1
|
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.
Collapse
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
| |
Collapse
|
2
|
Bogožalec Košir A, Muller S, Žel J, Milavec M, Mallory AC, Dobnik D. Fast and Accurate Multiplex Identification and Quantification of Seven Genetically Modified Soybean Lines Using Six-Color Digital PCR. Foods 2023; 12:4156. [PMID: 38002213 PMCID: PMC10670894 DOI: 10.3390/foods12224156] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Revised: 11/12/2023] [Accepted: 11/15/2023] [Indexed: 11/26/2023] Open
Abstract
The proliferation of genetically modified organisms (GMOs) presents challenges to GMO testing laboratories and policymakers. Traditional methods, like quantitative real-time PCR (qPCR), face limitations in quantifying the increasing number of GMOs in a single sample. Digital PCR (dPCR), specifically multiplexing, offers a solution by enabling simultaneous quantification of multiple GMO targets. This study explores the use of the Naica six-color Crystal dPCR platform for quantifying five GM soybean lines within a single six-plex assay. Two four-color assays were also developed for added flexibility. These assays demonstrated high specificity, sensitivity (limit of detection or LOD < 25 copies per reaction) and precision (bias to an estimated copy number concentration <15%). Additionally, two approaches for the optimization of data analysis were implemented. By applying a limit-of-blank (LOB) correction, the limit of quantification (LOQ) and LOD could be more precisely determined. Pooling of reactions additionally lowered the LOD, with a two- to eight-fold increase in sensitivity. Real-life samples from routine testing were used to confirm the assays' applicability for quantifying GM soybean lines in complex samples. This study showcases the potential of the six-color Crystal dPCR platform to revolutionize GMO testing, facilitating comprehensive analysis of GMOs in complex samples.
Collapse
Affiliation(s)
- Alexandra Bogožalec Košir
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 121, 1000 Ljubljana, Slovenia
| | - Sabine Muller
- Stilla Technologies, Biopark 1, Mail du Professeur Georges Mathé, 94800 Villejuif, France
| | - Jana Žel
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 121, 1000 Ljubljana, Slovenia
| | - Mojca Milavec
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 121, 1000 Ljubljana, Slovenia
| | - Allison C. Mallory
- Stilla Technologies, Biopark 1, Mail du Professeur Georges Mathé, 94800 Villejuif, France
| | - David Dobnik
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 121, 1000 Ljubljana, Slovenia
| |
Collapse
|
3
|
Yang J, Li D, Wang J, Zhang R, Li J. Design, optimization, and application of multiplex rRT-PCR in the detection of respiratory viruses. Crit Rev Clin Lab Sci 2022:1-18. [PMID: 35559711 DOI: 10.1080/10408363.2022.2072467] [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: 11/03/2022]
Abstract
Viral respiratory infections are common and serious diseases. Because there is no effective treatment method or vaccine for respiratory tract infection, early diagnosis is vital to identify the pathogen so as to determine the infectivity of the patient and to quickly take measures to curb the spread of the virus, if warranted, to avoid serious public health problems. Real-time reverse transcriptase PCR (rRT-PCR), which has high sensitivity and specificity, is the best approach for early diagnosis. Among rRT-PCR methods, multiplex rRT-PCR can resolve issues arising from various types of viruses, high mutation frequency, coinfection, and low concentrations of virus. However, the design, optimization, and validation of multiplex rRT-PCR are more complicated than singleplex rRT-PCR, and comprehensive research on multiplex rRT-PCR methodology is lacking. This review summarizes recent progress in multiplex rRT-PCR methodology, outlines the principles of design, optimization and validation, and describes a scheme to help diagnostic companies to design and optimize their multiplex rRT-PCR detection panel and to assist laboratory staff to solve problems in their daily work. In addition, the analytical validity, clinical validity and clinical utility of multiplex rRT-PCR in viral respiratory tract infection diagnosis are assessed to provide theoretical guidance and useful information for physicians to understand the test results.
Collapse
Affiliation(s)
- Jing Yang
- National Center for Clinical Laboratories, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences, Beijing Hospital/ National Center of Gerontology, P.R. China.,Graduate School of Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, P.R. China.,Beijing Engineering Research Center of Laboratory Medicine, Beijing Hospital, Beijing, P.R. China
| | - Dandan Li
- National Center for Clinical Laboratories, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences, Beijing Hospital/ National Center of Gerontology, P.R. China.,Graduate School of Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, P.R. China.,Beijing Engineering Research Center of Laboratory Medicine, Beijing Hospital, Beijing, P.R. China
| | - Jie Wang
- National Center for Clinical Laboratories, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences, Beijing Hospital/ National Center of Gerontology, P.R. China.,Graduate School of Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, P.R. China.,Beijing Engineering Research Center of Laboratory Medicine, Beijing Hospital, Beijing, P.R. China
| | - Rui Zhang
- National Center for Clinical Laboratories, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences, Beijing Hospital/ National Center of Gerontology, P.R. China.,Graduate School of Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, P.R. China.,Beijing Engineering Research Center of Laboratory Medicine, Beijing Hospital, Beijing, P.R. China
| | - Jinming Li
- National Center for Clinical Laboratories, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences, Beijing Hospital/ National Center of Gerontology, P.R. China.,Graduate School of Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, P.R. China.,Beijing Engineering Research Center of Laboratory Medicine, Beijing Hospital, Beijing, P.R. China
| |
Collapse
|
4
|
Wang C, Huang C, Zhu P, Du Z, Wei S, Fu W. Applicability of a General Analytical Approach for Detection of Genetically Modified Organisms: Collaborative Trial. J AOAC Int 2021; 105:476-482. [PMID: 34927696 DOI: 10.1093/jaoacint/qsab154] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Revised: 11/21/2021] [Accepted: 11/27/2021] [Indexed: 11/14/2022]
Abstract
BACKGROUND With the commercialization of genetically modified organisms (GMOs) in the market, laboratories have undergone a significantly increased workload. A universal analytical approach was designed to achieve cost-efficient and high-throughput GMOs screening with high specificity and accuracy. The approach provides accurate qualification of authorized and unauthorized GMOs. OBJECTIVE This paper describes the assessment of this analytical approach developed to detect majority of commercialized GMOs over the world. METHODS Seven elements and three events were detected by qPCR in a single laboratory to detect 59 commercialized GMOs. Certificated reference materials and food/feed samples from Chinese market were also evaluated for the specificity, conformity and robustness of this approach and were challenged in the inter-laboratory study. RESULTS The results showed that elements and events selected can best detect GMO presence with good specificity and sensitivity. The results showed a concordance between 97.5% and 99.56% and the variance between 0.65% and 12.88%, which is in line with the minimum requirement of analytical methods of GMO testing. CONCLUSION The approach validated here can be used to manipulate GMO presence in food and feed and showed the capacity to manipulate GMOs trace in the trade and domestic agriculture grocery in China. HIGHLIGHTS A universal analytical approach used to track GMO presence was evaluated for its specificity, sensitivity and robustness.
