome using the manual hexane-based method. Also, the examination of protein presence in the oils using SDS-PAGE did not indicate any protein bands.
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Affiliation(s)
- Melika Vahdani
- Department of Food Science and Technology, College of Agriculture, Tarbiat Modares University, P. O. Box, 14115-336 Tehran, Iran
| | - Mohammad Ali Sahari
- Department of Food Science and Technology, College of Agriculture, Tarbiat Modares University, P. O. Box, 14115-336 Tehran, Iran
| | - Mehrnaz Tanavar
- Department of Plant Genetics and Breeding, College of Agriculture, Tarbiat Modares University, Tehran, Iran
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3
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Xing Y, Liang J, Dong F, Wu J, Shi J, Xu J, Wang J. Rapid Visual LAMP Method for Detection of Genetically Modified Organisms. ACS OMEGA 2023; 8:29608-29614. [PMID: 37599972 PMCID: PMC10433496 DOI: 10.1021/acsomega.3c03567] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Accepted: 07/19/2023] [Indexed: 08/22/2023]
Abstract
We developed a novel loop-mediated isothermal amplification (LAMP) method using DNA captured on polyacrylamide microparticles (PAMMPs) as templates (PAMMPs@DNA-LAMP) for rapid qualitative detection of genetically modified organisms (GMOs). Here, DNA was extracted by a fast and cost-effective method using PAMMPs. Four LAMP primers were designed for the PAMMPs@DNA-LAMP method to detect the cauliflower mosaic virus 35S (CaMV35S) promotor in GMOs. We thus developed this method for rapid extraction of DNA (5-10 min) and fast amplification of DNA within ∼30 min at a constant temperature of 63 °C. Moreover, the DNA captured by PAMMPs (PAMMPs@DNA) could be effectively detected by both conventional and quantitative PCR (qPCR) and LAMP. The PAMMPs@DNA-LAMP method was validated with high specificity, sensitivity, and performance for practical sample analysis. This assay detected 0.01% target sequences, which had a high specificity like qPCR and better than the conventional PCR (cPCR). Furthermore, PAMMPs@DNA-LAMP was successfully used to extract and detect DNA from food samples of the major crops (soybean, maize, rice, etc.). In summary, a novel PAMMPs@DNA-LAMP assay has been developed, which has higher sensitivity and spends less time than the cPCR detection using the conventional DNA extracted process. This method offers a novel approach for rapid detection of GMOs in the field.
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Affiliation(s)
- Yujun Xing
- Jiangsu
Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation
Base, Ministry of Science and Technology/Key Laboratory for Control/Technology
and Standard for Agro-Product Safety and Quality, Ministry of Agriculture
and Rural Affairs/Collaborative Innovation Center for Modern Grain
Circulation and Safety/Institute of Food Safety and Nutrition, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China
| | - Jie Liang
- Jiangsu
Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation
Base, Ministry of Science and Technology/Institute of Food Safety
and Nutrition, Jiangsu Academy of Agricultural
Sciences, Nanjing 210014, China
| | - Fei Dong
- Jiangsu
Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation
Base, Ministry of Science and Technology/Institute of Food Safety
and Nutrition, Jiangsu Academy of Agricultural
Sciences, Nanjing 210014, China
| | - Jirong Wu
- Jiangsu
Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation
Base, Ministry of Science and Technology/Institute of Food Safety
and Nutrition, Jiangsu Academy of Agricultural
Sciences, Nanjing 210014, China
| | - Jianrong Shi
- Jiangsu
Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation
Base, Ministry of Science and Technology/Institute of Food Safety
and Nutrition, Jiangsu Academy of Agricultural
Sciences, Nanjing 210014, China
| | - Jianhong Xu
- Jiangsu
Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation
Base, Ministry of Science and Technology/Key Laboratory for Control/Technology
and Standard for Agro-Product Safety and Quality, Ministry of Agriculture
and Rural Affairs/Collaborative Innovation Center for Modern Grain
Circulation and Safety/Institute of Food Safety and Nutrition, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China
| | - Jinke Wang
- State
Key Laboratory of Digital Medical Engineering, School of Biological
Science and Medical Engineering, Southeast
University, Nanjing 210096, China
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Wang J, Wang Y, Hu X, Yang Q, Chen Y, Jiang W, Liu X, Liu H, Zeng H. The development of RPA and CRISPR-Cas12a based immunoassay strip for sensitive detection of genetically modified crops. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109048] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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5
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Advances in Electrochemical Techniques for the Detection and Analysis of Genetically Modified Organisms: An Analysis Based on Bibliometrics. CHEMOSENSORS 2022. [DOI: 10.3390/chemosensors10050194] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Since the first successful transgenic plants obtained in 1983, dozens of plants have been tested. On the one hand, genetically modified plants solve the problems of agricultural production. However, due to exogenous genes of transgenic plants, such as its seeds or pollen drift, diffusion between populations will likely lead to superweeds or affect the original traits. The detection technology of transgenic plants and their products have received considerable attention. Electrochemical sensing technology is a fast, low-cost, and portable analysis technology. This review interprets the application of electrochemical technology in the analysis and detection of transgenic products through bibliometrics. A total of 83 research articles were analyzed, spanning 2001 to 2021. We described the different stages in the development history of the subject and the contributions of countries and institutions to the topic. Although there were more annual publications in some years, there was no explosive growth in any period. The lack of breakthroughs in this technology is a significant factor in the lack of experts from other fields cross-examining the subject. Through keyword co-occurrence analysis, different research directions on this topic were discussed. The use of nanomaterials with excellent electrical conductivity allows for more sensitive detection of GM crops by electrochemical sensors. Furthermore, co-citation analysis was used to interpret the most popular reports on the topic. In the end, we predict the future development of this topic according to the analysis results.
