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Hyder Z, Hafeez Rizwani G, Shareef H, Azhar I, Zehra M. Authentication of important medicinal herbal species through DNA-based molecular characterization. Saudi J Biol Sci 2024; 31:103985. [PMID: 38681226 PMCID: PMC11047781 DOI: 10.1016/j.sjbs.2024.103985] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2023] [Revised: 03/22/2024] [Accepted: 04/04/2024] [Indexed: 05/01/2024] Open
Abstract
DNA-based molecular markers have great importance among other methods used for the authentication, detection, and identification of medicinal herbal species. Currently, it is more common to identify the medicinal herbal species (monoherbal or polyherbal forms) morphologically by using sensory, macroscopic, and microscopic methods. DNA-based markers made an easy for accurate detection of herbal species by using the polymerase chain reaction (PCR) which involves in vitro amplification of a particular region of DNA sequence. In the current study, we used heterogenic parts for isolation of DNA from twelve important medicinal herbal species followed by purity determination, and yield calculation. We optimized a PCR reaction using universal primer sets to amplify the target DNA followed by DNA sequencing, and species identification. We also performed phylogenetic analysis for determining the evolutionary relationship between the herbal species, by using MEGAX32 software. Further, we prepared adulterated herbal species samples to validate the method. The method was able to amplify the target gene through PCR in 11 out of 12 herbal species samples (sensitivity 91.66%).The DNA from cinnamon could not yield a truly amplified product. On DNA sequencing, all the amplified products were identified as true herbal species (specificity 100%). In the adulterated samples, non-specific DNA bands were observed after performing the PCR reaction, indicating the mixing of more than one herbal species. To conclude, DNA sequencing-based molecular analysis is advantageous for the correct identification, and detection of adulterated herbal species.
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Affiliation(s)
- Zeeshan Hyder
- Department of Pharmacognosy, Faculty of Pharmacy and Pharmaceutical Sciences, University of Karachi, Sindh, Pakistan
| | - Ghazala Hafeez Rizwani
- Hamdard University, Madinat al-Hikmah, Hakim Mohammed Said Road, Karachi, Sindh, Pakistan
| | - Huma Shareef
- Department of Pharmacognosy, Faculty of Pharmaceutical Sciences, Jinnah Sindh Medical University, JSMU, Karachi, Sindh, Pakistan
| | - Iqbal Azhar
- Department of Pharmacognosy, Faculty of Pharmacy and Pharmaceutical Sciences, University of Karachi, Sindh, Pakistan
| | - Meraj Zehra
- Department: Almajeed College of Eastern Medicine, Hamdard University, Madinat al-Hikmah, Hakim Mohammed Said Road, Karachi, Sindh, Pakistan
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Meng S, Liu D, Li Y, Dong N, Liu S, Liu C, Li X, You T. Photoelectrochemical and visual dual-mode sensor for efficient detection of Cry1Ab protein based on the proximity hybridization driven specific desorption of multifunctional probe. JOURNAL OF HAZARDOUS MATERIALS 2023; 441:129759. [PMID: 36058185 DOI: 10.1016/j.jhazmat.2022.129759] [Citation(s) in RCA: 15] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 08/06/2022] [Accepted: 08/08/2022] [Indexed: 06/15/2023]
Abstract
Currently, the development of sensitive and visual strategy for Cry1Ab detection, particularly using a switchable dual-mode detection system based on a single component, remains a great challenge. Here, a photoelectrochemical (PEC) and visual dual-mode sensor was designed for Cry1Ab detection based on a proximity hybridization driven multifunctional probe. In the presence of Cry1Ab, specific desorption of the antibody-DNA conjugate was achieved via sufficient proximity hybridization, leading to the selective release of the multifunctional signal probe, i.e., antibody-labeled single-stranded DNA-gold nanoparticles (Ab1-S1-AuNPs). The released Ab1-S1-AuNPs reduced the photocurrent signal and produced a colored response, thereby achieving PEC and visual dual-mode detection based on a single component. Owing to the different signal generation mechanisms, two independent signals were obtained simultaneously, which provided self-verification to improve reliability and accuracy. Taking advantage of the PEC sensitive detection and visual prediction, the dual-mode sensor achieved efficient detection of the Cry1Ab protein. The developed sensor was successfully used to determine Cry1Ab in corn, wheat, and soil samples with satisfactory results. This method offers a promising biosensing platform for the on-site detection of Cry1Ab protein.
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Affiliation(s)
- Shuyun Meng
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China
| | - Dong Liu
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China.
| | - Yuye Li
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China
| | - Na Dong
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China
| | - Shuda Liu
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China
| | - Chang Liu
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China
| | - Xia Li
- Department of Chemistry, Liaocheng University, Liaocheng 252059, Shandong, China
| | - Tianyan You
- Key Laboratory of Modern Agricultural Equipment and Technology (Jiangsu University), Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang 212013, Jiangsu, China.
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Chen X, Yu H, Wang P, Peng C, Wang X, Xu X, Xu J, Liang J, Li L. Digital PCR-Based Characterization of a g10evo-epsps Gene-Specific Matrix Reference Material for Its Food and Feed Detection. Foods 2022; 11:foods11131888. [PMID: 35804704 PMCID: PMC9266130 DOI: 10.3390/foods11131888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Revised: 06/20/2022] [Accepted: 06/22/2022] [Indexed: 12/07/2022] Open
Abstract
g10evo-epsps is a novel glyphosate herbicide-resistant gene that has been transferred to various crops such as soybean, corn, cotton, and rice. Here, we developed a gene-specific digital Polymerase Chain Reaction (dPCR) detection method for absolute quantitative analysis of g10evo-epsps, and characterized g10evo-epsps certified reference materials (CRM) using ZUTS-33 soybean powder as the candidate material. Stability tests of matrix CRMs demonstrate that these CRMs can be stored stably for 6 months and transported for 10 days at room temperature and withstand summer high temperatures (below 60 °C). CRM characterization is based on the copy number ratio of g10evo-epsps to lectin. Eight qualified laboratories independently validated the CRM using dPCR method, with a measurement of 0.98 (copy/copy) and an extended uncertainty of 0.08 (copy/copy). The g10evo-epsps matrix CRM described here may be used for qualitative and quantitative testing, method evaluation, laboratory quality control, and other related fields.
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Affiliation(s)
- Xiaoyun Chen
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (X.C.); (C.P.); (X.W.); (X.X.); (J.X.)
| | - Huiru Yu
- College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua 321001, China;
| | - Pengfei Wang
- Institute of Insect Sciences, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China;
| | - Cheng Peng
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (X.C.); (C.P.); (X.W.); (X.X.); (J.X.)
| | - Xiaofu Wang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (X.C.); (C.P.); (X.W.); (X.X.); (J.X.)
| | - Xiaoli Xu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (X.C.); (C.P.); (X.W.); (X.X.); (J.X.)
| | - Junfeng Xu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (X.C.); (C.P.); (X.W.); (X.X.); (J.X.)
| | - Jingang Liang
- Development Center of Science and Technology, Ministry of Agriculture and Rural Affairs, Beijing 100176, China
- Correspondence: (J.L.); (L.L.)
| | - Liang Li
- Institute of Quality Standard and Testing Technology for Agro-Products, Chinese Academy of Agricultural Sciences, Beijing 100081, China
- Correspondence: (J.L.); (L.L.)
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Dong S, He K, Guan L, Shi Q, Wu J, Feng J, Yang W, Shi X. Construction and Characterization of a Single-Chain Variable Fragment (scFv) for the Detection of Cry1Ab and Cry1Ac Toxins from the Anti-Cry1Ab Monoclonal Antibody. FOOD ANAL METHOD 2022. [DOI: 10.1007/s12161-021-02223-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Tortajada-Genaro LA, Maquieira A. Multiple recombinase polymerase amplification and low-cost array technology for the screening of genetically modified organisms. J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2021.104083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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6
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An N, Li K, Zhang Y, Wen T, Liu W, Liu G, Li L, Jin W. A multiplex and regenerable surface plasmon resonance (MR-SPR) biosensor for DNA detection of genetically modified organisms. Talanta 2021; 231:122361. [PMID: 33965027 DOI: 10.1016/j.talanta.2021.122361] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2020] [Revised: 01/14/2021] [Accepted: 03/21/2021] [Indexed: 11/29/2022]
Abstract
The continuous advancement of analytical technology has provided methods with increasing sensitivity and precision to detect genetically modified organisms (GMOs). Novel analytical strategy-based detection methods are alternatives to conventional polymerase chain reaction (PCR)-mediated assays, which are still the gold standard in this field. However, PCR primers and probes cannot be reused, which makes the technique uneconomical. Surface plasmon resonance (SPR) is an optical and label-free technique for studying ligand-analyte interactions, especially for DNA hybridization, and several SPR biosensors have been described for the detection of nucleic acids. Here, a multiplexed, regenerable and real-time SPR biosensor for the detection of GMOs is described. A biosensor was constructed for qualitative detection of T-nos, CaMV35S and cry1A and had good specificity and sensitivity. The limit of detection (LOD) of this biosensor was 0.1 nM without any signal amplification. Furthermore, our biosensor could be stably regenerated more than 100 times over at least 20 days and showed good reproducibility. This nucleic acid SPR biosensor has potential for application in other types of biological detection.