Collapse
Affiliation(s)
- Chenguang Wang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176 China
| | - Chunmeng Huang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176 China.,College of Plant Protection, China Agricultural University, Beijing, 100083 China
| | - Pengyu Zhu
- Chinese Academy of Inspection and Quarantine, Beijing, 100176 China
| | - Zhixin Du
- Technical Center of Nanning Customs District, Nanning, Guangxi, 530021 China
| | - Shuang Wei
- Inspection and Quarantine Technology Centre of China Customs, Guangzhou, Guangdong, 510623 China
| | - Wei Fu
- Chinese Academy of Inspection and Quarantine, Beijing, 100176 China.,College of Plant Protection, China Agricultural University, Beijing, 100083 China
| |
Collapse
|
5
|
Chen L, Zhou J, Li T, Fang Z, Li L, Huang G, Gao L, Zhu X, Zhou X, Xiao H, Zhang J, Xiong Q, Zhang J, Ma A, Zhai W, Zhang W, Peng H. GmoDetector: An accurate and efficient GMO identification approach and its applications. Food Res Int 2021; 149:110662. [PMID: 34600664 DOI: 10.1016/j.foodres.2021.110662] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Revised: 08/21/2021] [Accepted: 08/23/2021] [Indexed: 10/20/2022]
Abstract
The rapid increase of genetically modified organisms (GMOs) entering the food and feed markets, and the contamination of donor (micro)organisms of transgenic elements make it more challenging for the existing GMO detection. In this study, we developed a high-throughput and contamination-removal GMO detection approach named as GmoDetector. GmoDetector targeted 64 common transgenic elements and 76 GMO-specific events collected from 251 singular GM events, and combined with next generation sequencing (NGS) and target enrichment technology to detect various GMOs. As a result, GmoDetector was able to exclude the donor (micro)organism contamination, and detect the authorized and unauthorized GMOs (UGMOs) in any forms of food or feed, such as processed or unprocessed. The sensitivity of GmoDetector is as low as 0.1% (GMO content), which has met the GMO labeling threshold for all countries. Therefore, GmoDetector is a robust tool for accurate and efficient detection of the authorized and UGMOs.
Collapse
Affiliation(s)
- Lihong Chen
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Junfei Zhou
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Tiantian Li
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Zhiwei Fang
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Lun Li
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Gang Huang
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Lifen Gao
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Xiaobo Zhu
- Wuhan Qingfahesheng Seed Co., Ltd., Wuhan, Hubei 430056, PR China
| | - Xusheng Zhou
- Wuhan Qingfahesheng Seed Co., Ltd., Wuhan, Hubei 430056, PR China
| | - Huafeng Xiao
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Jing Zhang
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - QiJie Xiong
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China
| | - Jianan Zhang
- MolBreeding Biotechnology Co., Ltd., Shijiazhuang 050035, PR China
| | - Aijin Ma
- School of Food and Health, Beijing Technology and Business University, Beijing 100048, PR China.
| | - Wenxue Zhai
- Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, PR China.
| | - Weixiong Zhang
- Department of Computer Science and Engineering, Department of Genetics, Washington University in St. Louis, MO 63130, USA.
| | - Hai Peng
- Institute for Systems Biology, Jianghan University, Wuhan, Hubei 430056, PR China; State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha 410125, PR China; Mingliao Biotechnology Co., Ltd., Wuhan 430056, PR China; School of Food and Health, Beijing Technology and Business University, Beijing 100048, PR China.
| |
Collapse
|
6
|
Long L, Yan W, He Y, Dong L, Xing Z, Li C, Xia W, Li F. Development of a Duplex Digital PCR Method to Quantify Five Genetically Modified Soybean Events. FOOD ANAL METHOD 2021. [DOI: 10.1007/s12161-021-02104-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
|
7
|
Development of a Systematic qPCR Array for Screening GM Soybeans. Foods 2021; 10:foods10030610. [PMID: 33805633 PMCID: PMC8001275 DOI: 10.3390/foods10030610] [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: 02/06/2021] [Revised: 03/04/2021] [Accepted: 03/10/2021] [Indexed: 11/19/2022] Open
Abstract
A screening method using the 35S promoter and nos terminator for genetically modified organisms (GMOs) is not sufficient to cover all GM soybean events. In this study, a real-time polymerase chain reaction (also known as quantitative polymerase chain reaction, qPCR) array targeting eight screening assays combined with a prediction system was developed for the rapid tracking of GM soybeans. Each assay’s specificity was tested and confirmed using 17 GM soybean events that have been approved in Korea. The sensitivity of each assay was determined to range from 0.01% to 0.05% using DNA mixtures with different GM ratios, and it was validated by the results of three experimenters. The applicability of this study was tested by monitoring 23 processed foods containing soybeans. It was figured out that 13 of the 23 samples included GM soybeans. The prediction system combined with screening results will be helpful to trace the absence/presence of GM soybean events. This new qPCR array and prediction system for GM soybean detection provides rapid, convenient and reliable results to users.
Collapse
|
8
|
Development and validation of a multiplex qPCR assay for detection and relative quantification of HPV16 and HPV18 E6 and E7 oncogenes. Sci Rep 2021; 11:4039. [PMID: 33597592 PMCID: PMC7889863 DOI: 10.1038/s41598-021-83489-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Accepted: 01/15/2021] [Indexed: 12/15/2022] Open
Abstract
Human papillomaviruses (HPV) play a key role in promoting human anogenital cancers. Current high-risk HPV screening or diagnosis tests involve cytological or molecular techniques mostly based on qualitative HPV DNA detection. Here, we describe the development of a rapid quantitative polymerase chain reaction (qPCR) detection test of HPV16 and HPV18 oncogenes (E6 and E7) normalized on human gene encoding GAPDH. Optimized qPCR parameters were defined, and analytical specificities were validated. The limit of detection was 101 for all genes tested. Assay performances were evaluated on clinical samples (n = 96). Concordance between the Xpert HPV assay and the triplex assay developed here was 93.44% for HPV16 and 73.58% for HPV18. HPV co-infections were detected in 15 samples. The systems developed in the present study can be used in complement to traditional HPV tests for specifically validating the presence of HPV16 and/or HPV18. It can also be used for the follow-up of patients with confirmed infection and at risk of developing lesions, through the quantification of E6 and E7 oncogene expression (mRNA) normalized on the GAPDH expression levels.