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6
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Wang J, Yang Q, Liu H, Chen Y, Jiang W, Wang Y, Zeng H. A nanomaterial-free and thionine labeling-based lateral flow immunoassay for rapid and visual detection of the transgenic CP4-EPSPS protein. Food Chem 2022; 378:132112. [PMID: 35033711 DOI: 10.1016/j.foodchem.2022.132112] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 12/14/2021] [Accepted: 01/06/2022] [Indexed: 12/28/2022]
Abstract
Nanomaterial-based lateral flow immunoassays (LFIAs) have been widely used for the on-site detection of genetically modified components. However, the practical applications are often limited by the complex matrix, such as in red samples. In this study, a thionine (Thi) labeling-based LFIA was developed for the first time to detect CP4-EPSPS protein. The optimal labeling concentration of Thi was 0.5 mg/mL, and the antibody could be rapidly coupled to Thi in 10 min. The visual limit of detection (vLOD) levels for transgenic soybean, sugar beet, and cotton containing the CP4-EPSPS protein reached 0.05%, 0.1%, and 0.1%, respectively, and had no interference from other proteins. After storage at 4 °C for three months, the LFIA sensitivity remained unchanged and showed good stability. This method could be used to screen and detect a variety of transgenic crops containing the CP4-EPSPS protein, and the results were consistent with the current standard assay. This study pioneered the development of an immunochromatographic method using Thi as a marker and applied it to the detection of the CP4-EPSPS protein in herbicide-tolerant transgenic crops. This provides a new method for the rapid immunoassay of Thi as a dye and has good prospects for practical application.
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Affiliation(s)
- Jinbin Wang
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai 201106, China
| | - Qianwen Yang
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; School of Life Science and Engineering, Lanzhou University of Technology, Lanzhou 730050, China
| | - Hua Liu
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai 201106, China
| | - Yifan Chen
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai 201106, China
| | - Wei Jiang
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai 201106, China
| | - Yu Wang
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; School of Life Science and Engineering, Lanzhou University of Technology, Lanzhou 730050, China
| | - Haijuan Zeng
- Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Key Laboratory of Agricultural Genetics and Breeding, Shanghai 201106, China; Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai 201106, China.
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7
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Rnase A Enzyme Modification of Optimized SDS Protocol for DNA Extraction Suitable for Real-Time PCR Screening of GMOs. MACEDONIAN VETERINARY REVIEW 2021. [DOI: 10.2478/macvetrev-2021-0028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Abstract
As the number of genetically modified crops increases rapidly, their accurate detection is significant for labelling and safety assessment. Currently, real-time PCR is the “golden standard” method for GMO detection. Hence, extraction of high quality DNA represents a crucial step for accurate and efficient DNA amplification. For GMO presence evaluation in the extracted DNA from raw corn kernels and roasted soybean, we used real-time PCR method, in consistent with the ISO17025 accreditation standards. As for DNA extraction, modified basic SDS protocol by adding RNase A enzyme in different steps of the protocol, with different time and temperature of incubation was used. The results showed as most suitable, the protocol where 10 µl of RNase A enzyme was added together with the lysis buffer at 65 °C for 30 minutes. Data for DNA yield and purity for roasted soybean was 469.6±3.3 µg/ml with A260/280 absorbance ratio 1.78±0.01. Suitability of DNA extracts for GMO analysis was assessed by screening for the presence of 35S promotor and Tnos terminator. Diluted extracts in concentrations 10, 1, 0.1, 0.01 and 0.0027 ng/µl, were tested in six replicates. Positive signal of amplification (LOD) was detected in all concentrations for both genetic elements in both matrices. The LOQ for 35S and Tnos for both matrices was 0.1 ng, while for Tnos in raw corn kernels was 0.01 ng. This in-house developed DNA extraction method is simple and obtains high-quality DNA suitable for GMO screening of 35S promotor and Tnos terminator in both raw and processed matrices.