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Affiliation(s)
- Na An
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Kai Li
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Yukun Zhang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Tingting Wen
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Weixiao Liu
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Gang Liu
- Laboratory of Biometrology, Division of Chemistry, Shanghai Institute of Measurement and Testing Technology, Shanghai, 201203, China.
| | - Liang Li
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Wujun Jin
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
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Effect of Transgenic Rootstock Grafting on the Omics Profiles in Tomato. Food Saf (Tokyo) 2021; 9:32-47. [PMID: 34249588 PMCID: PMC8254850 DOI: 10.14252/foodsafetyfscj.d-20-00032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Accepted: 05/12/2021] [Indexed: 11/21/2022] Open
Abstract
Grafting of non-transgenic scion onto genetically modified (GM) rootstocks provides superior
agronomic traits in the GM rootstock, and excellent fruits can be produced for consumption. In
such grafted plants, the scion does not contain any foreign genes, but the fruit itself is
likely to be influenced directly or indirectly by the foreign genes in the rootstock. Before
market release of such fruit products, the effects of grafting onto GM rootstocks should be
determined from the perspective of safety use. Here, we evaluated the effects of a transgene
encoding β-glucuronidase (GUS) on the grafted tomato fruits as a model case. An edible tomato
cultivar, Stella Mini Tomato, was grafted onto GM Micro-Tom tomato plants that had been
transformed with the GUS gene. The grafted plants showed no difference in
their fruit development rate and fresh weight regardless of the presence or absence of the
GUS gene in the rootstock. The fruit samples were subjected to transcriptome
(NGS-illumina), proteome (shotgun LC-MS/MS), metabolome (LC-ESI-MS and GC-EI-MS), and general
food ingredient analyses. In addition, differentially detected items were identified between
the grafted plants onto rootstocks with or without transgenes (more than two-fold). The
transcriptome analysis detected approximately 18,500 expressed genes on average, and only 6
genes were identified as differentially expressed. Principal component analysis of 2,442 peaks
for peptides in proteome profiles showed no significant differences. In the LC-ESI-MS and
GC-EI-MS analyses, a total of 93 peak groups and 114 peak groups were identified, respectively,
and only 2 peak groups showed more than two-fold differences. The general food ingredient
analysis showed no significant differences in the fruits of Stella scions between GM and non-GM
Micro-Tom rootstocks. These multiple omics data showed that grafting on the rootstock harboring
the GUS transgene did not induce any genetic or metabolic variation in the
scion.
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Prevalence of Genetically Modified Soybean in Animal Feedingstuffs in Poland. J Vet Res 2021; 65:93-99. [PMID: 33817401 PMCID: PMC8009591 DOI: 10.2478/jvetres-2021-0012] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2020] [Accepted: 02/02/2021] [Indexed: 11/22/2022] Open
Abstract
Introduction Globally, genetically modified (GM) crops were grown on 191.7 million hectares in 2018, which were mostly sown with soybean, maize, cotton, oilseed rape, and rice. The most popular traits introduced through genetic modification include herbicide and pest insect resistance. The aim of this study was to identify and quantify genetically modified soybean used in animal feed in Poland. Material and methods This research was based on the real-time PCR technique. All methods for GM soybean events were adopted from the EURL GMFF database of methods and previously verified to meet the minimum criteria of acceptance. Over 15 years of research, 665 samples were examined in total. Results The most common GM soybean event was MON40-3-2, tested for from the beginning of the investigation. Next, in decreasing order of frequency, were MON89788, MON87701, and A2704-12. In the majority of samples (606; 91%) GM soybeans were identified at a content level above the 0.9% GM content threshold for mandatory labelling. Only 59 soybean samples (9%) were identified as GM negative. GM negative results were mainly identified during the analyses in the last three years of the study, from 2017 to 2019. Conclusion Our data clearly indicate that the majority of soybean used in Poland for animal feeding was genetically modified.
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Alipour M, Jalili S, Shirzad H, Ansari Dezfouli E, Fouani MH, Sadeghan AA, Bardania H, Hosseinkhani S. Development of dual-emission cluster of Ag atoms for genetically modified organisms detection. Mikrochim Acta 2020; 187:628. [PMID: 33095319 DOI: 10.1007/s00604-020-04591-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Accepted: 10/07/2020] [Indexed: 12/18/2022]
Abstract
A DNA-silver nanocluster with two distinct emissions is devised, in which this unique modality has been exploited to develop a novel nanosensor for transgenic DNA detection. TEM and fluorescence analysis revealed the formation of Ag nanoclusters with a size of around 2 nm, which exhibit dual-emissions at 550 nm (green) and 630 nm (red). Moreover, in the presence of the target sequence (CaMV 35S promoter) from the transgenic plant, the nanoclusters showed an enhancement in the green emission and a reduction in the red emission. This property provided a ratiometric-sensing platform which lacks unavoidable noises. The ratio of green to red fluorescence emission (G/R) of the nanoclusters exhibited a linear relation with the target concentration in the range 10 to 1000 nM. However, the control DNA did not affect this ratio, which clearly confirmed the selective response of the designed nanosensor. This sensing platform had a detection limit of 1.5 nM and identified the DNA of transgenic soybeans within a short time. The mechanistic evaluation of the nanoclusters further revealed the role of protonated cytosine bases in the dual emission behavior. Finally, unique features of the designed nanosensor may improve the current approaches for the development and manufacturing of GMO detection tools.
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Affiliation(s)
- Mohsen Alipour
- Department of Advanced Medical Sciences & Technologies, School of Medicine, Jahrom University of Medical Sciences, Jahrom, Iran.
| | - Shirin Jalili
- Research Institute of Police Science & Social Studies, Tehran, Iran
| | - Hadi Shirzad
- Research Institute of Police Science & Social Studies, Tehran, Iran
| | - Ehsan Ansari Dezfouli
- Department of Nanobiotechnology, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran
| | - Mohamad Hassan Fouani
- Department of Nanobiotechnology, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran
| | - Amir Amiri Sadeghan
- Tuberculosis and Lung Diseases Research Center, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Hassan Bardania
- Cellular and Molecular Research Center, Yasuj University of Medical Sciences, Yasuj, Iran
- Clinical Research Development Unit, Imamsajad Hospital, Yasuj University of Medical Sciences, Yasuj, Iran
| | - Saman Hosseinkhani
- Department of Nanobiotechnology, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran.
- Department of Biochemistry, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran.
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Liu F, Li K, Zhang Y, Ding J, Wen T, Pei X, Yan Y, Ji W, Liu J, Zhang X, Li L. An electrochemical DNA biosensor based on nitrogen-doped graphene nanosheets decorated with gold nanoparticles for genetically modified maize detection. Mikrochim Acta 2020; 187:574. [PMID: 32964251 DOI: 10.1007/s00604-020-04511-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Accepted: 08/18/2020] [Indexed: 10/23/2022]
Abstract
A reliable electrochemical biosensor is reported based on nitrogen-doped graphene nanosheets and gold nanoparticle (Au/N-G) nanocomposites for the event-specific detection of GM maize MIR162. The differential pulse voltammetry response of methylene blue (MB) was chosen to monitor the target DNA hybridization event. Under the optimum conditions, the peak current increased linearly with the logarithm of the concentration of DNA in the range 1.0 × 10-14 to 1.0 × 10-8 M, and the detection limit was 2.52 × 10-15 M (S/N = 3). It is also demonstrated that the DNA biosensor has high selectivity, good stability, and fabrication reproducibility. The biosensor has been effectively applied to detect MIR162 in real samples, showing its potential as an effective tool for GM crop analysis. These results will contribute to the development of new portable transgenic detection systems. Graphical abstract .
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Affiliation(s)
- Fuli Liu
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China
| | - Kai Li
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yukun Zhang
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China
| | - Jiaqi Ding
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China
| | - Tingting Wen
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China
| | - Xinwu Pei
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, People's Republic of China
| | - Yongliang Yan
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, People's Republic of China
| | - Wei Ji
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China
| | - Jian Liu
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China.
| | - Xiao Zhang
- School of Life Science and Technology, Changchun University of Science and Technology, Changchun, 130000, People's Republic of China.
| | - Liang Li
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, People's Republic of China.
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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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12
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Omran MM, Kiani F, Saraei AGH, Koohyar F, Rostami AM. Determination and study on refractive indices and viscosities of aqueous solutions of citric acid, (citric acid + glycerol), and (citric acid + d-sorbitol) at T = 293.15 K-323.15 K and atmospheric pressure. Food Chem 2019; 289:436-442. [PMID: 30955634 DOI: 10.1016/j.foodchem.2019.03.075] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Revised: 03/09/2019] [Accepted: 03/16/2019] [Indexed: 10/27/2022]
Abstract
Citric acid, glycerol, and d-sorbitol are used as important food additives. In this research work, viscosities and refractive indices (the physico-chemical properties) for aqueous solution of citric acid, as well as ternary solutions of (water + d-sorbitol + citric acid) and (water + glycerol + citric acid) were measured in mass fractions of citric acid (0.03-0.21) and at temperatures (T = 293.15, 303.15, 313.15, and 323.15) K and atmospheric pressure. For these solutions, the experimental refractive indices were fitted using a semi-empirical equation which its constant, Kr, was introduced by Koohyar in 2011. This constant can be applied to investigate the power of interactions between solute and solvent molecules in aqueous solutions. Also, the experimental viscosities were fitted by the Jones-Dole and Arrhenius-like equations. Obtained data of this research work can be applied in food industries.