Collapse
|
9
|
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.
Collapse
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
| |
Collapse
|
10
|
Shin WR, Lee MJ, Sekhon SS, Kim JH, Kim SC, Cho BK, Ahn JY, Kim YH. Aptamer-linked immobilized sorbent assay for detecting GMO marker, phosphinothricin acetyltransferase (PAT). Mol Cell Toxicol 2020. [DOI: 10.1007/s13273-020-00087-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
|
11
|
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]
|
12
|
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.
Collapse
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
| |
Collapse
|
13
|
Shang Y, Xu Y, Huang K, Luo Y, Xu W. Multiplex pyrosequencing quantitative detection combined with universal primer-multiplex-PCR for genetically modified organisms. Food Chem 2020; 320:126634. [PMID: 32208182 DOI: 10.1016/j.foodchem.2020.126634] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2020] [Revised: 02/27/2020] [Accepted: 03/16/2020] [Indexed: 10/24/2022]
Abstract
A multiplex pyrosequencing quantitative detection technique combined with universal primer-multiplex-PCR (UP-M-PCR) was established. In this study, a pyrosequencing results analysis software was first self-compiled, which realized the DNA sequences degeneration, and converted the pyrosequencing results and base composition of the target sequences into mathematic relations. Five calculation models were put forward based on the actual situation, which adjusted the values smaller than zero or the detection limit. By applying this method, samples containing five genetically modified (GM) lines mixed in random ratio were quantified, it showed that the quantification was very close to the actual value, and the detection sensitivity was as low as 1.47% of a single component, which satisfied most labeling policies. This novel method is realized without fluorescent group labeling, hence the number of targets is not limited by factors inherent in method or equipment, and is proven to be a reliable tool for the quantitative detection.
Collapse
Affiliation(s)
- Ying Shang
- Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China; Faulty of Agriculture and Food, Kunming University of Science and Technology, Kunming, Yunnan 650500, China
| | - Yuancong Xu
- Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China
| | - Kunlun Huang
- Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China; The Supervision, Inspection and Testing Center of Genetically Modified Organisms, Ministry of Agriculture, Beijing 100083, China
| | - Yunbo Luo
- Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China; The Supervision, Inspection and Testing Center of Genetically Modified Organisms, Ministry of Agriculture, Beijing 100083, China
| | - Wentao Xu
- Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China; The Supervision, Inspection and Testing Center of Genetically Modified Organisms, Ministry of Agriculture, Beijing 100083, China.
| |
Collapse
|
14
|
Venturelli GL, da Silva KJ, Treml D, Navas PB, Vargas MO, Bischoff JL, de Faria JC, Arisi ACM. New plasmid calibrators for geminivirus-resistant (EMB-PV051-1 event) common bean (Phaseolus vulgaris L.) quantitation using simplex and duplex qPCR. FOOD BIOSCI 2018. [DOI: 10.1016/j.fbio.2018.10.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
|
15
|
Dobnik D, Gruden K, Žel J, Bertheau Y, Holst-Jensen A, Bohanec M. Decision Support for the Comparative Evaluation and Selection of Analytical Methods: Detection of Genetically Modified Organisms as an Example. FOOD ANAL METHOD 2018. [DOI: 10.1007/s12161-018-1194-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
16
|
A new construct specific real-time PCR method for screening GMO ingredients with gat-tpinII cassette in foods, feeds and seeds. Food Control 2018. [DOI: 10.1016/j.foodcont.2017.11.035] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
17
|
Demeke T, Dobnik D. Critical assessment of digital PCR for the detection and quantification of genetically modified organisms. Anal Bioanal Chem 2018; 410:4039-4050. [PMID: 29574561 PMCID: PMC6010488 DOI: 10.1007/s00216-018-1010-1] [Citation(s) in RCA: 82] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2018] [Revised: 03/06/2018] [Accepted: 03/08/2018] [Indexed: 12/21/2022]
Abstract
The number of genetically modified organisms (GMOs) on the market is steadily increasing. Because of regulation of cultivation and trade of GMOs in several countries, there is pressure for their accurate detection and quantification. Today, DNA-based approaches are more popular for this purpose than protein-based methods, and real-time quantitative PCR (qPCR) is still the gold standard in GMO analytics. However, digital PCR (dPCR) offers several advantages over qPCR, making this new technique appealing also for GMO analysis. This critical review focuses on the use of dPCR for the purpose of GMO quantification and addresses parameters which are important for achieving accurate and reliable results, such as the quality and purity of DNA and reaction optimization. Three critical factors are explored and discussed in more depth: correct classification of partitions as positive, correctly determined partition volume, and dilution factor. This review could serve as a guide for all laboratories implementing dPCR. Most of the parameters discussed are applicable to fields other than purely GMO testing. Graphical abstract There are generally three different options for absolute quantification of genetically modified organisms (GMOs) using digital PCR: droplet- or chamber-based and droplets in chambers. All have in common the distribution of reaction mixture into several partitions, which are all subjected to PCR and scored at the end-point as positive or negative. Based on these results GMO content can be calculated.
Collapse
Affiliation(s)
- Tigst Demeke
- Canadian Grain Commission, Grain Research Laboratory, 1404-303 Main Street, Winnipeg, MB, R3C3G8, Canada
| | - David Dobnik
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000, Ljubljana, Slovenia.
| |
Collapse
|
18
|
Zhang M, Li G, Zhou Q, Pan D, Zhu M, Xiao R, Zhang Y, Wu G, Wan Y, Shen Y. Boosted Electrochemical Immunosensing of Genetically Modified Crop Markers Using Nanobody and Mesoporous Carbon. ACS Sens 2018; 3:684-691. [PMID: 29457451 DOI: 10.1021/acssensors.8b00011] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The problems of environmental security and the potential risks of human health caused by transgenic crops have attracted much attention. Recent studies reveal 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) from Agrobacterium sp. strain CP4 protein (CP4-EPSPS), which shows very high resistance to herbicide glyphosate, is a typical biomarker of genetically modified (GM) crops. For this reason, it is highly anticipated to devise a sensitive and convenient strategy to detect CP4-EPSPS protein in crops. Herein, we report a simple electrochemical immunosensor by coupling nanobody, ordered mesoporous carbon (OMC), and thionine (Th). As a capture agent, the nanobody was screened out from an immunized Bactrian camel, and exhibited superior properties with respect to conventional antibody, such as higher stability and stronger heat resistance. Moreover, OMC offered an effective platform with high surface area, electrical conductivity, and biocompatibility, which greatly facilitated the assembly of redox probe Th, and further coupling of large amount of capture nanobodies. As a result, the CP4-EPSPS protein could be determined with high sensitivity and efficiency by differential pulse voltammetry (DPV) in a wide linear range from 0.001 to 100 ng·mL-1 with a low detection limit of 0.72 pg·mL-1, which was more than 3 orders of magnitude lower than those of previously reported works. As an example, the proposed electrochemical immunosensor was successfully applied to spiked samples, demonstrating its great potential in CP4-EPSPS screening and detection.