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8
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Yang Q, Wang Y, Liu X, Liu H, Bao H, Wang J, Zeng H. A Label-Free Immunosensor Based on Gold Nanoparticles/Thionine for Sensitive Detection of PAT Protein in Genetically Modified Crops. Front Chem 2021; 9:770584. [PMID: 34950635 PMCID: PMC8688707 DOI: 10.3389/fchem.2021.770584] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2021] [Accepted: 10/29/2021] [Indexed: 11/13/2022] Open
Abstract
Genetically modified (GM) crops containing phosphinothricin acetyltransferase (PAT) protein has been widely planted worldwide. The development of a rapid method for detecting PAT protein is of great importance to food supervision. In this study, a simple label-free electrochemical immunosensor for the ultrasensitive detection of PAT protein was constructed using thionine (Thi)/gold nanoparticles (AuNPs) as signal amplification molecules and electrochemically active substances. Under optimum conditions, the limits of detection of the sensor for soybean A2704-12 and maize BT-176 were 0.02% and 0.03%, respectively. The sensor could detect crops containing PAT protein and had no cross-reaction with other proteins. After storage at 4°C for 33 days, the sensor still retained 82.5% of the original signal, with a relative standard deviation (RSD) of 0.92%. The recoveries of the sensor for soybean A2704-12 and maize BT-176 were 85%-108% and 98%-113%, respectively. The developed PAT-target immunosensor with high sensitivity, specificity, and satisfactory reproducibility and accuracy will be a useful tool in the trace screening of GM crops. Moreover, this design concept can be extended to other proteins by simply changing the antibody.
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Affiliation(s)
- Qianwen Yang
- Key Laboratory of Agricultural Genetics and Breeding, The Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,School of Life Science and Engineering, Lanzhou University of Technology, Lanzhou, China
| | - Yu Wang
- Key Laboratory of Agricultural Genetics and Breeding, The Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,School of Life Science and Engineering, Lanzhou University of Technology, Lanzhou, China
| | - Xiaofeng Liu
- School of Life Science and Engineering, Lanzhou University of Technology, Lanzhou, China
| | - Hua Liu
- Key Laboratory of Agricultural Genetics and Breeding, The Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Huifang Bao
- Institute of Applied Microbiology, Xinjiang Academy of Agricultural Sciences, Urumchi, China
| | - Jinbin Wang
- Key Laboratory of Agricultural Genetics and Breeding, The Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Haijuan Zeng
- Key Laboratory of Agricultural Genetics and Breeding, The Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Crops Ecological Environment Security Inspection and Supervision Center (Shanghai), Ministry of Agriculture and Rural Affairs, Shanghai, China
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9
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Zhang H, Yan Z, Wang X, Gaňová M, Chang H, Laššáková S, Korabecna M, Neuzil P. Determination of Advantages and Limitations of qPCR Duplexing in a Single Fluorescent Channel. ACS OMEGA 2021; 6:22292-22300. [PMID: 34497918 PMCID: PMC8412922 DOI: 10.1021/acsomega.1c02971] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/08/2021] [Accepted: 08/02/2021] [Indexed: 06/13/2023]
Abstract
Real-time (quantitative) polymerase chain reaction (qPCR) has been widely applied in molecular diagnostics due to its immense sensitivity and specificity. qPCR multiplexing, based either on fluorescent probes or intercalating dyes, greatly expanded PCR capability due to the concurrent amplification of several deoxyribonucleic acid sequences. However, probe-based multiplexing requires multiple fluorescent channels, while intercalating dye-based multiplexing needs primers to be designed for amplicons having different melting temperatures. Here, we report a single fluorescent channel-based qPCR duplexing method on a model containing the sequence of chromosomes 21 (Chr21) and 18 (Chr18). We combined nonspecific intercalating dye EvaGreen with a 6-carboxyfluorescein (FAM) probe specific to either Chr21 or Chr18. The copy number (cn) of the target linked to the FAM probe could be determined in the entire tested range from the denaturation curve, while the cn of the other one was determined from the difference between the denaturation and elongation curves. We recorded the amplitude of fluorescence at the end of denaturation and elongation steps, thus getting statistical data set to determine the limit of the proposed method in detail in terms of detectable concentration ratios of both targets. The proposed method eliminated the fluorescence overspilling that happened in probe-based qPCR multiplexing and determined the specificity of the PCR product via melting curve analysis. Additionally, we performed and verified our method using a commercial thermal cycler instead of a self-developed system, making it more generally applicable for researchers. This quantitative single-channel duplexing method is an economical substitute for a conventional rather expensive probe-based qPCR requiring different color probes and hardware capable of processing these fluorescent signals.