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Affiliation(s)
- Mina Miranzadeh Omran
- Department of Agriculture of Food Science Engineering, Ayatollah Amoli Branch, Islamic Azad University, Amol, Iran
| | - Farhoush Kiani
- Faculty of Science, Department of Chemistry, Islamic Azad University, Ayatollah Amoli Branch, Amol, Iran
| | - Azade Ghorbani-Hasan Saraei
- Department of Agriculture of Food Science Engineering, Ayatollah Amoli Branch, Islamic Azad University, Amol, Iran
| | - Fardad Koohyar
- Division of Computational Physics, Institute for Computational Science, Ton Duc Thang University, Ho Chi Minh City, Vietnam; Faculty of Applied Sciences, Ton Duc Thang University, Ho Chi Minh City, Vietnam.
| | - Ali Mohammadzadeh Rostami
- Department of Agriculture of Food Science Engineering, Ayatollah Amoli Branch, Islamic Azad University, Amol, Iran
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Fortunati S, Rozzi A, Curti F, Giannetto M, Corradini R, Careri M. Novel amperometric genosensor based on peptide nucleic acid (PNA) probes immobilized on carbon nanotubes-screen printed electrodes for the determination of trace levels of non-amplified DNA in genetically modified (GM) soy. Biosens Bioelectron 2019; 129:7-14. [PMID: 30682690 DOI: 10.1016/j.bios.2019.01.020] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2018] [Revised: 01/07/2019] [Accepted: 01/11/2019] [Indexed: 02/09/2023]
Abstract
A novel amperometric genosensor based on PNA probes covalently bound on the surface of Single Walled Carbon Nanotubes - Screen Printed Electrodes (SWCNT-SPEs) was developed and validated in samples of non-amplified genomic DNA extracted from genetically modified (GM)-Soy. The sandwich assay is based on a first recognition of a 20-mer portion of the target DNA by a complementary PNA Capture Probe (CP) and a second hybridization with a PNA Signalling Probe (SP), with a complementary sequence to a different portion of the target DNA. The SP was labelled with biotin to measure current signal by means of a final incubation of an Alkaline Phosphatase-streptavidin conjugate (ALP-Strp). The electrochemical detection was carried out using hydroquinone diphosphate (HQDP) as enzymatic substrate. The genoassay provided a linear range from 250 pM to 2.5 nM, LOD of 64 pM and LOQ of 215 pM Excellent selectivity towards one base mismatch (1-MM) or scrambled (SCR) sequences was obtained. A simple protocol for extraction and analysis of non-amplified soybean genomic DNA without sample treatment was developed and validated. Our study provides insight into how the outstanding recognition efficiency of PNAs can be combined with the unique properties of CNTs in terms of signal response enhancement for direct detection of genomic DNA samples at the level of interest without previous amplification.
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Affiliation(s)
- Simone Fortunati
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124 Parma, Italy
| | - Andrea Rozzi
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124 Parma, Italy
| | - Federica Curti
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124 Parma, Italy
| | - Marco Giannetto
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124 Parma, Italy.
| | - Roberto Corradini
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124 Parma, Italy.
| | - Maria Careri
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124 Parma, Italy
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14
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Cottenet G, Blancpain C, Sonnard V, Chuah PF. Two FAST multiplex real-time PCR reactions to assess the presence of genetically modified organisms in food. Food Chem 2019; 274:760-765. [DOI: 10.1016/j.foodchem.2018.09.050] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2017] [Revised: 08/31/2018] [Accepted: 09/09/2018] [Indexed: 11/25/2022]
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Giraldo PA, Cogan NOI, Spangenberg GC, Smith KF, Shinozuka H. Development and Application of Droplet Digital PCR Tools for the Detection of Transgenes in Pastures and Pasture-Based Products. FRONTIERS IN PLANT SCIENCE 2019; 9:1923. [PMID: 30671074 PMCID: PMC6331530 DOI: 10.3389/fpls.2018.01923] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/14/2018] [Accepted: 12/11/2018] [Indexed: 06/09/2023]
Abstract
Implementation of molecular biotechnology, such as transgenic technologies, in forage species can improve agricultural profitability through achievement of higher productivity, better use of resources such as soil nutrients, water, or light, and reduced environmental impact. Development of detection and quantification techniques for genetically modified plants are necessary to comply with traceability and labeling requirements prior to regulatory approval for release. Real-time PCR has been the standard method used for detection and quantification of genetically modified events, and droplet digital PCR is a recent alternative technology that offers a higher accuracy. Evaluation of both technologies was performed using a transgenic high-energy forage grass as a case study. Two methods for detection and quantification of the transgenic cassette, containing modified fructan biosynthesis genes, and a selectable marker gene, hygromycin B phosphotransferase used for transformation, were developed. Real-time PCR was assessed using two detection techniques, SYBR Green I and fluorescent probe-based methods. A range of different agricultural commodities were tested including fresh leaves, tillers, seeds, pollen, silage and hay, simulating a broad range of processed agricultural commodities that are relevant in the commercial use of genetically modified pastures. The real-time and droplet digital PCR methods were able to detect both exogenous constructs in all agricultural products. However, a higher sensitivity and repeatability in transgene detection was observed with the droplet digital PCR technology. Taking these results more broadly, it can be concluded that the droplet digital PCR technology provides the necessary resolution for quantitative analysis and detection, allowing absolute quantification of the target sequence at the required limits of detection across all jurisdictions globally. The information presented here provides guidance and resources for pasture-based biotechnology applications that are required to comply with traceability requirements.
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Affiliation(s)
- Paula A. Giraldo
- Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, Australia
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
| | - Noel O. I. Cogan
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
| | - German C. Spangenberg
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
- Agriculture Victoria, Hamilton, VIC, Australia
| | - Kevin F. Smith
- Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, Australia
- Agriculture Victoria, Hamilton, VIC, Australia
| | - Hiroshi Shinozuka
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
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16
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Development of an immunochromatographic assay for the specific detection of Bacillus thuringiensis (Bt) Cry1Ab toxin. Anal Biochem 2018; 567:1-7. [PMID: 30130490 DOI: 10.1016/j.ab.2018.08.014] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2018] [Revised: 07/26/2018] [Accepted: 08/17/2018] [Indexed: 11/21/2022]
Abstract
Cry1Ab has been widely used in genetically modified (GM) crops and its amino acid sequence had high identity to Cry1Ac toxin. Existing nanogold immunochromatographic strips cannot distinguish Cry1Ab from Cry1Ac toxin. In this study, a rapid (5-6 min), qualitative nanogold immunochromatographic strip was successfully developed for the specific detection of Cry1Ab toxin. The assay was based on double antibody sandwich format with the visual detection limit (vLOD) of 0.1 μg mL-1. The results of immunochromatographic assay were all positive validated against the DAS-ELISA (recoveries between 109.6 and 111.8%). In addition, 10%, 5% and 0% error probability results were found in 20 times repeated tests for Cry1Ab concentration of 0.1, 0.2, 0.5 and 1 μg mL-1, respectively, demonstrating the reproducibility of the test strip. Furthermore, the test strip could be stored for 3 months under dry conditions without significant loss of sensitivity. Furthermore, the practical sample analysis results showed that the test strip was able to detect the presence of Cry1Ab in GM materials containing as low as 0.5% MON 810 Bt maize which indicated the practical value of the test strip. To our knowledge, this is the first report on the detection of Cry1Ab by immunochromatographic assay without interference from Cry1Ac toxin.
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17
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Development of a multiplex fluorescence quantitative PCR for detection of genetically modified organisms. Biologia (Bratisl) 2018. [DOI: 10.2478/s11756-018-0004-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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18
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Miaw C, Vasconcelos E, Guimarães N, Souza S. Bt11 event detection by real-time PCR: single-laboratory validation, comparison of DNA extraction and quantification techniques and application. QUALITY ASSURANCE AND SAFETY OF CROPS & FOODS 2017. [DOI: 10.3920/qas2016.0974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Affiliation(s)
- C.S.W. Miaw
- Department of Food Science, Faculty of Pharmacy (FAFAR), Federal University of Minas Gerais (UFMG), Av. Antônio Carlos 6627, Campus da UFMG, Pampulha, Belo Horizonte, MG 31270-010, Brazil
| | - E.N. Vasconcelos
- National Agricultural Laboratory – LANAGRO/MG, Ministry of Agriculture, Livestock and Food Supply of Brazil, Plant Diagnostic and GMO Laboratory, Av. Rômulo Joviano s/n CP 35/50, CEP 33600-000, Pedro Leopoldo, MG, Brazil
| | - N.C.C. Guimarães
- National Agricultural Laboratory – LANAGRO/MG, Ministry of Agriculture, Livestock and Food Supply of Brazil, Plant Diagnostic and GMO Laboratory, Av. Rômulo Joviano s/n CP 35/50, CEP 33600-000, Pedro Leopoldo, MG, Brazil
| | - S.V.C. Souza
- Department of Food Science, Faculty of Pharmacy (FAFAR), Federal University of Minas Gerais (UFMG), Av. Antônio Carlos 6627, Campus da UFMG, Pampulha, Belo Horizonte, MG 31270-010, Brazil
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19
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Grelewska-Nowotko K, Żurawska-Zajfert M, Żmijewska E, Sowa S. Optimization and Verification of Droplet Digital PCR Even-Specific Methods for the Quantification of GM Maize DAS1507 and NK603. Appl Biochem Biotechnol 2017; 185:207-220. [PMID: 29110175 DOI: 10.1007/s12010-017-2634-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Accepted: 10/16/2017] [Indexed: 12/21/2022]
Abstract
In recent years, digital polymerase chain reaction (dPCR), a new molecular biology technique, has been gaining in popularity. Among many other applications, this technique can also be used for the detection and quantification of genetically modified organisms (GMOs) in food and feed. It might replace the currently widely used real-time PCR method (qPCR), by overcoming problems related to the PCR inhibition and the requirement of certified reference materials to be used as a calibrant. In theory, validated qPCR methods can be easily transferred to the dPCR platform. However, optimization of the PCR conditions might be necessary. In this study, we report the transfer of two validated qPCR methods for quantification of maize DAS1507 and NK603 events to the droplet dPCR (ddPCR) platform. After some optimization, both methods have been verified according to the guidance of the European Network of GMO Laboratories (ENGL) on analytical method verification (ENGL working group on "Method Verification." (2011) Verification of Analytical Methods for GMO Testing When Implementing Interlaboratory Validated Methods). Digital PCR methods performed equally or better than the qPCR methods. Optimized ddPCR methods confirm their suitability for GMO determination in food and feed.
