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Singh M, Young RG, Hellberg RS, Hanner RH, Corradini MG, Farber JM. Twenty-three years of PCR-based seafood authentication assay development: What have we learned? Compr Rev Food Sci Food Saf 2024; 23:e13401. [PMID: 39073284 DOI: 10.1111/1541-4337.13401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2024] [Revised: 05/27/2024] [Accepted: 06/14/2024] [Indexed: 07/30/2024]
Abstract
Seafood is a prime target for fraudulent activities due to the complexity of its supply chain, high demand, and difficult discrimination among species once morphological characteristics are removed. Instances of seafood fraud are expected to increase due to growing demand. This manuscript reviews the application of DNA-based methods for commercial fish authentication and identification from 2000 to 2023. It explores (1) the most common types of commercial fish used in assay development, (2) the type of method used, (3) the gene region most often targeted, (4) provides a case study of currently published assays or primer-probe pairs used for DNA amplification, for specificity, and (5) makes recommendations for ensuring standardized assay-based reporting for future studies. A total of 313 original assays for the detection and authentication of commercial fish species from 191 primary articles published over the last 23 years were examined. The most explored DNA-based method was real-time polymerase chain reaction (qPCR), followed by DNA sequencing. The most targeted gene regions were cytb (cytochrome b) and COI (cytochrome c oxidase 1). Tuna was the most targeted commercial fish species. A case study of published tuna assays (n = 19) targeting the cytb region found that most assays were not species-specific through in silico testing. This was conducted by examining the primer mismatch for each assay using multiple sequence alignment. Therefore, there is need for more standardized DNA-based assay reporting in the literature to ensure specificity, reproducibility, and reliability of results. Factors, such as cost, sensitivity, quality of the DNA, and species, should be considered when designing assays.
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Affiliation(s)
- Maleeka Singh
- Department of Food Science, University of Guelph, Guelph, Ontario, Canada
| | - Robert G Young
- Biodiversity Institute of Ontario, Centre for Biodiversity Genomics, Department of Integrative Biology, University of Guelph, Guelph, Ontario, Canada
| | - Rosalee S Hellberg
- Schmid College of Science and Technology, Food Science Program, Chapman University, Orange, California, USA
| | - Robert H Hanner
- Biodiversity Institute of Ontario, Centre for Biodiversity Genomics, Department of Integrative Biology, University of Guelph, Guelph, Ontario, Canada
| | - Maria G Corradini
- Department of Food Science, University of Guelph, Guelph, Ontario, Canada
- Arrell Food Institute, University of Guelph, Guelph, Ontario, Canada
| | - Jeffrey M Farber
- Canadian Research Institute for Food Safety, University of Guelph, Guelph, Ontario, Canada
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2
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Gkini IP, Christopoulos P, Conides A, Kalogianni DP, Christopoulos TK. Molecular Rapid Test for Identification of Tuna Species. BIOSENSORS 2024; 14:82. [PMID: 38392001 PMCID: PMC10887179 DOI: 10.3390/bios14020082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/27/2023] [Revised: 01/29/2024] [Accepted: 01/31/2024] [Indexed: 02/24/2024]
Abstract
Tuna is an excellent food product, relatively low in calories, that is recommended for a balanced diet. The continuously increasing demand, especially for bluefin-tuna-based food preparations, and its relatively high market price make adulteration by intentionally mixing with other lower-priced tunas more prospective. The development of rapid methods to detect tuna adulteration is a great challenge in food analytical science. We have thus developed a simple, fast, and low-cost molecular rapid test for the visual detection of tuna adulteration. It is the first sensor developed for tuna authenticity testing. The three species studied were Thunnus thynnus (BFT), Thunnus albacares, and Katsuwonus pelamis. DNA was isolated from fresh and heat-treated cooked fish samples followed by PCR. The PCR products were hybridized (10 min) to specific probes and applied to the rapid sensing device. The signal was observed visually in 10-15 min using gold nanoparticle reporters. The method was evaluated employing binary mixtures of PCR products from fresh tissues and mixtures of DNA isolates from heat-treated tissues (canned products) at adulteration percentages of 1-100%. The results showed that the method was reproducible and specific for each tuna species. As low as 1% of tuna adulteration was detected with the naked eye.