Collapse
Affiliation(s)
- Mingming Zhang
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
- Center of Clinical Laboratory Medicine of Zhongda Hospital, Southeast University, Nanjing, Jiangsu 210009, China
| | - Guanghui Li
- Shanghai Novamab Biopharmaceuticals Co., Ltd., Shanghai 201203, China
| | - Qing Zhou
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
| | - Deng Pan
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
| | - Min Zhu
- Shanghai Novamab Biopharmaceuticals Co., Ltd., Shanghai 201203, China
| | - Runyu Xiao
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
| | - Yuanjian Zhang
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
| | - Guoqiu Wu
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
- Center of Clinical Laboratory Medicine of Zhongda Hospital, Southeast University, Nanjing, Jiangsu 210009, China
| | - Yakun Wan
- Shanghai Novamab Biopharmaceuticals Co., Ltd., Shanghai 201203, China
| | - Yanfei Shen
- Medical School, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, Jiangsu 210009, China
| |
Collapse
|
19
|
International collaborative ring trial of four gene-specific loop-mediated isothermal amplification assays in GMO analysis. Food Control 2018. [DOI: 10.1016/j.foodcont.2017.08.012] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
|
20
|
Wei S, Wang C, Zhu P, Zhou G, Fu W, Wu X. A high-throughput multiplex tandem PCR assay for the screening of genetically modified maize. Lebensm Wiss Technol 2018. [DOI: 10.1016/j.lwt.2017.08.061] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
|
21
|
Košir AB, Spilsberg B, Holst-Jensen A, Žel J, Dobnik D. Development and inter-laboratory assessment of droplet digital PCR assays for multiplex quantification of 15 genetically modified soybean lines. Sci Rep 2017; 7:8601. [PMID: 28819142 PMCID: PMC5561262 DOI: 10.1038/s41598-017-09377-w] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2016] [Accepted: 07/25/2017] [Indexed: 11/30/2022] Open
Abstract
Quantification of genetically modified organisms (GMOs) in food and feed products is often required for their labelling or for tolerance thresholds. Standard-curve-based simplex quantitative polymerase chain reaction (qPCR) is the prevailing technology, which is often combined with screening analysis. With the rapidly growing number of GMOs on the world market, qPCR analysis becomes laborious and expensive. Innovative cost-effective approaches are therefore urgently needed. Here, we report the development and inter-laboratory assessment of multiplex assays to quantify GMO soybean using droplet digital PCR (ddPCR). The assays were developed to facilitate testing of foods and feed for compliance with current GMO regulations in the European Union (EU). Within the EU, the threshold for labelling is 0.9% for authorised GMOs per ingredient. Furthermore, the EU has set a technical zero tolerance limit of 0.1% for certain unauthorised GMOs. The novel multiplex ddPCR assays developed target 11 GMO soybean lines that are currently authorised, and four that are tolerated, pending authorisation in the EU. Potential significant improvements in cost efficiency are demonstrated. Performance was assessed for the critical parameters, including limits of detection and quantification, and trueness, repeatability, and robustness. Inter-laboratory performance was also determined on a number of proficiency programme and real-life samples.
Collapse
Affiliation(s)
- Alexandra Bogožalec Košir
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, SI-1000, Ljubljana, Slovenia.
- Josef Stefan International Postgraduate School, Jamova 39, SI-1000, Ljubljana, Slovenia.
| | - Bjørn Spilsberg
- Norwegian Veterinary Institute, P.O. box 750 Sentrum, 0106, Oslo, Norway
| | - Arne Holst-Jensen
- Norwegian Veterinary Institute, P.O. box 750 Sentrum, 0106, Oslo, Norway
| | - Jana Žel
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, SI-1000, Ljubljana, Slovenia
| | - David Dobnik
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, SI-1000, Ljubljana, Slovenia
| |
Collapse
|
22
|
Mano J, Nishitsuji Y, Kikuchi Y, Fukudome SI, Hayashida T, Kawakami H, Kurimoto Y, Noguchi A, Kondo K, Teshima R, Takabatake R, Kitta K. Quantification of DNA fragmentation in processed foods using real-time PCR. Food Chem 2017; 226:149-155. [DOI: 10.1016/j.foodchem.2017.01.064] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2015] [Revised: 08/05/2016] [Accepted: 01/13/2017] [Indexed: 10/20/2022]
|
23
|
Kamle M, Kumar P, Patra JK, Bajpai VK. Current perspectives on genetically modified crops and detection methods. 3 Biotech 2017; 7:219. [PMID: 28674844 PMCID: PMC5495694 DOI: 10.1007/s13205-017-0809-3] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Accepted: 05/02/2017] [Indexed: 01/31/2023] Open
Abstract
Genetically modified (GM) crops are the fastest adopted commodities in the agribiotech industry. This market penetration should provide a sustainable basis for ensuring food supply for growing global populations. The successful completion of two decades of commercial GM crop production (1996-2015) is underscored by the increasing rate of adoption of genetic engineering technology by farmers worldwide. With the advent of introduction of multiple traits stacked together in GM crops for combined herbicide tolerance, insect resistance, drought tolerance or disease resistance, the requirement of reliable and sensitive detection methods for tracing and labeling genetically modified organisms in the food/feed chain has become increasingly important. In addition, several countries have established threshold levels for GM content which trigger legally binding labeling schemes. The labeling of GM crops is mandatory in many countries (such as China, EU, Russia, Australia, New Zealand, Brazil, Israel, Saudi Arabia, Korea, Chile, Philippines, Indonesia, Thailand), whereas in Canada, Hong Kong, USA, South Africa, and Argentina voluntary labeling schemes operate. The rapid adoption of GM crops has increased controversies, and mitigating these issues pertaining to the implementation of effective regulatory measures for the detection of GM crops is essential. DNA-based detection methods have been successfully employed, while the whole genome sequencing using next-generation sequencing (NGS) technologies provides an advanced means for detecting genetically modified organisms and foods/feeds in GM crops. This review article describes the current status of GM crop commercialization and discusses the benefits and shortcomings of common and advanced detection systems for GMs in foods and animal feeds.