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Affiliation(s)
- Katarzyna Grelewska-Nowotko
- GMO Controlling Laboratory, Department of Plant Biotechnology and Cytogenetics, Plant Breeding and Acclimatization Institute - National Research Institute, Radzikow, 05-870, Blonie, Poland.
| | - Magdalena Żurawska-Zajfert
- GMO Controlling Laboratory, Department of Plant Biotechnology and Cytogenetics, Plant Breeding and Acclimatization Institute - National Research Institute, Radzikow, 05-870, Blonie, Poland
| | - Ewelina Żmijewska
- GMO Controlling Laboratory, Department of Plant Biotechnology and Cytogenetics, Plant Breeding and Acclimatization Institute - National Research Institute, Radzikow, 05-870, Blonie, Poland
| | - Sławomir Sowa
- GMO Controlling Laboratory, Department of Plant Biotechnology and Cytogenetics, Plant Breeding and Acclimatization Institute - National Research Institute, Radzikow, 05-870, Blonie, Poland
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20
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Salisu IB, Shahid AA, Yaqoob A, Ali Q, Bajwa KS, Rao AQ, Husnain T. Molecular Approaches for High Throughput Detection and Quantification of Genetically Modified Crops: A Review. FRONTIERS IN PLANT SCIENCE 2017; 8:1670. [PMID: 29085378 PMCID: PMC5650622 DOI: 10.3389/fpls.2017.01670] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Accepted: 09/11/2017] [Indexed: 06/01/2023]
Abstract
As long as the genetically modified crops are gaining attention globally, their proper approval and commercialization need accurate and reliable diagnostic methods for the transgenic content. These diagnostic techniques are mainly divided into two major groups, i.e., identification of transgenic (1) DNA and (2) proteins from GMOs and their products. Conventional methods such as PCR (polymerase chain reaction) and enzyme-linked immunosorbent assay (ELISA) were routinely employed for DNA and protein based quantification respectively. Although, these Techniques (PCR and ELISA) are considered as significantly convenient and productive, but there is need for more advance technologies that allow for high throughput detection and the quantification of GM event as the production of more complex GMO is increasing day by day. Therefore, recent approaches like microarray, capillary gel electrophoresis, digital PCR and next generation sequencing are more promising due to their accuracy and precise detection of transgenic contents. The present article is a brief comparative study of all such detection techniques on the basis of their advent, feasibility, accuracy, and cost effectiveness. However, these emerging technologies have a lot to do with detection of a specific event, contamination of different events and determination of fusion as well as stacked gene protein are the critical issues to be addressed in future.
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Affiliation(s)
- Ibrahim B. Salisu
- Department of Animal Science, Faculty of Agriculture, Federal University Dutse, Jigawa, Nigeria
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Ahmad A. Shahid
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Amina Yaqoob
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Qurban Ali
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
- Institute of Molecular Biology and Biotechnology, University of Lahore, Lahore, Pakistan
| | - Kamran S. Bajwa
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Abdul Q. Rao
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Tayyab Husnain
- Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan
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21
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Mazur M, Sieradzki Z, Król B, Kwiatek K. Multiplex PCR assays for qualitative detection and identification of the GT73, Ms8, Rf3 and T45 varieties of genetically modified oilseed rape. JOURNAL OF ANIMAL AND FEED SCIENCES 2017. [DOI: 10.22358/jafs/74172/2017] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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22
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Plácido A, Coelho A, Abreu Nascimento L, Gomes Vasconcelos A, Fátima Barroso M, Ramos-Jesus J, Costa V, das Chagas Alves Lima F, Delerue-Matos C, Martins Ramos R, Marani MM, Roberto de Souza de Almeida Leite J. Cry1A(b)16 toxin from Bacillus thuringiensis: Theoretical refinement of three-dimensional structure and prediction of peptides as molecular markers for detection of genetically modified organisms. Proteins 2017; 85:1248-1257. [PMID: 28316108 DOI: 10.1002/prot.25285] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2016] [Revised: 02/24/2017] [Accepted: 03/08/2017] [Indexed: 11/10/2022]
Abstract
Transgenic maize produced by the insertion of the Cry transgene into its genome became the second most cultivated crop worldwide. Cry gene from Bacillus thuringiensis kurstaki expresses protein derivatives of crystalline endotoxins which confer insect resistance onto the maize crop. Mandatory labeling of processed food containing or made by genetically modified organisms is in force in many countries, so, it is very urgent to develop fast and practical methods for GMO identification, for example, biosensors. In the absence of an available empirical structure of Cry1A(b)16 protein, a theoretical model was effectively generated, in this work, by homology modeling and molecular dynamics simulations based on two available homologous protein structures. Molecular dynamics simulations were carried out to refine the selected model, and an analysis of its global structure was performed. The refined models of Cry1A(b)16 showed a standard fold and structural characteristics similar to those seen in Bacillus thuringiensis Cry1A(a) insecticidal toxin and Bacillus thuringiensis serovar kurstaki Cry1A(c) toxin. After in silico analysis of Cry1A(b)16, two immunoreactive candidate peptides were selected and specific polyclonal antibodies were produced resulting in antibody-peptide interaction. Biosensing devices are expected to be developed for detection of the Cry1A(b) protein as a marker of transgenic maize in food. Proteins 2017; 85:1248-1257. © 2017 Wiley Periodicals, Inc.
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Affiliation(s)
- Alexandra Plácido
- REQUIMTE-LAQV, Instituto Superior de Engenharia do Porto, Instituto Politécnico do Porto, Porto, Portugal
| | - Andreia Coelho
- REQUIMTE-LAQV, Instituto Superior de Engenharia do Porto, Instituto Politécnico do Porto, Porto, Portugal
| | - Lucas Abreu Nascimento
- Grupo de Química Quântica Computacional e Planejamento de Fármaco, GQQCPF, Departamento de Química, Universidade Estadual do Piauí, UESPI, Teresina, Brasil.,Laboratório de Pesquisa em Sistemas de Informação, LaPeSI, Departamento de Informação, Ambiente, Saúde e Produção Alimentícia, Instituto Federal do Piauí, Teresina, Brasil
| | - Andreanne Gomes Vasconcelos
- Núcleo de Pesquisa em Biodiversidade e Biotecnologia, Biotec, Campus Ministro Reis Velloso, Universidade Federal do Piauí, Parnaíba, Brasil
| | - Maria Fátima Barroso
- REQUIMTE-LAQV, Instituto Superior de Engenharia do Porto, Instituto Politécnico do Porto, Porto, Portugal
| | - Joilson Ramos-Jesus
- Núcleo de Pesquisa em Biodiversidade e Biotecnologia, Biotec, Campus Ministro Reis Velloso, Universidade Federal do Piauí, Parnaíba, Brasil
| | - Vladimir Costa
- Laboratório de Pesquisas em Leishmanioses, Instituto de Doenças Tropicais Natan Portela, IDTNP, Teresina, Piauí, Brasil
| | - Francisco das Chagas Alves Lima
- Grupo de Química Quântica Computacional e Planejamento de Fármaco, GQQCPF, Departamento de Química, Universidade Estadual do Piauí, UESPI, Teresina, Brasil
| | - Cristina Delerue-Matos
- REQUIMTE-LAQV, Instituto Superior de Engenharia do Porto, Instituto Politécnico do Porto, Porto, Portugal
| | - Ricardo Martins Ramos
- Grupo de Química Quântica Computacional e Planejamento de Fármaco, GQQCPF, Departamento de Química, Universidade Estadual do Piauí, UESPI, Teresina, Brasil.,Laboratório de Pesquisa em Sistemas de Informação, LaPeSI, Departamento de Informação, Ambiente, Saúde e Produção Alimentícia, Instituto Federal do Piauí, Teresina, Brasil
| | - Mariela M Marani
- IPEEC-CONICET, Consejo Nacional de Investigaciones Científicas y Técnicas, Puerto Madryn, Argentina
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23
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Josić D, Peršurić Ž, Rešetar D, Martinović T, Saftić L, Kraljević Pavelić S. Use of Foodomics for Control of Food Processing and Assessing of Food Safety. ADVANCES IN FOOD AND NUTRITION RESEARCH 2017; 81:187-229. [PMID: 28317605 DOI: 10.1016/bs.afnr.2016.12.001] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
Abstract
Food chain, food safety, and food-processing sectors face new challenges due to globalization of food chain and changes in the modern consumer preferences. In addition, gradually increasing microbial resistance, changes in climate, and human errors in food handling remain a pending barrier for the efficient global food safety management. Consequently, a need for development, validation, and implementation of rapid, sensitive, and accurate methods for assessment of food safety often termed as foodomics methods is required. Even though, the growing role of these high-throughput foodomic methods based on genomic, transcriptomic, proteomic, and metabolomic techniques has yet to be completely acknowledged by the regulatory agencies and bodies. The sensitivity and accuracy of these methods are superior to previously used standard analytical procedures and new methods are suitable to address a number of novel requirements posed by the food production sector and global food market.