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Affiliation(s)
- Haoqing Zhang
- School
of Mechanical Engineering, Department of Microsystem Engineering, Northwestern Polytechnical University, 127 West Youyi Road, Xi’an, Shaanxi 710072, P. R. China
| | - Zhiqiang Yan
- School
of Mechanical Engineering, Department of Microsystem Engineering, Northwestern Polytechnical University, 127 West Youyi Road, Xi’an, Shaanxi 710072, P. R. China
| | - Xinlu Wang
- School
of Mechanical Engineering, Department of Microsystem Engineering, Northwestern Polytechnical University, 127 West Youyi Road, Xi’an, Shaanxi 710072, P. R. China
| | - Martina Gaňová
- Central
European Institute of Technology, Brno University
of Technology, Purkyňova 123, 612 00 Brno, Czech Republic
| | - Honglong Chang
- School
of Mechanical Engineering, Department of Microsystem Engineering, Northwestern Polytechnical University, 127 West Youyi Road, Xi’an, Shaanxi 710072, P. R. China
| | - Soňa Laššáková
- Institute
of Biology and Medical Genetics, First Faculty of Medicine, Charles University and General University Hospital
in Prague, Albertov 4, 128 00 Prague, Czech Republic
| | - Marie Korabecna
- Institute
of Biology and Medical Genetics, First Faculty of Medicine, Charles University and General University Hospital
in Prague, Albertov 4, 128 00 Prague, Czech Republic
| | - Pavel Neuzil
- School
of Mechanical Engineering, Department of Microsystem Engineering, Northwestern Polytechnical University, 127 West Youyi Road, Xi’an, Shaanxi 710072, P. R. China
- Central
European Institute of Technology, Brno University
of Technology, Purkyňova 123, 612 00 Brno, Czech Republic
- School
of Electrical Engineering and Computer Technology, Brno University of Technology, Technická 10, 612 00 Brno, Czech Republic
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10
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Development and assessment of a duplex droplet digital PCR method for quantification of GM rice Kemingdao. Anal Bioanal Chem 2021; 413:4341-4351. [PMID: 34023912 DOI: 10.1007/s00216-021-03390-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Revised: 04/26/2021] [Accepted: 05/03/2021] [Indexed: 10/21/2022]
Abstract
The implementation of genetically modified organism (GMO) labeling policies requires accurate quantitative methods to measure the GMO content in test samples. A Kemingdao/phospholipase D (KMD/PLD) duplex ddPCR method was established with rice genomic DNA (gDNA) of homozygous KMD as template by optimizing the annealing temperature and cycle number. Duplex ddPCR showed a linear response over the dynamic range from 68 to 175,000 copies, covering four orders of magnitude. The limit of detection (LOD) and limit of quantification (LOQ) for duplex ddPCR were determined to be 9 copies and 34 copies of the rice haploid genome, respectively. A very high dilution factor would result in unacceptable bias and coefficients of variation for determining copy number of the gDNA solution, and more than 1000 copies of the DNA template in one reaction is preferred to obtain accurate quantitative results by duplex PCR. Five blinded DNA samples with copy number ratio of 10%, 5%, 1%, 0.1%, and 0.05%, and three blinded real-life matrix samples with mass fraction of 5%, 1%, and 0.5% were quantified by duplex ddPCR, simplex ddPCR, and qPCR. These three methods all gave comparable GMO content and copy numbers within the required precision, but the duplex ddPCR showed the narrowest uncertainty interval and provided the highest precision in comparison to simplex ddPCR and qPCR. The ddPCR is a more appealing and reliable technology for the accurate quantification of GMO content than simplex ddPCR and qPCR considering the uncertainty and precision of quantitative results, the time consumption of generating droplets, and the cost of ddPCR reagents.
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Balbinot S, Srivastav AM, Vidic J, Abdulhalim I, Manzano M. Plasmonic biosensors for food control. Trends Food Sci Technol 2021. [DOI: 10.1016/j.tifs.2021.02.057] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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12
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Hai H, Chen C, Chen D, Li P, Shan Y, Li J. A sensitive electrochemiluminescence DNA biosensor based on the signal amplification of ExoIII enzyme-assisted hybridization chain reaction combined with nanoparticle-loaded multiple probes. Mikrochim Acta 2021; 188:125. [PMID: 33723966 DOI: 10.1007/s00604-021-04777-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2020] [Accepted: 02/23/2021] [Indexed: 10/21/2022]
Abstract
An electrochemiluminescence (ECL) DNA biosensor based on ExoIII exonuclease assistance and hybridization chain reaction (HCR) amplification technology has been constructed. ExoIII exonuclease and triple-helix DNA molecular switch are used in detecting a target in circulation. By combining HCR with AuNPs@DNA, a novel signal probe is built, which enables multiple signal amplification and the high-sensitive detection of transgenic rice BT63 DNA. The Fe3O4@Au solution is added to a magneto-controlled glassy carbon electrode, and sulfhydryl-modified capture DNA (CP) is immobilized on Fe3O4@Au through the Au-S bond. Mercaptoethanol is added to close sites and prevent the nonspecific adsorption of CP on the magnetron glassy carbon electrode. A target DNA is added to a constructed triple-helix DNA molecular centrifuge tube for reaction. Owing to base complementation and the reversible switching of the triple-helix DNA molecular state, the target DNA turns on the triple-helix DNA molecular switch and hybridizes with a long-strand recognition probe (RP) to form a double-stranded DNA (dsDNA). Exonuclease ExoIII is added to specifically recognize and cut the dsDNA and to release the target DNA. The target DNA strand then circulates back completely to open the multiple triple-helix DNA molecular switch, releasing a large number of signal transduction probes (STP). To hybridize with CP, a large amount of STP is added to the electrode. Finally, a AuNPs@DNA signal probe is added to hybridize with STP. H1 and H2 probes are added for the hybridization chain reaction and the indefinite extension of the primer strand on the probe. Then, tris-(bipyridyl)ruthenium(II) is added for ECL signal detection with PBS-tri-n-propylamine as the base solution. In the concentration range 1.0 × 10-16 to 1.0 × 10-8 mol/L of the target DNA, good linear relationship was achieved with the corresponding ECL signal. The detection limit is 3.6 × 10-17 mol/L. The spiked recovery of the rice samples range from 97.2 to 101.5%. The sensor is highly sensitive and has good selectivity, stability, and reproducibility. A novel electrochemiluminescence biosensor with extremely higher sensitivity was prepared for the determination of ultra-trace amount transgenic rice BT63 DNA. The sensitivity was significantly improved by multiple signal enhancements. Firstly, a large number of signal transduction probes are released when the triple-helix DNA molecular switch unlock after recycles assisted by ExoIII exonuclease under target BT63 DNA; and then the signal transduction probes hybridize with the signal probes of AuNPs@(DNA-HCR) produced through hybridization chain reaction. Finally, the signal probes which were embedded with a large amount of electrochemiluminescence reagent produce high luminescence intensity. The detection limit was 3.6 × 10-17 mol/L, which is almost the most sensitive methods reported.