Collapse
Affiliation(s)
- Madhu Kamle
- Department of Forestry, North Eastern Regional Institute of Science and Technology (Deemed University), Nirjuli, Arunachal Pradesh, 791109, India
| | - Pradeep Kumar
- Department of Forestry, North Eastern Regional Institute of Science and Technology (Deemed University), Nirjuli, Arunachal Pradesh, 791109, India.
| | - Jayanta Kumar Patra
- Research Institute of Biotechnology and Medical Converged Science, Dongguk University-Seoul, Ilsandong-gu, Gyeonggido, 10326, Korea
| | - Vivek K Bajpai
- Department of Applied Microbiology and Biotechnology, Microbiome Laboratory, Yeungnam University, Gyeongsan, Gyeongbuk, 38541, Korea.
| |
Collapse
|
24
|
Inter-laboratory studies for the validation of two singleplex (tE9 and pea lectin) and one duplex (pat/bar) real-time PCR methods for GMO detection. Food Control 2017. [DOI: 10.1016/j.foodcont.2016.08.037] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
|
25
|
Fu W, Wei S, Wang C, Du Z, Zhu P, Wu X, Wu G, Zhu S. A temperature-tolerant multiplex elements and genes screening system for genetically modified organisms based on dual priming oligonucleotide primers and capillary electrophoresis. Food Chem 2017; 229:396-402. [PMID: 28372191 DOI: 10.1016/j.foodchem.2017.02.088] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2016] [Revised: 11/17/2016] [Accepted: 02/17/2017] [Indexed: 01/22/2023]
Abstract
High throughput screening systems are the preferred solution to meet the urgent requirement of increasing number of genetically modified organisms (GMOs). In this study, we have successfully developed a multiplex GMO element screening system with dual priming oligonucleotide (DPO) primers. This system can detect the cauliflower mosaic virus 35S (CaMV 35S), terminator of nopaline synthase gene (NOS), figwort mosaic virus 35S (FMV 35S) promoter, neomycin phosphotransferaseII (NPTII), Bt Cry 1Ab, phosphinothricin acetyltransferase genes (bar) and Streptomyces viridochromogenes (pat) simultaneously, which covers more than 90% of all authorized GMO species worldwide. This system exhibits a high tolerance to annealing temperatures, high specificity and a limit of detection equal to conventional PCR. A total of 214 samples from markets, national entry-exit agencies, the Institute for Reference Materials and Measurement (IRMM) and the American Oil Chemists' Society (AOCS) were also tested for applicability. This screening system is therefore suitable for GMO screening.
Collapse
Affiliation(s)
- Wei Fu
- Institute of Plant Quarantine, Chinese Academy of Inspection and Quarantine, Beijing 100176, China
| | - Shuang Wei
- Shantou Entry-exit Inspection and Quarantine Bureau, Shantou 515041, China
| | - Chenguang Wang
- Institute of Plant Quarantine, Chinese Academy of Inspection and Quarantine, Beijing 100176, China; College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Zhixin Du
- Guangxi Entry-exit Inspection and Quarantine Bureau, Nanning 530028, China
| | - Pengyu Zhu
- Institute of Plant Quarantine, Chinese Academy of Inspection and Quarantine, Beijing 100176, China
| | - Xiyang Wu
- Department of Food Science and Engineering, College of Science and Technology, Jinan University, Guangzhou 510632, China
| | - Gang Wu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430062, China.
| | - Shuifang Zhu
- Institute of Plant Quarantine, Chinese Academy of Inspection and Quarantine, Beijing 100176, China.
| |
Collapse
|
26
|
Çakir Ö, Meriç S, Meriç S, Ari Ş. GMO Analysis Methods for Food: From Today to Tomorrow. Food Saf (Tokyo) 2016. [DOI: 10.1002/9781119160588.ch5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
|
27
|
Singh M, Bhoge RK, Randhawa G. Crop-specific GMO matrix-multiplex PCR: A cost-efficient screening strategy for genetically modified maize and cotton events approved globally. Food Control 2016. [DOI: 10.1016/j.foodcont.2016.05.032] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
|
28
|
Wu J, Chen L, Lin D, Ma Z, Deng X. Development and Application of a Multiplex Real-Time PCR Assay as an Indicator of Potential Allergenicity in Citrus Fruits. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2016; 64:9089-9098. [PMID: 27794596 DOI: 10.1021/acs.jafc.6b03410] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The effects of tissue type, harvest maturity, and genetic factors on the expression of genes that related to citrus fruit allergies remain poorly understood. In the present study, a multiplex real-time PCR assay was developed to monitor the expression of citrus allergen genes individually with the advantages of much fewer sample requirements and simultaneously multiple target genes detection. Gene specific primer pairs and Taqman probes of three citrus allergen genes Cit s 1.01, Cit s 2.01, and Cit s 3.01 and the house-keeping gene β-actin were designed based on gene sequence differences. The PCR results showed that differential expression patterns were found during the ripening process. The expression levels of Cit s 3.01 were much higher than those of Cit s 1.01 and Cit s 2.01 in both peel and pulp tissues among 10 citrus cultivars. Data suggested that Kao Phuang Pummelo could be safely consumed with a potential low risk in allergenicity. Considering that assessing allergenicity is one of the tests in food safety, this assay might also facilitate the breeding and production of "allergy-friendly" citrus fruits.