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Affiliation(s)
- D Josić
- University of Rijeka, Centre for High-Throughput Technologies, Radmile Matejčić 2, Rijeka, Croatia.
| | - Ž Peršurić
- University of Rijeka, Centre for High-Throughput Technologies, Radmile Matejčić 2, Rijeka, Croatia
| | - D Rešetar
- University of Rijeka, Centre for High-Throughput Technologies, Radmile Matejčić 2, Rijeka, Croatia
| | - T Martinović
- University of Rijeka, Centre for High-Throughput Technologies, Radmile Matejčić 2, Rijeka, Croatia
| | - L Saftić
- University of Rijeka, Centre for High-Throughput Technologies, Radmile Matejčić 2, Rijeka, Croatia
| | - S Kraljević Pavelić
- University of Rijeka, Centre for High-Throughput Technologies, Radmile Matejčić 2, Rijeka, Croatia
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24
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Dong S, Zhang X, Liu Y, Zhang C, Xie Y, Zhong J, Xu C, Liu X. Establishment of a sandwich enzyme-linked immunosorbent assay for specific detection of Bacillus thuringiensis (Bt) Cry1Ab toxin utilizing a monoclonal antibody produced with a novel hapten designed with molecular model. Anal Bioanal Chem 2017; 409:1985-1994. [PMID: 28078413 DOI: 10.1007/s00216-016-0146-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2016] [Revised: 11/28/2016] [Accepted: 12/12/2016] [Indexed: 11/28/2022]
Abstract
Cry1Ab toxin is commonly expressed in genetically modified crops in order to control chewing pests. At present, the detection method with enzyme-linked immunosorbent assay (ELISA) based on monoclonal antibody cannot specifically detect Cry1Ab toxin for Cry1Ab's amino acid sequence and spatial structure are highly similar to Cry1Ac toxin. In this study, based on molecular design, a novel hapten polypeptide was synthesized and conjugated to keyhole limpet hemocyanin (KLH). Then, through animal immunization with this antigen, a monoclonal antibody named 2C12, showing high affinity to Cry1Ab and having no cross reaction with Cry1Ac, was produced. The equilibrium dissociation constant (K D) value of Cry1Ab toxin with MAb 2C12 was 1.947 × 10-8 M. Based on this specific monoclonal antibody, a sandwich enzyme-linked immunosorbent assay (DAS-ELISA) was developed for the specific determination of Cry1Ab toxin and the LOD and LOQ values were determined as 0.47 ± 0.11 and 2.43 ± 0.19 ng mL-1, respectively. The average recoveries of Cry1Ab from spiked rice leaf and rice flour samples ranged from 75 to 115%, with coefficient of variation (CV) less than 8.6% within the quantitation range (2.5-100 ng mL-1), showing good accuracy for the quantitative detection of Cry1Ab toxin in agricultural samples. In conclusion, this study provides a new approach for the production of high specific antibody and the newly developed DAS-ELISA is a useful method for Cry1Ab monitoring in agriculture products. Graphical Abstract Establishment of a DAS-ELISA for the specific detecting of Bacillus thuringiensis (Bt) Cry1Ab toxin.
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Affiliation(s)
- Sa Dong
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China.,College of Plant Protection, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Xiao Zhang
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China
| | - Yuan Liu
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China
| | - Cunzheng Zhang
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China
| | - Yajing Xie
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China
| | - Jianfeng Zhong
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China
| | - Chongxin Xu
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China
| | - Xianjin Liu
- Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Key Laboratory of Control Technology and Standard for Agro-product Safety and Quality, Ministry of Agriculture, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, 210014, China. .,College of Plant Protection, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China.
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25
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Wu Y, Li J, Wang Y, Li X, Li Y, Zhu L, Li J, Wu G. Development and application of a general plasmid reference material for GMO screening. Plasmid 2016; 87-88:28-36. [PMID: 27497661 DOI: 10.1016/j.plasmid.2016.08.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2016] [Revised: 07/26/2016] [Accepted: 08/01/2016] [Indexed: 11/25/2022]
Abstract
The use of analytical controls is essential when performing GMO detection through screening tests. Additionally, the presence of taxon-specific sequences is analyzed mostly for quality control during GMO detection. In this study, 11 commonly used genetic elements involving three promoters (P-35S, P-FMV35S and P-NOS), four marker genes (Bar, NPTII, HPT and Pmi), and four terminators (T-NOS, T-35S, T-g7 and T-e9), together with the reference gene fragments from six major crops of maize, soybean, rapeseed, rice, cotton and wheat, were co-integrated into the same single plasmid to construct a general reference plasmid pBI121-Screening. The suitability test of pBI121-Screening plasmid as reference material indicated that the non-target sequence on the pBI121-Screening plasmid did not affect the PCR amplification efficiencies of screening methods and taxon-specific methods. The sensitivity of screening and taxon-specific assays ranged from 5 to 10 copies of pBI121-Screening plasmid, meeting the sensitivity requirement of GMO detection. The construction of pBI121-Screening solves the lack of a general positive control for screening tests, thereby reducing the workload and cost of preparing a plurality of the positive control.
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Affiliation(s)
- Yuhua Wu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Jun Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Yulei Wang
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Xiaofei Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Yunjing Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Li Zhu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Jun Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China
| | - Gang Wu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, China; Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, China.
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26
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Zhang X, Tang Q, Wang X, Wang Z. Structure of Exogenous Gene Integration and Event-Specific Detection in the Glyphosate-Tolerant Transgenic Cotton Line BG2-7. PLoS One 2016; 11:e0158384. [PMID: 27379683 PMCID: PMC4933378 DOI: 10.1371/journal.pone.0158384] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2016] [Accepted: 06/15/2016] [Indexed: 11/25/2022] Open
Abstract
In this study, the flanking sequence of an inserted fragment conferring glyphosate tolerance on transgenic cotton line BG2-7 was analyzed by thermal asymmetric interlaced polymerase chain reaction (TAIL-PCR) and standard PCR. The results showed apparent insertion of the exogenous gene into chromosome D10 of the Gossypium hirsutum L. genome, as the left and right borders of the inserted fragment are nucleotides 61,962,952 and 61,962,921 of chromosome D10, respectively. In addition, a 31-bp cotton microsatellite sequence was noted between the genome sequence and the 5' end of the exogenous gene. In total, 84 and 298 bp were deleted from the left and right borders of the exogenous gene, respectively, with 30 bp deleted from the cotton chromosome at the insertion site. According to the flanking sequence obtained, several pairs of event-specific detection primers were designed to amplify sequence between the 5' end of the exogenous gene and the cotton genome junction region as well as between the 3' end and the cotton genome junction region. Based on screening tests, the 5'-end primers GTCATAACGTGACTCCCTTAATTCTCC/CCTATTACACGGCTATGC and 3'-end primers TCCTTTCGCTTTCTTCCCTT/ACACTTACATGGCGTCTTCT were used to detect the respective BG2-7 event-specific primers. The limit of detection of the former primers reached 44 copies, and that of the latter primers reached 88 copies. The results of this study provide useful data for assessment of BG2-7 safety and for accelerating its industrialization.
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Affiliation(s)
- Xiaobing Zhang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, China
- Biology Institute, Hebei Academy of Sciences, Shijiazhuan, China
| | - Qiaoling Tang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xujing Wang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Zhixing Wang
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, China
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Peng C, Wang P, Xu X, Wang X, Wei W, Chen X, Xu J. Development of a qualitative real-time PCR method to detect 19 targets for identification of genetically modified organisms. SPRINGERPLUS 2016; 5:889. [PMID: 27386337 PMCID: PMC4920734 DOI: 10.1186/s40064-016-2395-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Accepted: 05/24/2016] [Indexed: 11/12/2022]
Abstract
As the amount of commercially available genetically modified organisms (GMOs) grows recent years, the diversity of target sequences for molecular detection techniques are eagerly needed. Considered as the gold standard for GMO analysis, the real-time PCR technology was optimized to produce a high-throughput GMO screening method. With this method we can detect 19 transgenic targets. The specificity of the assays was demonstrated to be 100 % by the specific amplification of DNA derived from reference material from 20 genetically modified crops and 4 non modified crops. Furthermore, most assays showed a very sensitive detection, reaching the limit of ten copies. The 19 assays are the most frequently used genetic elements present in GM crops and theoretically enable the screening of the known GMO described in Chinese markets. Easy to use, fast and cost efficient, this method approach fits the purpose of GMO testing laboratories.