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Affiliation(s)
- Isidora P. Gkini
- Analytical/Bioanalytical Chemistry & Nanotechnology Group, Department of Chemistry, University of Patras, 26504 Patras, Greece; (I.P.G.); (P.C.)
| | - Panagiotis Christopoulos
- Analytical/Bioanalytical Chemistry & Nanotechnology Group, Department of Chemistry, University of Patras, 26504 Patras, Greece; (I.P.G.); (P.C.)
| | - Alexis Conides
- Hellenic Centre for Marine Research, Institute for Marine Biological Resources, 46.7 km Athens-Sounion, Mavro Lithari, Anavyssos, 19013 Attika, Greece;
| | - Despina P. Kalogianni
- Analytical/Bioanalytical Chemistry & Nanotechnology Group, Department of Chemistry, University of Patras, 26504 Patras, Greece; (I.P.G.); (P.C.)
| | - Theodore K. Christopoulos
- Analytical/Bioanalytical Chemistry & Nanotechnology Group, Department of Chemistry, University of Patras, 26504 Patras, Greece; (I.P.G.); (P.C.)
- Institute of Chemical Engineering Sciences/Foundation for Research and Technology Hellas (FORTH/ICE-HT), 26504 Patras, Greece
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3
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Klapper R, Velasco A, Döring M, Schröder U, Sotelo CG, Brinks E, Muñoz-Colmenero M. A next-generation sequencing approach for the detection of mixed species in canned tuna. Food Chem X 2023; 17:100560. [PMID: 36845509 PMCID: PMC9943852 DOI: 10.1016/j.fochx.2023.100560] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Revised: 12/02/2022] [Accepted: 01/03/2023] [Indexed: 01/06/2023] Open
Abstract
Tuna cans are relevant seafood products for which mixtures of different tuna species are not allowed according to European regulations. In order to support the prevention of food fraud and mislabelling, a next-generation sequencing methodology based on mitochondrial cytochrome b and control region markers has been tested. Analyses of defined mixtures of DNA, fresh tissue and canned tissue revealed a qualitative and, to some extent, semiquantitative identification of tuna species. While the choice of the bioinformatic pipeline had no influence in the results (p = 0.71), quantitative differences occurred depending on the treatment of the sample, marker, species, and mixture (p < 0.01). The results revealed that matrix-specific calibrators or normalization models should also be used in NGS. The method represents an important step towards a semiquantitative method for routine control of this analytically challenging food matrix. Tests of commercial samples uncovered mixed species in some cans, being not in compliance with EU regulations.
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Affiliation(s)
- Regina Klapper
- Max Rubner-Institut, Federal Research Institute of Nutrition and Food, National Reference Centre for Authentic Food, E.-C.-Baumann-Straße 20, 95326 Kulmbach, Germany,Corresponding author.
| | - Amaya Velasco
- Instituto de Investigaciones Marinas (CSIC), Eduardo Cabello 6, 36208 Vigo, Spain
| | - Maik Döring
- Max Rubner-Institut, Federal Research Institute of Nutrition and Food, National Reference Centre for Authentic Food, E.-C.-Baumann-Straße 20, 95326 Kulmbach, Germany
| | - Ute Schröder
- Max Rubner-Institut, Federal Research Institute of Nutrition and Food, Department of Safety and Quality of Milk and Fish Products, Palmaille 9, 22767 Hamburg, Germany
| | - Carmen G. Sotelo
- Instituto de Investigaciones Marinas (CSIC), Eduardo Cabello 6, 36208 Vigo, Spain
| | - Erik Brinks
- Max Rubner-Institut, Federal Research Institute of Nutrition and Food, Department of Microbiology and Biotechnology, Hermann-Weigmann-Str. 1, 24103 Kiel, Germany
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Taniguchi K, Akutsu T, Watanabe K, Ogawa Y, Imaizumi K. A vertebrate-specific qPCR assay as an endogenous internal control for robust species identification. Forensic Sci Int Genet 2021; 56:102628. [PMID: 34798377 DOI: 10.1016/j.fsigen.2021.102628] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Revised: 10/17/2021] [Accepted: 10/28/2021] [Indexed: 11/04/2022]
Abstract
The identification of vertebrate species is important in numerous fields including archaeology, ecology, as well as food and forensic sciences. Real-time quantitative PCR (qPCR) assays specific for one vertebrate species are promising approaches for species identification, although there are several drawbacks such as difficulty determining whether the detected DNA is authentic or a contaminant. Here, we describe a qPCR assay specific for vertebrate mitochondrial DNA (mtDNA) which can overcome these drawbacks. Since we found that mitochondrial 16S rRNA contains regions that are perfectly (not highly) conserved across virtually all vertebrates, but are variable in invertebrates, we were able to design a vertebrate-specific qPCR assay by placing primers/probe within these regions. The specificity and accuracy of this assay were validated with representative vertebrate and invertebrate samples. This assay detected DNA from all vertebrate samples, but not from any invertebrate samples. In addition, this assay was able to quantify vertebrate mtDNAs as accurately as previously reported species-specific qPCR assays. The results demonstrated it is feasible to quantify vertebrate mtDNA specifically and accurately in a sample. This means that it is possible to determine the ratio of specific vertebrate species mtDNA to total vertebrate mtDNA in a sample. In conjunction with this assay as an endogenous internal control, species-specific qPCR assays will allow for the robust identification of vertebrate species.