Collapse
Affiliation(s)
- Jinlong Wu
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University , Wuhan 430070, China
| | - Lin Chen
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University , Wuhan 430070, China
| | - Dingbo Lin
- Department of Nutritional Sciences, Oklahoma State University , 419 Human Sciences, Stillwater, Oklahoma 74078, United States
| | - Zhaocheng Ma
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University , Wuhan 430070, China
| | - Xiuxin Deng
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University , Wuhan 430070, China
| |
Collapse
|
29
|
Grohmann L, Belter A, Speck B, Goerlich O, Guertler P, Angers-Loustau A, Patak A. Screening for six genetically modified soybean lines by an event-specific multiplex PCR method: Collaborative trial validation of a novel approach for GMO detection. J Verbrauch Lebensm 2016. [DOI: 10.1007/s00003-016-1056-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
30
|
Dobnik D, Štebih D, Blejec A, Morisset D, Žel J. Multiplex quantification of four DNA targets in one reaction with Bio-Rad droplet digital PCR system for GMO detection. Sci Rep 2016; 6:35451. [PMID: 27739510 PMCID: PMC5064307 DOI: 10.1038/srep35451] [Citation(s) in RCA: 82] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2016] [Accepted: 09/30/2016] [Indexed: 11/25/2022] Open
Abstract
The advantages of the digital PCR technology are already well documented until now. One way to achieve better cost efficiency of the technique is to use it in a multiplexing strategy. Droplet digital PCR platforms, which include two fluorescence filters, support at least duplex reactions and with some developments and optimization higher multiplexing is possible. The present study not only shows a development of multiplex assays in droplet digital PCR, but also presents a first thorough evaluation of several parameters in such multiplex digital PCR. Two 4-plex assays were developed for quantification of 8 different DNA targets (7 genetically modified maize events and maize endogene). Per assay, two of the targets were labelled with one fluorophore and two with another. As current analysis software does not support analysis of more than duplex, a new R- and Shiny-based web application analysis tool (http://bit.ly/ddPCRmulti) was developed that automates the analysis of 4-plex results. In conclusion, the two developed multiplex assays are suitable for quantification of GMO maize events and the same approach can be used in any other field with a need for accurate and reliable quantification of multiple DNA targets.
Collapse
Affiliation(s)
- David Dobnik
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Dejan Štebih
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Andrej Blejec
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Dany Morisset
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Jana Žel
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| |
Collapse
|
31
|
Lin CH, Pan TM. Perspectives on genetically modified crops and food detection. J Food Drug Anal 2016; 24:1-8. [PMID: 28911391 PMCID: PMC9345426 DOI: 10.1016/j.jfda.2015.06.011] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2014] [Revised: 03/22/2015] [Accepted: 06/24/2015] [Indexed: 12/18/2022] Open
Abstract
Genetically modified (GM) crops are a major product of the global food industry. From 1996 to 2014, 357 GM crops were approved and the global value of the GM crop market reached 35% of the global commercial seed market in 2014. However, the rapid growth of the GM crop-based industry has also created controversies in many regions, including the European Union, Egypt, and Taiwan. The effective detection and regulation of GM crops/foods are necessary to reduce the impact of these controversies. In this review, the status of GM crops and the technology for their detection are discussed. As the primary gap in GM crop regulation exists in the application of detection technology to field regulation, efforts should be made to develop an integrated, standardized, and high-throughput GM crop detection system. We propose the development of an integrated GM crop detection system, to be used in combination with a standardized international database, a decision support system, high-throughput DNA analysis, and automated sample processing. By integrating these technologies, we hope that the proposed GM crop detection system will provide a method to facilitate comprehensive GM crop regulation.
Collapse
Affiliation(s)
- Chih-Hui Lin
- Department of Life Science, National Taitung University, Taitung,
Taiwan
| | - Tzu-Ming Pan
- Department of Biochemical Science and Technology, College of Life Science, National Taiwan University,
Taiwan
- Corresponding author. Department of Biochemical Science and Technology, College of Life Science, National Taiwan University, Number 1, Section 4, Roosevelt Road, Taipei 10617, Taiwan. E-mail address: (T.-M. Pan)
| |
Collapse
|
32
|
Félix-Urquídez D, Pérez-Urquiza M, Valdez Torres JB, León-Félix J, García-Estrada R, Acatzi-Silva A. Development, Optimization, and Evaluation of a Duplex Droplet Digital PCR Assay To Quantify the T-nos/hmg Copy Number Ratio in Genetically Modified Maize. Anal Chem 2015; 88:812-9. [PMID: 26605751 PMCID: PMC4718530 DOI: 10.1021/acs.analchem.5b03238] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
Certified
reference materials (CRMs) are required to guarantee
the reliability of analytical measurements. The CRMs available in
the field of genetically modified organisms (GMOs) are characterized
using real-time polymerase chain reaction (qPCR). This technology
has limited application, because of its dependence on a calibrant.
The objective of this study was to obtain a method with higher metrological
quality, to characterize the CRMs for their contents of T-nos/hmg copy number ratio in maize. A duplex droplet
digital PCR (ddPCR) assay was developed and optimized by a central
composite design. The developed method achieved an absolute limit
of detection (LOD) of 11 cP T-nos, a relative LOD
of 0.034%, a limit of quantification (LOQ) of 23 cP (relative LOQ
of 0.08%), and a dynamic range of 0.08%–100% T-nos/hmg ratio. The specificity and applicability of
the assay were established for the analysis of low T-nos concentrations (0.9%) in several corn varieties. The convenience
of DNA digestion to reduce measurement bias in the case of multiple-copy
binding was confirmed through an enzymatic restriction assay. Given
its overall performance, this method can be used to characterize CRM
candidates for their contents of T-nos/hmg ratio.
Collapse
Affiliation(s)
- Dalmira Félix-Urquídez
- Research Center for Food and Development, Culiacán, Sinaloa México.,National Metrology Center, El Marqués, Querétaro México
| | | | | | | | | | - Abraham Acatzi-Silva
- Reference National Center for Detection of Genetically Modified Organisms, Tecámac, Estado de México México
| |
Collapse
|
33
|
Fraiture MA, Herman P, Taverniers I, De Loose M, Deforce D, Roosens NH. Current and new approaches in GMO detection: challenges and solutions. BIOMED RESEARCH INTERNATIONAL 2015; 2015:392872. [PMID: 26550567 PMCID: PMC4624882 DOI: 10.1155/2015/392872] [Citation(s) in RCA: 81] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/17/2015] [Accepted: 09/07/2015] [Indexed: 11/17/2022]
Abstract
In many countries, genetically modified organisms (GMO) legislations have been established in order to guarantee the traceability of food/feed products on the market and to protect the consumer freedom of choice. Therefore, several GMO detection strategies, mainly based on DNA, have been developed to implement these legislations. Due to its numerous advantages, the quantitative PCR (qPCR) is the method of choice for the enforcement laboratories in GMO routine analysis. However, given the increasing number and diversity of GMO developed and put on the market around the world, some technical hurdles could be encountered with the qPCR technology, mainly owing to its inherent properties. To address these challenges, alternative GMO detection methods have been developed, allowing faster detections of single GM target (e.g., loop-mediated isothermal amplification), simultaneous detections of multiple GM targets (e.g., PCR capillary gel electrophoresis, microarray, and Luminex), more accurate quantification of GM targets (e.g., digital PCR), or characterization of partially known (e.g., DNA walking and Next Generation Sequencing (NGS)) or unknown (e.g., NGS) GMO. The benefits and drawbacks of these methods are discussed in this review.