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Affiliation(s)
- Hong Hai
- Guangxi Key Laboratory of Electrochemical and Magnetochemical Function Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin, 541004, Guangxi, China
| | - Ciping Chen
- Guangxi Key Laboratory of Electrochemical and Magnetochemical Function Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin, 541004, Guangxi, China
| | - Dongli Chen
- Guangxi Key Laboratory of Electrochemical and Magnetochemical Function Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin, 541004, Guangxi, China
| | - Peijun Li
- Guangxi Key Laboratory of Electrochemical and Magnetochemical Function Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin, 541004, Guangxi, China
| | - Yang Shan
- Guangxi Key Laboratory of Electrochemical and Magnetochemical Function Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin, 541004, Guangxi, China.,Hunan Institute of Agriculture Product Processing, Hunan Academy of Agricultural Sciences, Changsha, 410125, China
| | - Jianping Li
- Guangxi Key Laboratory of Electrochemical and Magnetochemical Function Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin, 541004, Guangxi, China.
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Yang L, Chen Y, Li R, Xu W, Cui J, Zhang D, Zhang X. Universal LNA Probe-Mediated Multiplex Droplet Digital Polymerase Chain Reaction for Ultrasensitive and Accurate Quantitative Analysis of Genetically Modified Organisms. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2021; 69:1705-1713. [PMID: 33528262 DOI: 10.1021/acs.jafc.0c06433] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Multiplex and high-throughput assays are becoming the main trends in the development of new nucleic acid detection and quantification methods, such as those for genetically modified organism (GMO) analysis. Here, we report a novel universal LNA probe-mediated droplet digital polymerase chain reaction (PCR) method (ULNA-ddPCR) for multiple DNA target quantification in GMOs. In ULNA-ddPCR, only one universal LNA probe is used for multiple DNA targets instead of using one to one TaqMan probe. The specificity, sensitivity, dynamic range, and accuracy of the ULNA-ddPCR method are determined by employing GM rice analysis as an example. Simplex and triplex ULNA-ddPCR assays for three GM rice events, T2A-1, T1C-19, and G6H1, are established and evaluated. All results indicate that the developed simplex and triplex ULNA-ddPCR assays are suitable for quantitative analysis of GM rice events with high sensitivity, accuracy, and low cost. The ULNA-ddPCR method also has the potential for multiple DNA target quantification in other research fields.