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Affiliation(s)
- Kei Taniguchi
- National Research Institute of Police Science, 6-3-1, Kashiwanoha, Kashiwa, Chiba 277-0882, Japan.
| | - Tomoko Akutsu
- National Research Institute of Police Science, 6-3-1, Kashiwanoha, Kashiwa, Chiba 277-0882, Japan
| | - Ken Watanabe
- National Research Institute of Police Science, 6-3-1, Kashiwanoha, Kashiwa, Chiba 277-0882, Japan
| | - Yoshinori Ogawa
- National Research Institute of Police Science, 6-3-1, Kashiwanoha, Kashiwa, Chiba 277-0882, Japan
| | - Kazuhiko Imaizumi
- National Research Institute of Police Science, 6-3-1, Kashiwanoha, Kashiwa, Chiba 277-0882, Japan
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5
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Identification of Selected Tuna Species in Commercial Products. Molecules 2021; 26:molecules26041137. [PMID: 33672711 PMCID: PMC7924337 DOI: 10.3390/molecules26041137] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Revised: 02/12/2021] [Accepted: 02/16/2021] [Indexed: 11/16/2022] Open
Abstract
This study was conducted to develop systems for the identification of four tuna species (skipjack tuna Katsuwonus pelamis, yellowfin tuna Thunnus albacares, bullet tuna Auxis sp. and Atlantic bonito Sarda sp). At first, raw samples of these species and a mix intended as internal control were prepared for the authentication of fish muscle tissue of the genus Thunnus sp., Auxis sp. and Sarda sp. DNA from raw muscle tissue, the mix and samples was extracted with the DNeasy mericon Food Kit (Qiagen GmbH, Hilden, Germany). The concentration and purity of DNA in raw samples were evaluated using a spectrophotometer. Primers and probe sequences were specifically designed to identify the selected species. In addition, primers and a probe for the endogenous 12S rRNA gene were designed to determine the presence of amplifiable fish (especially tuna) DNA in samples. Furthermore, the species specificity of the designed primers and probes was verified in DNA samples of various tuna and bonito species. Limit of detection for the selected species was calculated as well as the coefficient of determination R2 and efficiency of real-time PCR testing was determined. To evaluate the developed real-time PCR methods, 70 commercial tuna products were analysed. The results show that mislabelling of fish products can still be encountered and, moreover, the presence of an additional species can be identified.