Collapse
Affiliation(s)
- Marie-Alice Fraiture
- Platform of Biotechnology and Molecular Biology (PBB) and Biosafety and Biotechnology Unit (SBB), Scientific Institute of Public Health (WIV-ISP), J. Wytsmanstraat 14, 1050 Brussels, Belgium
- Technology and Food Sciences Unit, Institute for Agricultural and Fisheries Research (ILVO), Burg. Van Gansberghelaan 115, Bus 1, 9820 Merelbeke, Belgium
- Laboratory of Pharmaceutical Biotechnology, Faculty of Pharmaceutical Sciences, Ghent University, Ottergemsesteenweg 460, 9000 Ghent, Belgium
| | - Philippe Herman
- Platform of Biotechnology and Molecular Biology (PBB) and Biosafety and Biotechnology Unit (SBB), Scientific Institute of Public Health (WIV-ISP), J. Wytsmanstraat 14, 1050 Brussels, Belgium
| | - Isabel Taverniers
- Technology and Food Sciences Unit, Institute for Agricultural and Fisheries Research (ILVO), Burg. Van Gansberghelaan 115, Bus 1, 9820 Merelbeke, Belgium
| | - Marc De Loose
- Technology and Food Sciences Unit, Institute for Agricultural and Fisheries Research (ILVO), Burg. Van Gansberghelaan 115, Bus 1, 9820 Merelbeke, Belgium
- Department of Plant Biotechnology and Bioinformatics, Faculty of Sciences, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
| | - Dieter Deforce
- Laboratory of Pharmaceutical Biotechnology, Faculty of Pharmaceutical Sciences, Ghent University, Ottergemsesteenweg 460, 9000 Ghent, Belgium
| | - Nancy H. Roosens
- Platform of Biotechnology and Molecular Biology (PBB) and Biosafety and Biotechnology Unit (SBB), Scientific Institute of Public Health (WIV-ISP), J. Wytsmanstraat 14, 1050 Brussels, Belgium
| |
Collapse
|
34
|
Evaluation of Systems for Nopaline Synthase Terminator in Fast and Standard Real-Time PCR to Screen Genetically Modified Organisms. FOOD ANAL METHOD 2015. [DOI: 10.1007/s12161-015-0283-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
35
|
Multiplex PCR system to track authorized and unauthorized genetically modified soybean events in food and feed. Food Control 2015. [DOI: 10.1016/j.foodcont.2015.01.035] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
|
36
|
Dobnik D, Spilsberg B, Bogožalec Košir A, Holst-Jensen A, Žel J. Multiplex Quantification of 12 European Union Authorized Genetically Modified Maize Lines with Droplet Digital Polymerase Chain Reaction. Anal Chem 2015; 87:8218-26. [DOI: 10.1021/acs.analchem.5b01208] [Citation(s) in RCA: 77] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- David Dobnik
- Department
of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| | - Bjørn Spilsberg
- Section
of Virology, Norwegian Veterinary Institute, P.O. Box 750, Sentrum, 0106 Oslo, Norway
| | - Alexandra Bogožalec Košir
- Department
of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
- Josef Stefan International Postgraduate School, Jamova 39, 1000 Ljubljana, Slovenia
| | - Arne Holst-Jensen
- Section
of Virology, Norwegian Veterinary Institute, P.O. Box 750, Sentrum, 0106 Oslo, Norway
| | - Jana Žel
- Department
of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, 1000 Ljubljana, Slovenia
| |
Collapse
|
37
|
Willems S, Fraiture MA, Deforce D, De Keersmaecker SCJ, De Loose M, Ruttink T, Herman P, Van Nieuwerburgh F, Roosens N. Statistical framework for detection of genetically modified organisms based on Next Generation Sequencing. Food Chem 2015; 192:788-98. [PMID: 26304412 DOI: 10.1016/j.foodchem.2015.07.074] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2014] [Revised: 06/26/2015] [Accepted: 07/18/2015] [Indexed: 10/23/2022]
Abstract
Because the number and diversity of genetically modified (GM) crops has significantly increased, their analysis based on real-time PCR (qPCR) methods is becoming increasingly complex and laborious. While several pioneers already investigated Next Generation Sequencing (NGS) as an alternative to qPCR, its practical use has not been assessed for routine analysis. In this study a statistical framework was developed to predict the number of NGS reads needed to detect transgene sequences, to prove their integration into the host genome and to identify the specific transgene event in a sample with known composition. This framework was validated by applying it to experimental data from food matrices composed of pure GM rice, processed GM rice (noodles) or a 10% GM/non-GM rice mixture, revealing some influential factors. Finally, feasibility of NGS for routine analysis of GM crops was investigated by applying the framework to samples commonly encountered in routine analysis of GM crops.
Collapse
Affiliation(s)
- Sander Willems
- Scientific Institute of Public Health (WIV-ISP), Platform of Biotechnology and Molecular Biology (PBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium; Scientific Institute of Public Health (WIV-ISP), Biosafety and Biotechnology Unit (SBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium; University of Gent (UGent), Faculty of Pharmaceutical Sciences, Laboratory of Pharmaceutical Biotechnology, Harelbekestraat 72, 9000 Ghent, Belgium
| | - Marie-Alice Fraiture
- Scientific Institute of Public Health (WIV-ISP), Platform of Biotechnology and Molecular Biology (PBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium; Scientific Institute of Public Health (WIV-ISP), Biosafety and Biotechnology Unit (SBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium; University of Gent (UGent), Faculty of Pharmaceutical Sciences, Laboratory of Pharmaceutical Biotechnology, Harelbekestraat 72, 9000 Ghent, Belgium; Institute for Agricultural and Fisheries Research (ILVO), Technology and Food Sciences Unit, Burg. Van Gansberghelaan 115, bus 1, 9820 Merelbeke, Belgium
| | - Dieter Deforce
- University of Gent (UGent), Faculty of Pharmaceutical Sciences, Laboratory of Pharmaceutical Biotechnology, Harelbekestraat 72, 9000 Ghent, Belgium
| | - Sigrid C J De Keersmaecker
- Scientific Institute of Public Health (WIV-ISP), Platform of Biotechnology and Molecular Biology (PBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium
| | - Marc De Loose
- Institute for Agricultural and Fisheries Research (ILVO), Technology and Food Sciences Unit, Burg. Van Gansberghelaan 115, bus 1, 9820 Merelbeke, Belgium
| | - Tom Ruttink
- Institute for Agricultural and Fisheries Research (ILVO), Plant Sciences Unit, Caritasstraat 21, 9090 Melle, Belgium
| | - Philippe Herman
- Scientific Institute of Public Health (WIV-ISP), Biosafety and Biotechnology Unit (SBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium
| | - Filip Van Nieuwerburgh
- University of Gent (UGent), Faculty of Pharmaceutical Sciences, Laboratory of Pharmaceutical Biotechnology, Harelbekestraat 72, 9000 Ghent, Belgium
| | - Nancy Roosens
- Scientific Institute of Public Health (WIV-ISP), Platform of Biotechnology and Molecular Biology (PBB), J. Wytsmanstraat 14, 1050 Brussels, Belgium.