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Affiliation(s)
- Cheng Peng
- Institute of Quality and Standard for Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021 China ; State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Hangzhou, 310021 China
| | - Pengfei Wang
- College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, 310058 China
| | - Xiaoli Xu
- Institute of Quality and Standard for Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021 China ; State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Hangzhou, 310021 China
| | - Xiaofu Wang
- Institute of Quality and Standard for Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021 China ; State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Hangzhou, 310021 China
| | - Wei Wei
- Institute of Quality and Standard for Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021 China ; State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Hangzhou, 310021 China
| | - Xiaoyun Chen
- Institute of Quality and Standard for Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021 China ; State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Hangzhou, 310021 China
| | - Junfeng Xu
- Institute of Quality and Standard for Agro-Products, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021 China ; State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Hangzhou, 310021 China
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Burns M, Wiseman G, Knight A, Bramley P, Foster L, Rollinson S, Damant A, Primrose S. Measurement issues associated with quantitative molecular biology analysis of complex food matrices for the detection of food fraud. Analyst 2016; 141:45-61. [DOI: 10.1039/c5an01392e] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
A review of measurement issues associated with quantitative molecular analysis of complex food matrices for the detection of food fraud.
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Affiliation(s)
| | - Gordon Wiseman
- Premier Analytical Services
- Premier Foods Group Ltd
- The Lord Rank Centre
- Bucks HP12 3QS
- UK
| | | | - Peter Bramley
- School of Biological Sciences
- Royal Holloway
- University of London
- Surrey TW20 0EX
- UK
| | - Lucy Foster
- Department for the Environment
- Food and Rural Affairs
- London SW1P 3JR
- UK
| | - Sophie Rollinson
- Department for the Environment
- Food and Rural Affairs
- London SW1P 3JR
- UK
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Li Y, Xiong T, Wu H, Yang Y. Visual DNA microarray coupled with multiplex-PCR for the rapid detection of twelve genetically modified maize. BIOCHIP JOURNAL 2015. [DOI: 10.1007/s13206-016-0106-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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30
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Developing a matrix reference material for screening of transgenic rice. Anal Bioanal Chem 2015; 407:9153-63. [PMID: 26462921 DOI: 10.1007/s00216-015-9081-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2015] [Revised: 09/18/2015] [Accepted: 09/24/2015] [Indexed: 10/23/2022]
Abstract
Certified reference materials (CRMs) that are compatible with detection methods are needed to detect genetically modified organisms (GMOs). Screening is the first detection step in determining the possible presence of GMO ingredients in food or feed; however, screening has been hindered by the lack of GMO CRMs. In this study, transgenic rice materials were developed via the transformation of a construct harboring 11 commonly used screening elements. Digital PCR was utilized to identify a homozygous single-copy line termed SDrice. The qualitative detections of 11 elements in 21 transgenic materials demonstrated that the genomic DNA of the SDrice was suitable for use as a positive control in the screening of GMO ingredients. The suitability of SDrice as reference material was further checked by testing the sensitivity of 11 known conventional PCR assays, ranging from 10 to 50 copies of the SDrice genome. The standard curves that were created using SDrice DNA series as calibrators all exhibited good linearities in the relationships of the Ct values with the template copy numbers in these 11 real-time PCR assays. The LODs of the real-time PCR assays were estimated to be two to five copies of the SDrice genome. Comparisons of the SDrice with other GM rice revealed that significant differences existed in both the intercepts of the standard curves and the ΔCt values of the exogenous and reference genes for the P-35S, T-nos, HPT, T-35S, and Bar assays; the SDrice was not fit for quantification of other GM rice events. This study provided a matrix reference material (RM) that was suitable for screening GM rice, determination of sensitivity and a LOD of PCR assays, and overcame some of the drawbacks of plasmid DNA as reference material.
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Datukishvili N, Kutateladze T, Gabriadze I, Bitskinashvili K, Vishnepolsky B. New multiplex PCR methods for rapid screening of genetically modified organisms in foods. Front Microbiol 2015; 6:757. [PMID: 26257724 PMCID: PMC4513241 DOI: 10.3389/fmicb.2015.00757] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2015] [Accepted: 07/10/2015] [Indexed: 12/15/2022] Open
Abstract
We present novel multiplex PCR methods for rapid and reliable screening of genetically modified organisms (GMOs). New designed PCR primers targeting four frequently used GMO specific sequences permitted identification of new DNA markers, in particular 141 bp fragment of cauliflower mosaic virus (CaMV) 35S promoter, 224 bp fragment of Agrobacterium tumefaciens nopaline synthase (NOS) terminator, 256 bp fragment of 5-enolppyruvylshikimate-phosphate synthase (epsps) gene and 258 bp fragment of Cry1Ab delta-endotoxin (cry1Ab) gene for GMO screening. The certified reference materials containing Roundup Ready soybean (RRS) and maize MON 810 were applied for the development and optimization of uniplex and multiplex PCR systems. Evaluation of amplification products by agarose gel electrophoresis using negative and positive controls confirmed high specificity and sensitivity at 0.1% GMO for both RRS and MON 810. The fourplex PCR was developed and optimized that allows simultaneous detection of three common transgenic elements, such as: CaMV 35S promoter, NOS terminator, epsps gene together with soybean-specific lectin gene. The triplex PCR developed enables simultaneous identification of transgenic elements, such as: 35S promoter and cry1Ab gene together with maize zein gene. The analysis of different processed foods demonstrated that multiplex PCR methods developed in this study are useful for accurate and fast screening of GM food products.
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Affiliation(s)
- Nelly Datukishvili
- Ivane Beritashvili Center of Experimental Biomedicine Tbilisi, Georgia ; Faculty of Natural Sciences and Engineering, Ilia State University Tbilisi, Georgia
| | | | - Inga Gabriadze
- Ivane Beritashvili Center of Experimental Biomedicine Tbilisi, Georgia
| | - Kakha Bitskinashvili
- Faculty of Natural Sciences and Engineering, Ilia State University Tbilisi, Georgia
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Kim H, Kang N, Chon KW, Kim S, Lee N, Koo J, Kim MS. MRPrimer: a MapReduce-based method for the thorough design of valid and ranked primers for PCR. Nucleic Acids Res 2015; 43:e130. [PMID: 26109350 PMCID: PMC4787749 DOI: 10.1093/nar/gkv632] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2014] [Accepted: 06/05/2015] [Indexed: 11/24/2022] Open
Abstract
Primer design is a fundamental technique that is widely used for polymerase chain reaction (PCR). Although many methods have been proposed for primer design, they require a great deal of manual effort to generate feasible and valid primers, including homology tests on off-target sequences using BLAST-like tools. That approach is inconvenient for many target sequences of quantitative PCR (qPCR) due to considering the same stringent and allele-invariant constraints. To address this issue, we propose an entirely new method called MRPrimer that can design all feasible and valid primer pairs existing in a DNA database at once, while simultaneously checking a multitude of filtering constraints and validating primer specificity. Furthermore, MRPrimer suggests the best primer pair for each target sequence, based on a ranking method. Through qPCR analysis using 343 primer pairs and the corresponding sequencing and comparative analyses, we showed that the primer pairs designed by MRPrimer are very stable and effective for qPCR. In addition, MRPrimer is computationally efficient and scalable and therefore useful for quickly constructing an entire collection of feasible and valid primers for frequently updated databases like RefSeq. Furthermore, we suggest that MRPrimer can be utilized conveniently for experiments requiring primer design, especially real-time qPCR.
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Affiliation(s)
- Hyerin Kim
- Department of Information and Communication Engineering, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
| | - NaNa Kang
- Department of Brain and Cognitive Sciences, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
| | - Kang-Wook Chon
- Department of Information and Communication Engineering, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
| | - Seonho Kim
- Department of Information and Communication Engineering, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
| | - NaHye Lee
- Department of Brain and Cognitive Sciences, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
| | - JaeHyung Koo
- Department of Brain and Cognitive Sciences, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
| | - Min-Soo Kim
- Department of Information and Communication Engineering, DGIST, 333, Techno Jungang Daero, Daegu, 711-873, South Korea
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Sullivan CJ, Pendleton ED, Abrams RE, Valente DL, Alvarez ML, Griffey RH, Dresios J. Chromatin structure analysis enables detection of DNA insertions into the mammalian nuclear genome. Biochem Biophys Rep 2015; 2:143-152. [PMID: 29124156 PMCID: PMC5668663 DOI: 10.1016/j.bbrep.2015.06.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2015] [Revised: 05/28/2015] [Accepted: 06/08/2015] [Indexed: 01/03/2023] Open
Abstract
Background Genetically modified organisms (GMOs) have numerous biomedical, agricultural and environmental applications. Development of accurate methods for the detection of GMOs is a prerequisite for the identification and control of authorized and unauthorized release of these engineered organisms into the environment and into the food chain. Current detection methods are unable to detect uncharacterized GMOs, since either the DNA sequence of the transgene or the amino acid sequence of the protein must be known for DNA-based or immunological-based detection, respectively. Methods Here we describe the application of an epigenetics-based approach for the detection of mammalian GMOs via analysis of chromatin structural changes occurring in the host nucleus upon the insertion of foreign or endogenous DNA. Results Immunological methods combined with DNA next generation sequencing enabled direct interrogation of chromatin structure and identification of insertions of various size foreign (human or viral) DNA sequences, DNA sequences often used as genome modification tools (e.g. viral sequences, transposon elements), or endogenous DNA sequences into the nuclear genome of a model animal organism. Conclusions The results provide a proof-of-concept that epigenetic approaches can be used to detect the insertion of endogenous and exogenous sequences into the genome of higher organisms where the method of genetic modification, the sequence of inserted DNA, and the exact genomic insertion site(s) are unknown. General significance Measurement of chromatin dynamics as a sensor for detection of genomic manipulation and, more broadly, organism exposure to environmental or other factors affecting the epigenomic landscape are discussed. Insertion of DNA sequences into a host genome causes chromatin structure remodeling. ChIP-seq identifies molecular signatures of DNA insertion into the mammalian genome. Focus on epigenetic marks limits sequencing data amount required for GMO detection. Proof-of-concept for use of chromatin dynamics as a sensor of genomic manipulation.