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Affiliation(s)
- Litao Yang
- Joint International Research Laboratory of Metabolic and Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
- Institute of Cotton Research, Chinese Academy of Agricultural Sciences/State Key Laboratory of Cotton Biology, Anyang, Henan 455000, China
| | - Yi Chen
- Joint International Research Laboratory of Metabolic and Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Rong Li
- Joint International Research Laboratory of Metabolic and Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Wenting Xu
- Joint International Research Laboratory of Metabolic and Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Jinjie Cui
- Institute of Cotton Research, Chinese Academy of Agricultural Sciences/State Key Laboratory of Cotton Biology, Anyang, Henan 455000, China
| | - Dabing Zhang
- Joint International Research Laboratory of Metabolic and Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Xiujie Zhang
- Development Center of Science and Technology, Ministry of Agriculture of People's Republic of China, Beijing 100025, China
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14
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Ding G, Jin Z, Zhang Y, Han Y, Li G, Jing Y, Li W. Detection of Genetically Modified Rice by Loop-Mediated Isothermal Amplification Assays on a Self-Priming Compartmentalization Chip. FOOD ANAL METHOD 2020. [DOI: 10.1007/s12161-020-01766-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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15
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Fu W, Wang C, Zhu P, Xu W, Li X, Zhu S. A universal analytical approach for screening and monitoring of authorized and unauthorized GMOs. Lebensm Wiss Technol 2020. [DOI: 10.1016/j.lwt.2020.109176] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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16
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Wang X, Chen Y, Chen X, Peng C, Wang L, Xu X, Wu J, Wei W, Xu J. A highly integrated system with rapid DNA extraction, recombinase polymerase amplification, and lateral flow biosensor for on-site detection of genetically modified crops. Anal Chim Acta 2020; 1109:158-168. [PMID: 32252899 DOI: 10.1016/j.aca.2020.02.044] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Revised: 02/21/2020] [Accepted: 02/22/2020] [Indexed: 01/29/2023]
Abstract
With the large-scale planting of genetically modified (GM) crops, the development of a rapid and convenient method for on-site monitoring GM crops is needed. In this study, a duplex recombinase polymerase amplification (DRPA)-based, quick and simple detection system is presented for on-site detection of GM crops. In this system, a rapid DNA extraction method, a DRPA, and a lateral flow biosensor (LFB) are integrated to allow for rapid DNA extraction and amplification, and fast visualization of the detection results. Using the rapid DNA extraction method, high-quality DNA suitable for RPA and polymerase chain reaction (PCR) was quickly isolated from various crops within 5 min. Utilizing the optimal DRPA assay, the universal screening sequences (Cauliflower mosaic virus 35S promoter [35S] and Agrobacterium tumefaciens NOS terminator [NOS]) were rapidly and simultaneously amplified with high selectivity and sensitivity. The sensitivity threshold of the DRPA assay was ∼10 copies for GM soybean genomic DNA and 100 ng DNA of 0.1% GM soybean. In combination with the LFB in an enclosed cassette, the entire detection process was performed in approximately 20-30 min and eliminated the carryover contamination. No special or expensive equipment was needed for the detection process. The system was successfully applied and validated for on-site detection of GM rice, demonstrating its suitability for on-site testing of GM crops and high potential for application to other fields, especially in low-resource regions that require rapid detection of DNA targets.
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Affiliation(s)
- Xiaofu Wang
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou, 310021, China
| | - Yu Chen
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China; College of Chemistry and Life Science, Shenyang Normal University, Shenyang, 110034, China
| | - Xiaoyun Chen
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China
| | - Cheng Peng
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou, 310021, China
| | - Liu Wang
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China
| | - Xiaoli Xu
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China
| | - Jian Wu
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, China
| | - Wei Wei
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou, 310021, China
| | - Junfeng Xu
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China.
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17
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Wang X, Xie S, Chen X, Peng C, Xu X, Wei W, Ma T, Cai J, Xu J. A rapid and convenient method for on-site detection of MON863 maize through real-time fluorescence recombinase polymerase amplification. Food Chem 2020; 324:126821. [PMID: 32361093 DOI: 10.1016/j.foodchem.2020.126821] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2019] [Revised: 04/11/2020] [Accepted: 04/13/2020] [Indexed: 11/16/2022]
Abstract
As large-scale planting of genetically modified (GM) crops increases, the development of a rapid and convenient method for on-site detection of GM crops is important. We combined the advantages of recombinase polymerase amplification (RPA) and fluorescence detection to establish a rapid, sensitive, specific, and simple detection platform for on-site detection of MON863 maize. Test samples were added directly to the platform after simple pre-treatment with a DNA extraction-free method. Results were obtained through real-time monitoring with a portable instrument, which facilitated sample-in/answer-out on-site detection. The entire detection process, including sample preparation, RPA and identification of amplification results, was accomplished in approximately 10 min. Furthermore, the detection was achieved with a simple and inexpensive portable device. This method has high potential for application in other fields requiring rapid detection of DNA targets, such as in field research, resource-limited areas, and science education.
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Affiliation(s)
- Xiaofu Wang
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou 310021, China
| | - Shilong Xie
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Biology and Food Engineering School, Fuyang Normal University, Fuyang 236037, China
| | - Xiaoyun Chen
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou 310021, China
| | - Cheng Peng
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou 310021, China
| | - Xiaoli Xu
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou 310021, China
| | - Wei Wei
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou 310021, China
| | - Tongfu Ma
- Biology and Food Engineering School, Fuyang Normal University, Fuyang 236037, China
| | - Jian Cai
- Biology and Food Engineering School, Fuyang Normal University, Fuyang 236037, China
| | - Junfeng Xu
- State Key Laboratory for Quality and Safety of Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture of China, Hangzhou 310021, China.