| |
Collapse
|
38
|
Broeders S, Fraiture MA, Vandermassen E, Delvoye M, Barbau-Piednoir E, Lievens A, Roosens N. New qualitative trait-specific SYBR®Green qPCR methods to expand the panel of GMO screening methods used in the CoSYPS. Eur Food Res Technol 2015. [DOI: 10.1007/s00217-015-2454-6] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
39
|
Pegels N, González I, García T, Martín R. Authenticity testing of wheat, barley, rye and oats in food and feed market samples by real-time PCR assays. Lebensm Wiss Technol 2015. [DOI: 10.1016/j.lwt.2014.10.049] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
|
40
|
Morisset D, Novak PK, Zupanič D, Gruden K, Lavrač N, Žel J. GMOseek: a user friendly tool for optimized GMO testing. BMC Bioinformatics 2014; 15:258. [PMID: 25084968 PMCID: PMC4138379 DOI: 10.1186/1471-2105-15-258] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2013] [Accepted: 07/19/2014] [Indexed: 12/21/2022] Open
Abstract
Background With the increasing pace of new Genetically Modified Organisms (GMOs) authorized or in pipeline for commercialization worldwide, the task of the laboratories in charge to test the compliance of food, feed or seed samples with their relevant regulations became difficult and costly. Many of them have already adopted the so called "matrix approach" to rationalize the resources and efforts used to increase their efficiency within a limited budget. Most of the time, the "matrix approach" is implemented using limited information and some proprietary (if any) computational tool to efficiently use the available data. Results The developed GMOseek software is designed to support decision making in all the phases of routine GMO laboratory testing, including the interpretation of wet-lab results. The tool makes use of a tabulated matrix of GM events and their genetic elements, of the laboratory analysis history and the available information about the sample at hand. The tool uses an optimization approach to suggest the most suited screening assays for the given sample. The practical GMOseek user interface allows the user to customize the search for a cost-efficient combination of screening assays to be employed on a given sample. It further guides the user to select appropriate analyses to determine the presence of individual GM events in the analyzed sample, and it helps taking a final decision regarding the GMO composition in the sample. GMOseek can also be used to evaluate new, previously unused GMO screening targets and to estimate the profitability of developing new GMO screening methods. Conclusion The presented freely available software tool offers the GMO testing laboratories the possibility to select combinations of assays (e.g. quantitative real-time PCR tests) needed for their task, by allowing the expert to express his/her preferences in terms of multiplexing and cost. The utility of GMOseek is exemplified by analyzing selected food, feed and seed samples from a national reference laboratory for GMO testing and by comparing its performance to existing tools which use the matrix approach. GMOseek proves superior when tested on real samples in terms of GMO coverage and cost efficiency of its screening strategies, including its capacity of simple interpretation of the testing results. Electronic supplementary material The online version of this article (doi:10.1186/1471-2105-15-258) contains supplementary material, which is available to authorized users.
Collapse
Affiliation(s)
- Dany Morisset
- Department of Biotechnology and Systems Biology, National Institute of Biology, Večna pot 111, SI-1000 Ljubljana, Slovenia.
| | | | | | | | | | | |
Collapse
|
41
|
Venturelli GL, Brod FCA, Rossi GB, Zimmermann NF, Oliveira JP, Faria JC, Arisi ACM. A Specific Endogenous Reference for Genetically Modified Common Bean (Phaseolus vulgaris L.) DNA Quantification by Real-Time PCR Targeting Lectin Gene. Mol Biotechnol 2014; 56:1060-8. [DOI: 10.1007/s12033-014-9786-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
42
|
Randhawa GJ, Singh M, Sood P, Bhoge RK. Multitarget real-time PCR-based system: monitoring for unauthorized genetically modified events in India. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2014; 62:7118-7130. [PMID: 24971889 DOI: 10.1021/jf502190e] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
A multitarget TaqMan real-time PCR (RTi-PCR) based system was developed to monitor unauthorized genetically modified (GM) events in India. Most of the GM events included in this study are either authorized for commercial cultivation or field trials, which were indigenously developed or imported for research purposes. The developed system consists of a 96-well prespotted plate with lyophilized primers and probes, for simultaneous detection of 47 targets in duplicate, including 21 event-specific sequences, 5 construct regions, 15 for transgenic elements, and 6 taxon-specific targets for cotton, eggplant, maize, potato, rice, and soybean. Limit of detection (LOD) of assays ranged from 0.1 to 0.01% GM content for different targets. Applicability, robustness, and practical utility of the developed system were verified with stacked GM cotton event, powdered samples of proficiency testing and two unknown test samples. This user-friendly multitarget approach can be efficiently utilized for monitoring the unauthorized GM events in an Indian context.
Collapse
Affiliation(s)
- Gurinder Jit Randhawa
- Division of Genomic Resources, National Bureau of Plant Genetic Resources, New Delhi 110 012, India
| | | | | | | |
Collapse
|
43
|
Market Analysis of Food and Feed Products for Detection of Horse DNA by a TaqMan Real-Time PCR. FOOD ANAL METHOD 2014. [DOI: 10.1007/s12161-014-9914-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
|
44
|
Köppel R, Sendic A, Waiblinger HU. Two quantitative multiplex real-time PCR systems for the efficient GMO screening of food products. Eur Food Res Technol 2014. [DOI: 10.1007/s00217-014-2261-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
|
45
|
Broeders S, Huber I, Grohmann L, Berben G, Taverniers I, Mazzara M, Roosens N, Morisset D. Guidelines for validation of qualitative real-time PCR methods. Trends Food Sci Technol 2014. [DOI: 10.1016/j.tifs.2014.03.008] [Citation(s) in RCA: 239] [Impact Index Per Article: 23.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
|
46
|
Barbau-Piednoir E, Stragier P, Roosens N, Mazzara M, Savini C, Van den Eede G, Van den Bulcke M. Inter-laboratory Testing of GMO Detection by Combinatory SYBR®Green PCR Screening (CoSYPS). FOOD ANAL METHOD 2014. [DOI: 10.1007/s12161-014-9837-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
|