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Ceruso M, Mascolo C, Anastasio A, Pepe T, Sordino P. Frauds and fish species authentication: Study of the complete mitochondrial genome of some Sparidae to provide specific barcode markers. Food Control 2019. [DOI: 10.1016/j.foodcont.2019.03.028] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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7
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Wang Y, Feng J, Tian X. Application of loop-mediated isothermal amplification (LAMP) for rapid detection of Atlantic cod (Gadus morhua), Pacific cod (Gadus macrocephalus) and haddock (Melanogrammus aeglefinus). Mol Cell Probes 2019; 47:101420. [PMID: 31295518 DOI: 10.1016/j.mcp.2019.07.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2019] [Revised: 06/18/2019] [Accepted: 07/08/2019] [Indexed: 11/26/2022]
Abstract
Codfish is a commercially important species of sea fish and plays an important role in the world fishery. In our study, two loop-mediated isothermal amplification (LAMP) assays (real-time fluorescence LAMP and visual LAMP) were established for the identification of three cod species in Gadidae (Gadus morhua, Gadus macrocephalus and Melanogrammus aeglefinus). 12S rDNA gene was used to design primers to distinguish the Gadidae and non-Gadidae species, and the mitochondrial Cytb gene was selected for discrimination of three cod species. After optimization, the 12S rDNA system and species-specific systems performed well, and target cod DNA could be detected in single or mixed samples. In the species-specific systems, the absolute limit of detection (LODa) of three cod species were 285, 37 and 197 pg/μL, and the relative limit of detection (LODr) reached to 1%, 0.1% and 1%, respectively. In the 12S rDNA system, the LODa of three cod species were 28.5, 37 and 19.7 pg/μL, respectively, and the LODr reached to 0.1%. Through the detection of 13 commercial cod products, the LAMP systems can detect cod contents in raw materials and deep-processed products as well. It indicated that the methods developed in this study have strong practicability and can meet the needs of routine testing.
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Affiliation(s)
- Yi Wang
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, 310012, China
| | - Junli Feng
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, 310012, China; Key Lab of Aquatic Products Processing of Zhejiang Province, Hangzhou, 310012, China.
| | - Xiaolan Tian
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, 310012, China
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8
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Verrez-Bagnis V, Sotelo CG, Mendes R, Silva H, Kappel K, Schröder U. Methods for Seafood Authenticity Testing in Europe. BIOACTIVE MOLECULES IN FOOD 2019. [DOI: 10.1007/978-3-319-78030-6_69] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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9
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Piskata Z, Pospisilova E, Borilova G. Comparative study of DNA extraction methods from fresh and processed yellowfin tuna muscle tissue. INTERNATIONAL JOURNAL OF FOOD PROPERTIES 2017. [DOI: 10.1080/10942912.2017.1297953] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Zora Piskata
- Department of Food and Feed Safety, Veterinary Research Institute Brno, Brno, Czech Republic
| | - Eliska Pospisilova
- Department of Food and Feed Safety, Veterinary Research Institute Brno, Brno, Czech Republic
- Department of Meat Hygiene and Technology, University of Veterinary and Pharmaceutical Sciences Brno, Brno, Czech Republic
| | - Gabriela Borilova
- Department of Meat Hygiene and Technology, University of Veterinary and Pharmaceutical Sciences Brno, Brno, Czech Republic
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10
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Caldwell JM. Food Analysis Using Organelle DNA and the Effects of Processing on Assays. Annu Rev Food Sci Technol 2017; 8:57-74. [DOI: 10.1146/annurev-food-030216-030216] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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11
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Bojolly D, Doyen P, Le Fur B, Christaki U, Verrez-Bagnis V, Grard T. Development of a qPCR Method for the Identification and Quantification of Two Closely Related Tuna Species, Bigeye Tuna (Thunnus obesus) and Yellowfin Tuna (Thunnus albacares), in Canned Tuna. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2017; 65:913-920. [PMID: 28085274 DOI: 10.1021/acs.jafc.6b04713] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Bigeye tuna (Thunnus obesus) and yellowfin tuna (Thunnus albacares) are among the most widely used tuna species for canning purposes. Not only substitution but also mixing of tuna species is prohibited by the European regulation for canned tuna products. However, as juveniles of bigeye and yellowfin tunas are very difficult to distinguish, unintentional substitutions may occur during the canning process. In this study, two mitochondrial markers from NADH dehydrogenase subunit 2 and cytochrome c oxidase subunit II genes were used to identify bigeye tuna and yellowfin tuna, respectively, utilizing TaqMan qPCR methodology. Two different qPCR-based methods were developed to quantify the percentage of flesh of each species used for can processing. The first one was based on absolute quantification using standard curves realized with these two markers; the second one was founded on relative quantification with the universal 12S rRNA gene as the endogenous gene. On the basis of our results, we conclude that our methodology could be applied to authenticate these two closely related tuna species when used in a binary mix in tuna cans.