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Gerasymenko IM, Mazur MG, Sheludko YV, Kuchuk NV. Multiplex PCR assay for detection of human somatotropin and interferon alpha2b genes in plant material. CYTOL GENET+ 2015. [DOI: 10.3103/s0095452715030068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Jacchia S, Nardini E, Bassani N, Savini C, Shim JH, Trijatmiko K, Kreysa J, Mazzara M. International ring trial for the validation of an event-specific Golden Rice 2 quantitative real-time polymerase chain reaction method. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2015; 63:4954-4965. [PMID: 25946377 DOI: 10.1021/acs.jafc.5b00951] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
This article describes the international validation of the quantitative real-time polymerase chain reaction (PCR) detection method for Golden Rice 2. The method consists of a taxon-specific assay amplifying a fragment of rice Phospholipase D α2 gene, and an event-specific assay designed on the 3' junction between transgenic insert and plant DNA. We validated the two assays independently, with absolute quantification, and in combination, with relative quantification, on DNA samples prepared in haploid genome equivalents. We assessed trueness, precision, efficiency, and linearity of the two assays, and the results demonstrate that both the assays independently assessed and the entire method fulfill European and international requirements for methods for genetically modified organism (GMO) testing, within the dynamic range tested. The homogeneity of the results of the collaborative trial between Europe and Asia is a good indicator of the robustness of the method.
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Affiliation(s)
- Sara Jacchia
- †Molecular Biology and Genomics Unit, Institute for Health and Consumer Protection, European Commission Joint Research Centre, Via E. Fermi 2749, 21027 Ispra, Varese, Italy
| | - Elena Nardini
- †Molecular Biology and Genomics Unit, Institute for Health and Consumer Protection, European Commission Joint Research Centre, Via E. Fermi 2749, 21027 Ispra, Varese, Italy
| | - Niccolò Bassani
- †Molecular Biology and Genomics Unit, Institute for Health and Consumer Protection, European Commission Joint Research Centre, Via E. Fermi 2749, 21027 Ispra, Varese, Italy
| | - Christian Savini
- †Molecular Biology and Genomics Unit, Institute for Health and Consumer Protection, European Commission Joint Research Centre, Via E. Fermi 2749, 21027 Ispra, Varese, Italy
| | - Jung-Hyun Shim
- ‡Plant Breeding, Genetics and Biotechnology Division, International Rice Research Institute, Los Baños, 4031 Laguna, Philippines
| | - Kurniawan Trijatmiko
- ‡Plant Breeding, Genetics and Biotechnology Division, International Rice Research Institute, Los Baños, 4031 Laguna, Philippines
| | - Joachim Kreysa
- †Molecular Biology and Genomics Unit, Institute for Health and Consumer Protection, European Commission Joint Research Centre, Via E. Fermi 2749, 21027 Ispra, Varese, Italy
| | - Marco Mazzara
- †Molecular Biology and Genomics Unit, Institute for Health and Consumer Protection, European Commission Joint Research Centre, Via E. Fermi 2749, 21027 Ispra, Varese, Italy
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Fátima Barroso M, Freitas M, Oliveira MBP, de-los-Santos-Álvarez N, Lobo-Castañón MJ, Delerue-Matos C. 3D-nanostructured Au electrodes for the event-specific detection of MON810 transgenic maize. Talanta 2015; 134:158-164. [DOI: 10.1016/j.talanta.2014.10.017] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2014] [Revised: 10/06/2014] [Accepted: 10/12/2014] [Indexed: 10/24/2022]
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Electrochemical genosensors as innovative tools for detection of genetically modified organisms. Trends Analyt Chem 2015. [DOI: 10.1016/j.trac.2014.10.006] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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38
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Comparison of drought stress response and gene expression between a GM maize variety and a near-isogenic non-GM variety. PLoS One 2015; 10:e0117073. [PMID: 25692547 PMCID: PMC4333122 DOI: 10.1371/journal.pone.0117073] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2014] [Accepted: 12/11/2014] [Indexed: 11/19/2022] Open
Abstract
Maize MON810, grown and commercialised worldwide, is the only cultivated GM event in the EU. Maize MON810, variety DKC6575, and the corresponding near-isogenic line Tietar were studied in different growth conditions, to compare their behaviour in response to drought. Main photosynthetic parameters were significantly affected by drought stress in both GM and non-GM varieties to a similar extent. Though DKC6575 (GM) had a greater sensitivity in the early phase of stress response as compared with Tietar (non-GM), after six days of stress they behaved similarly, and both varieties recovered from stress damage. Profiling gene expression in water deficit regimes and in a generalised drought stress condition showed an up-regulation of many stress-responsive genes, but a greater number of differentially expressed genes was observed in Tietar, with genes belonging to transcription factor families and genes encoding heat shock proteins, late embryogenesis abundant proteins and detoxification enzymes. Since induction of these genes have been indicated from the literature as typical of stress responses, their activation in Tietar rather than in DKC6575 may be reminiscent of a more efficient response to drought. DKC6575 was also analysed for the expression of the transgene CryIAb (encoding the delta-endotoxin insecticidal protein) in water deficit conditions. In all the experiments, the CryIAb transcript was not influenced by drought stress, but was expressed at a constant level. This suggests that though possessing a different pattern of sensitivity to stress, the GM variety maintains the same expression level for the transgene.
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Development and validation of a 48-target analytical method for high-throughput monitoring of genetically modified organisms. Sci Rep 2015; 5:7616. [PMID: 25556930 PMCID: PMC5154595 DOI: 10.1038/srep07616] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2014] [Accepted: 12/03/2014] [Indexed: 12/12/2022] Open
Abstract
The rapid increase in the number of genetically modified (GM) varieties has led to a demand for high-throughput methods to detect genetically modified organisms (GMOs). We describe a new dynamic array-based high throughput method to simultaneously detect 48 targets in 48 samples on a Fludigm system. The test targets included species-specific genes, common screening elements, most of the Chinese-approved GM events, and several unapproved events. The 48 TaqMan assays successfully amplified products from both single-event samples and complex samples with a GMO DNA amount of 0.05 ng, and displayed high specificity. To improve the sensitivity of detection, a preamplification step for 48 pooled targets was added to enrich the amount of template before performing dynamic chip assays. This dynamic chip-based method allowed the synchronous high-throughput detection of multiple targets in multiple samples. Thus, it represents an efficient, qualitative method for GMO multi-detection.
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Tortajada-Genaro LA, Santiago-Felipe S, Amasia M, Russom A, Maquieira Á. Isothermal solid-phase recombinase polymerase amplification on microfluidic digital versatile discs (DVDs). RSC Adv 2015. [DOI: 10.1039/c5ra02778k] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023] Open
Abstract
The proposed device, for massive DNA-based screening in limited-resource settings, comprises a centrifugal platform to perform isothermal solid-phase amplification in microarray format and a digital versatile disc drive to read the results.
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Affiliation(s)
- Luis A. Tortajada-Genaro
- Departamento de Química
- Instituto Interunversitario de Reconocimiento Molecular y Desarrollo Tecnológico (IDM)
- Universidad Politécnica de Valencia
- Spain
| | - Sara Santiago-Felipe
- Departamento de Química
- Instituto Interunversitario de Reconocimiento Molecular y Desarrollo Tecnológico (IDM)
- Universidad Politécnica de Valencia
- Spain
| | - Mary Amasia
- Div. of Nanobiotechnology
- KTH Royal Institute of Technology
- Stockholm
- Sweden
| | - Aman Russom
- Div. of Nanobiotechnology
- KTH Royal Institute of Technology
- Stockholm
- Sweden
| | - Ángel Maquieira
- Departamento de Química
- Instituto Interunversitario de Reconocimiento Molecular y Desarrollo Tecnológico (IDM)
- Universidad Politécnica de Valencia
- Spain
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Characterization and study of transgenic cultivars by capillary and microchip electrophoresis. Int J Mol Sci 2014; 15:23851-77. [PMID: 25535077 PMCID: PMC4284794 DOI: 10.3390/ijms151223851] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2014] [Revised: 12/15/2014] [Accepted: 12/16/2014] [Indexed: 01/11/2023] Open
Abstract
Advances in biotechnology have increased the demand for suitable analytical techniques for the analysis of genetically modified organisms. Study of the substantial equivalence, discrimination between transgenic and non-transgenic cultivars, study of the unintended effects caused by a genetic modification or their response to diverse situations or stress conditions (e.g., environmental, climatic, infections) are some of the concerns that need to be addressed. Capillary electrophoresis (CE) is emerging as an alternative to conventional techniques for the study and characterization of genetically modified organisms. This article reviews the most recent applications of CE for the analysis and characterization of transgenic cultivars in the last five years. Different strategies have been described depending on the level analyzed (DNA, proteins or metabolites). Capillary gel electrophoresis (CGE) has shown to be particularly useful for the analysis of DNA fragments amplified by PCR. Metabolites and proteins have been mainly separated using capillary zone electrophoresis (CZE) using UV and MS detection. Electrophoretic chips have also proven their ability in the analysis of transgenic cultivars and a section describing the new applications is also included.