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18
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Bak A, Emerson JB. Cauliflower mosaic virus (CaMV) Biology, Management, and Relevance to GM Plant Detection for Sustainable Organic Agriculture. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2020. [DOI: 10.3389/fsufs.2020.00021] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
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19
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Verginelli D, Paternò A, De Marchis ML, Quarchioni C, Vinciguerra D, Bonini P, Peddis S, Fusco C, Misto M, Marfoglia C, Pomilio F, Marchesi U. Development and comparative study of a pat/bar real-time PCR assay for integrating the screening strategy of a GMO testing laboratory. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2020; 100:2121-2129. [PMID: 31875962 PMCID: PMC7384061 DOI: 10.1002/jsfa.10235] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Revised: 10/21/2019] [Accepted: 12/26/2019] [Indexed: 06/10/2023]
Abstract
BACKGROUND The number and variety of genetically modified organisms (GMOs) used globally for the production of food and feed, and potentially circulating in the European Union (EU), is constantly increasing. This implies an additional effort for the EU enforcement laboratories to optimize available resources, to contain costs and time. A well established approach for streamlining the analytical workflow is the introduction of a screening step, typically based on a smart set of real-time polymerase chain reaction (PCR) screening methods. The multiplexing strategy, allowing the detection of several screening elements simultaneously, is a further optimization of this step. RESULTS In this study, we present the validation of a real-time PCR duplex assay for the pat and bar screening elements to be easily incorporated in the GMO diagnostic routine. We also provide a comparison between this method and the related singleplex and pre-spotted assays. CONCLUSION Our results fully respect all the validation parameters suggested by the Minimum Performance Criteria of the European Network of GMO Laboratories. Furthermore, the duplex assay is equivalent in terms of performance compared to the other two methods, but it shows a higher overall flexibility and cost effectiveness. © 2019 The Authors. Journal of The Science of Food and Agriculture published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- Daniela Verginelli
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Annalisa Paternò
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Maria Laura De Marchis
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Cinzia Quarchioni
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Daniela Vinciguerra
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Pamela Bonini
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Stefania Peddis
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Cristiana Fusco
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Marisa Misto
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
| | - Cristina Marfoglia
- Igiene delle tecnologie alimentari e dellʼalimentazione animaleIstituto Zooprofilattico Sperimentale dellʼAbruzzo e Molise "G. Caporale"TeramoItaly
| | - Francesco Pomilio
- Igiene delle tecnologie alimentari e dellʼalimentazione animaleIstituto Zooprofilattico Sperimentale dellʼAbruzzo e Molise "G. Caporale"TeramoItaly
| | - Ugo Marchesi
- National Reference Laboratory for GM Food and Feed, GMO UnitIstituto Zooprofilattico Sperimentale del Lazio e della Toscana “Mariano Aleandri”RomeItaly
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20
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Plácido A, Ferreira-da-Silva F, Leite JRSA, de-los-Santos-Álvarez N, Delerue-Matos C. A convenient renewable surface plasmon resonance chip for relative quantification of genetically modified soybean in food and feed. PLoS One 2020; 15:e0229659. [PMID: 32101588 PMCID: PMC7043770 DOI: 10.1371/journal.pone.0229659] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2019] [Accepted: 02/12/2020] [Indexed: 01/09/2023] Open
Abstract
The cultivation of genetically modified organisms (GMO) continues to expand worldwide. Still, many consumers express concerns about the use of GMO in food or feed, and many countries have legislated on labelling systems to indicate the presence of GMO in commercial products. To deal with the increased number of GMO events and to address related regulations, alternative detection methods for GMO inspection are required. In this work, a genosensor based on Surface Plasmon Resonance under continuous flow was developed for the detection and quantification of a genetically modified soybean (event GTS 40-3-2). In a single chip, the simultaneous detection of the event-specific and the taxon-specific samples were achieved, whose detection limits were 20 pM and 16 pM, respectively. The reproducibility was 1.4%, which supports the use of the chip as a reliable and cost-effective alternative to other DNA-based techniques. The results indicate that the proposed method is a versatile tool for GMO quantification in food and feed samples.
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Affiliation(s)
- Alexandra Plácido
- REQUIMTE/LAQV, Instituto Superior de Engenharia do Porto, Instituto Politécnico do Porto, Porto, Portugal
| | - Frederico Ferreira-da-Silva
- Instituto de Investigação e Inovação em Saúde, i3S, Universidade do Porto, Porto, Portugal
- Instituto de Biologia Molecular e Celular, Universidade do Porto, Porto, Portugal
| | - José Roberto S. A. Leite
- Área Morfologia, Faculdade de Medicina, Campus Darcy Ribeiro, Universidade de Brasília, Brasília, Federal District, Brazil
| | | | - Cristina Delerue-Matos
- REQUIMTE/LAQV, Instituto Superior de Engenharia do Porto, Instituto Politécnico do Porto, Porto, Portugal
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21
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Bak A, Emerson JB. Multiplex quantitative PCR for single-reaction genetically modified (GM) plant detection and identification of false-positive GM plants linked to Cauliflower mosaic virus (CaMV) infection. BMC Biotechnol 2019; 19:73. [PMID: 31699075 PMCID: PMC6836441 DOI: 10.1186/s12896-019-0571-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2019] [Accepted: 10/15/2019] [Indexed: 01/05/2023] Open
Abstract
Background Most genetically modified (GM) plants contain a promoter, P35S, from the plant virus, Cauliflower mosaic virus (CaMV), and many have a terminator, TNOS, derived from the bacterium, Agrobacterium tumefaciens. Assays designed to detect GM plants often target the P35S and/or TNOS DNA sequences. However, because the P35S promoter is derived from CaMV, these detection assays can yield false-positives from non-GM plants infected by this naturally-occurring virus. Results Here we report the development of an assay designed to distinguish CaMV-infected plants from GM plants in a single multiplexed quantitative PCR (qPCR) reaction. Following initial testing and optimization via PCR and singleplex-to-multiplex qPCR on both plasmid and plant DNA, TaqMan qPCR probes with different fluorescence wavelengths were designed to target actin (a positive-control plant gene), P35S, P3 (a CaMV-specific gene), and TNOS. We tested the specificity of our quadruplex qPCR assay using different DNA extracts from organic watercress and both organic and GM canola, all with and without CaMV infection, and by using commercial and industrial samples. The limit of detection (LOD) of each target was determined to be 1% for actin, 0.001% for P35S, and 0.01% for both P3 and TNOS. Conclusions This assay was able to distinguish CaMV-infected plants from GM plants in a single multiplexed qPCR reaction for all samples tested in this study, suggesting that this protocol is broadly applicable and readily transferrable to any interested parties with a qPCR platform.
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Affiliation(s)
- Aurélie Bak
- Department of Plant Pathology, University of California, Davis, CA, 95616, USA
| | - Joanne B Emerson
- Department of Plant Pathology, University of California, Davis, CA, 95616, USA.
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22
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Influence of Heat Processing on DNA Degradation and PCR-Based Detection of Wild-Type and Transgenic Maize. J FOOD QUALITY 2019. [DOI: 10.1155/2019/5657640] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Reliable detection of genetically modified (GM) maize is significant for food authenticity, labelling, quality, and safety assessment. This study aims to evaluate the factors influencing degradation and polymerase chain reaction (PCR) amplification of DNA from the wild type and transgenic maize (events Bt-176 and MON810) during thermal treatment at 100°C and 121°C. A new PCR method was developed targeting the Cry1Ab gene to detect insect-resistant GM plants. The yield of genomic DNAs extracted by the DNeasy plant mini kit dramatically decreased while DNAs obtained by cetyltrimethyl ammonium bromide- (CTAB-) based method did not show any visible changes in the yield by the time of processing. Treatment at 100°C did not significantly affect either genomic DNAs or amplicons. Heating at 121°C induced time-dependent degradation of genomic DNAs and exogenous Cry1Ab gene; however, it did not have any considerable influence on the exogenous 141 bp amplicons or endogenous amplicons in the range of 102 bp to 226 bp with the exception of the event MON810 extracted by the DNeasy plant mini kit. More yield was observed at 226 bp than 140 bp fragment of the invertase gene. The 141 bp fragment of the transgenic CaMV 35S promoter exhibited the highest thermal stability of all the examined amplicons. Analysis of foodstuffs demonstrated 102 bp amplicons specific for the zein gene as the effective marker to detect maize in the processed foods. The obtained results demonstrate that PCR-based detection of the wild type and transgenic maize is dependent on the combination of different parameters of crucial factors such as temperature and duration of exposure, transgenic event, DNA extraction method, DNA marker, and size and location of amplicons.
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Cottenet G, Blancpain C, Chuah PF. Performance assessment of digital PCR for the quantification of GM-maize and GM-soya events. Anal Bioanal Chem 2019; 411:2461-2469. [PMID: 30810790 DOI: 10.1007/s00216-019-01692-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2018] [Revised: 01/28/2019] [Accepted: 02/13/2019] [Indexed: 11/25/2022]
Abstract
Accurate quantitative methods are needed to determine the amount of transgenic material in ingredients and comply with labelling GMO thresholds. Quantitative real-time PCR methods are usually applied for GMO quantification, but since a few years, digital PCR (dPCR) has been described as a potential alternative by quantifying DNA molecules directly without any standard curves. In this study, the performance of dPCR to quantify 9 GM-soya events and 15 GM-maize events was assessed. Following GMO validation guidelines, the trueness and precision were determined on high, medium and low levels of transgenic content. Results showed biases below ± 25% and satisfactory precision data. Limits of quantification were determined for each GM-event and were between 12 and 31 target copies. The reliability of GMO quantification by dPCR was further confirmed by analysing several proficiency test samples. Overall, dPCR showed accurate and precise GMO quantification on all the tested GM-events, from high to low transgenic amount. With its ease-of-use, dPCR was found to be an appealing alternative technology for routine GMO testing laboratories. Graphical abstract.
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Affiliation(s)
- Geoffrey Cottenet
- Institute of Food Safety & Analytical Sciences - Nestlé Research, Vers-chez-les-Blanc, 1000, Lausanne 26, Switzerland.
| | - Carine Blancpain
- Institute of Food Safety & Analytical Sciences - Nestlé Research, Vers-chez-les-Blanc, 1000, Lausanne 26, Switzerland
| | - Poh Fong Chuah
- Nestlé Quality Assurance Center, 29 Quality Road, Singapore, 618802, Singapore
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