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Wu Y, Wang Y, Li J, Li W, Zhang L, Li Y, Li X, Li J, Zhu L, Wu G. Development of a general method for detection and quantification of the P35S promoter based on assessment of existing methods. Sci Rep 2014; 4:7358. [PMID: 25483893 PMCID: PMC4258656 DOI: 10.1038/srep07358] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2014] [Accepted: 11/19/2014] [Indexed: 11/11/2022] Open
Abstract
The Cauliflower mosaic virus (CaMV) 35S promoter (P35S) is a commonly used target for detection of genetically modified organisms (GMOs). There are currently 24 reported detection methods, targeting different regions of the P35S promoter. Initial assessment revealed that due to the absence of primer binding sites in the P35S sequence, 19 of the 24 reported methods failed to detect P35S in MON88913 cotton, and the other two methods could only be applied to certain GMOs. The rest three reported methods were not suitable for measurement of P35S in some testing events, because SNPs in binding sites of the primer/probe would result in abnormal amplification plots and poor linear regression parameters. In this study, we discovered a conserved region in the P35S sequence through sequencing of P35S promoters from multiple transgenic events, and developed new qualitative and quantitative detection systems targeting this conserved region. The qualitative PCR could detect the P35S promoter in 23 unique GMO events with high specificity and sensitivity. The quantitative method was suitable for measurement of P35S promoter, exhibiting good agreement between the amount of template and Ct values for each testing event. This study provides a general P35S screening method, with greater coverage than existing methods.
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Affiliation(s)
- Yuhua Wu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Yulei Wang
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- College of Life Sciences, Hubei University, No. 368 Friendship Avenue, Wuhan 430062, People's Republic of China
| | - Jun Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Wei Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Li Zhang
- School of Life Science, South-Central University for Nationalities, Min-Yuan Road 708, Wuhan 430074, People's Republic of China
| | - Yunjing Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Xiaofei Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Jun Li
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Li Zhu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
| | - Gang Wu
- Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
- Supervision and Test Center (Wuhan) for Environmental Safety of Genetically Modified Plants, Ministry of Agriculture, No. 2 Xudong 2nd Road, Wuhan 430062, People's Republic of China
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Al-Salameen F, Kumar V, Al-Aqeel H, Al-Hashash H, Hejji AB. Detection of genetically modified DNA in fresh and processed foods sold in Kuwait. GM CROPS & FOOD 2014; 3:283-8. [DOI: 10.4161/gmcr.21364] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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Xu C, Li L, Jin W, Wan Y. Recombinase polymerase amplification (RPA) of CaMV-35S promoter and nos terminator for rapid detection of genetically modified crops. Int J Mol Sci 2014; 15:18197-205. [PMID: 25310647 PMCID: PMC4227211 DOI: 10.3390/ijms151018197] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2014] [Revised: 09/20/2014] [Accepted: 09/29/2014] [Indexed: 01/23/2023] Open
Abstract
Recombinase polymerase amplification (RPA) is a novel isothermal DNA amplification and detection technology that enables the amplification of DNA within 30 min at a constant temperature of 37–42 °C by simulating in vivo DNA recombination. In this study, based on the regulatory sequence of the cauliflower mosaic virus 35S (CaMV-35S) promoter and the Agrobacterium tumefaciens nopaline synthase gene (nos) terminator, which are widely incorporated in genetically modified (GM) crops, we designed two sets of RPA primers and established a real-time RPA detection method for GM crop screening and detection. This method could reliably detect as few as 100 copies of the target molecule in a sample within 15–25 min. Furthermore, the real-time RPA detection method was successfully used to amplify and detect DNA from samples of four major GM crops (maize, rice, cotton, and soybean). With this novel amplification method, the test time was significantly shortened and the reaction process was simplified; thus, this method represents an effective approach to the rapid detection of GM crops.
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Affiliation(s)
- Chao Xu
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
| | - Liang Li
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
| | - Wujun Jin
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
| | - Yusong Wan
- Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
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Van Eenennaam AL, Young AE. Prevalence and impacts of genetically engineered feedstuffs on livestock populations. J Anim Sci 2014; 92:4255-78. [PMID: 25184846 DOI: 10.2527/jas.2014-8124] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Abstract
Globally, food-producing animals consume 70 to 90% of genetically engineered (GE) crop biomass. This review briefly summarizes the scientific literature on performance and health of animals consuming feed containing GE ingredients and composition of products derived from them. It also discusses the field experience of feeding GE feed sources to commercial livestock populations and summarizes the suppliers of GE and non-GE animal feed in global trade. Numerous experimental studies have consistently revealed that the performance and health of GE-fed animals are comparable with those fed isogenic non-GE crop lines. United States animal agriculture produces over 9 billion food-producing animals annually, and more than 95% of these animals consume feed containing GE ingredients. Data on livestock productivity and health were collated from publicly available sources from 1983, before the introduction of GE crops in 1996, and subsequently through 2011, a period with high levels of predominately GE animal feed. These field data sets, representing over 100 billion animals following the introduction of GE crops, did not reveal unfavorable or perturbed trends in livestock health and productivity. No study has revealed any differences in the nutritional profile of animal products derived from GE-fed animals. Because DNA and protein are normal components of the diet that are digested, there are no detectable or reliably quantifiable traces of GE components in milk, meat, and eggs following consumption of GE feed. Globally, countries that are cultivating GE corn and soy are the major livestock feed exporters. Asynchronous regulatory approvals (i.e., cultivation approvals of GE varieties in exporting countries occurring before food and feed approvals in importing countries) have resulted in trade disruptions. This is likely to be increasingly problematic in the future as there are a large number of "second generation" GE crops with altered output traits for improved livestock feed in the developmental and regulatory pipelines. Additionally, advanced techniques to affect targeted genome modifications are emerging, and it is not clear whether these will be encompassed by the current GE process-based trigger for regulatory oversight. There is a pressing need for international harmonization of both regulatory frameworks for GE crops and governance of advanced breeding techniques to prevent widespread disruptions in international trade of livestock feedstuffs in the future.
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Affiliation(s)
| | - A E Young
- Department of Animal Science, University of California, Davis 95616
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46
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Determination of the ruminant origin of bone particles using fluorescence in situ hybridization (FISH). Sci Rep 2014; 4:5730. [PMID: 25034259 PMCID: PMC4103152 DOI: 10.1038/srep05730] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2013] [Accepted: 06/30/2014] [Indexed: 11/08/2022] Open
Abstract
Molecular biology techniques such as PCR constitute powerful tools for the determination of the taxonomic origin of bones. DNA degradation and contamination by exogenous DNA, however, jeopardise bone identification. Despite the vast array of techniques used to decontaminate bone fragments, the isolation and determination of bone DNA content are still problematic. Within the framework of the eradication of transmissible spongiform encephalopathies (including BSE, commonly known as "mad cow disease"), a fluorescence in situ hybridization (FISH) protocol was developed. Results from the described study showed that this method can be applied directly to bones without a demineralisation step and that it allows the identification of bovine and ruminant bones even after severe processing. The results also showed that the method is independent of exogenous contamination and that it is therefore entirely appropriate for this application.
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Kloke A, Fiebach AR, Zhang S, Drechsel L, Niekrawietz S, Hoehl MM, Kneusel R, Panthel K, Steigert J, von Stetten F, Zengerle R, Paust N. The LabTube - a novel microfluidic platform for assay automation in laboratory centrifuges. LAB ON A CHIP 2014; 14:1527-1537. [PMID: 24590165 DOI: 10.1039/c3lc51261d] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Assay automation is the key for successful transformation of modern biotechnology into routine workflows. Yet, it requires considerable investment in processing devices and auxiliary infrastructure, which is not cost-efficient for laboratories with low or medium sample throughput or point-of-care testing. To close this gap, we present the LabTube platform, which is based on assay specific disposable cartridges for processing in laboratory centrifuges. LabTube cartridges comprise interfaces for sample loading and downstream applications and fluidic unit operations for release of prestored reagents, mixing, and solid phase extraction. Process control is achieved by a centrifugally-actuated ballpen mechanism. To demonstrate the workflow and functionality of the LabTube platform, we show two LabTube automated sample preparation assays from laboratory routines: DNA extractions from whole blood and purification of His-tagged proteins. Equal DNA and protein yields were observed compared to manual reference runs, while LabTube automation could significantly reduce the hands-on-time to one minute per extraction.
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Affiliation(s)
- A Kloke
- HSG-IMIT - Institut für Mikro- und Informationstechnik, Georges-Köhler-Allee 103, 79110 Freiburg, Germany.
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Detection of mandarin in orange juice by single-nucleotide polymorphism qPCR assay. Food Chem 2014; 145:1086-91. [DOI: 10.1016/j.foodchem.2013.09.002] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2012] [Revised: 02/06/2013] [Accepted: 09/02/2013] [Indexed: 11/24/2022]
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49
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Wang F, Zhang X, Feng J, Wang Z, Wang P. Establishment of a quadruplex real-time PCR for screening of genetically modified tomatoes. Eur Food Res Technol 2014. [DOI: 10.1007/s00217-013-2145-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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50
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Chen R, Wang Y, Zhu Z, Lan Q, Zhao X, Wang H, Guo Y, Wang Q. Development of the One-step Visual Loop-Mediated Isothermal Amplification Assay for Genetically Modified Rice Event TT51-1. FOOD SCIENCE AND TECHNOLOGY RESEARCH 2014. [DOI: 10.3136/fstr.20.71] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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