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Affiliation(s)
- Daline Bojolly
- Université Littoral Côte d'Opale , EA 7394 - ICV - Institut Charles Viollette, USC Anses - ULCO, F-62200 Boulogne-sur-Mer, France
- Laboratoire d'Océanologie et de Géosciences, UMR 8187 (ULCO, Lille 1, CNRS) , 62930 Wimereux, France
- PFINV , F-62200 Boulogne-sur-Mer, France
| | - Périne Doyen
- Université Littoral Côte d'Opale , EA 7394 - ICV - Institut Charles Viollette, USC Anses - ULCO, F-62200 Boulogne-sur-Mer, France
- Université Lille , F-59000 Lille, France
- Université Artois , F-62000 Arras, France
- INRA , France
- ISA , F-59000 Lille, France
| | | | - Urania Christaki
- Laboratoire d'Océanologie et de Géosciences, UMR 8187 (ULCO, Lille 1, CNRS) , 62930 Wimereux, France
| | | | - Thierry Grard
- Université Littoral Côte d'Opale , EA 7394 - ICV - Institut Charles Viollette, USC Anses - ULCO, F-62200 Boulogne-sur-Mer, France
- Université Lille , F-59000 Lille, France
- Université Artois , F-62000 Arras, France
- INRA , France
- ISA , F-59000 Lille, France
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12
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Feng J, Wu Z, Xie X, Dai Z, Liu S. A real-time polymerase chain reaction method for the identification of four commercially important salmon and trout species. Mitochondrial DNA A DNA Mapp Seq Anal 2016; 28:104-111. [DOI: 10.3109/19401736.2015.1111346] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- Junli Feng
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang, PR China,
| | - Zhigang Wu
- Zhejiang Entry-Exit Inspection and Quarantine Bureau, Hangzhou, Zhejiang, PR China, and
| | - Xiao Xie
- Zhejiang Entry-Exit Inspection and Quarantine Bureau, Hangzhou, Zhejiang, PR China, and
| | - Zhiyuan Dai
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang, PR China,
| | - Shasha Liu
- Institute of Bioengineering, Zhejiang Sci-Tech University, Hangzhou, Zhejiang, PR China
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13
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Ye J, Feng J, Liu S, Zhang Y, Jiang X, Dai Z. Identification of four squid species by quantitative real-time polymerase chain reaction. Mol Cell Probes 2016; 30:22-9. [PMID: 26772407 DOI: 10.1016/j.mcp.2016.01.001] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2015] [Revised: 01/04/2016] [Accepted: 01/04/2016] [Indexed: 11/25/2022]
Abstract
Squids are distributed worldwide, including many species of commercial importance, and they are often made into varieties of flavor foods. The rapid identification methods for squid species especially their processed products, however, have not been well developed. In this study, quantitative real-time PCR (qPCR) systems based on specific primers and TaqMan probes have been established for rapid and accurate identification of four common squid species (Ommastrephes bartramii, Dosidicus gigas, Illex argentinus, Todarodes pacificus) in Chinese domestic market. After analyzing mitochondrial genes reported in GenBank, the mitochondrial cytochrome b (Cytb) gene was selected for O. bartramii detection, cytochrome c oxidase subunit I (COI) gene for D. gigas and T. Pacificus detection, ATPase subunit 6 (ATPase 6) gene for I. Argentinus detection, and 12S ribosomal RNA (12S rDNA) gene for designing Ommastrephidae-specific primers and probe. As a result, all the TaqMan systems are of good performance, and efficiency of each reaction was calculated by making standard curves. This method could detect target species either in single or mixed squid specimen, and it was applied to identify 12 squid processed products successfully. Thus, it would play an important role in fulfilling labeling regulations and squid fishery control.
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Affiliation(s)
- Jian Ye
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang 310012, PR China
| | - Junli Feng
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang 310012, PR China
| | - Shasha Liu
- Institute of Bioengineering, Zhejiang Sci-Tech University, Hangzhou, Zhejiang 310018, PR China
| | - Yanping Zhang
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang 310012, PR China
| | - Xiaona Jiang
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang 310012, PR China
| | - Zhiyuan Dai
- Institute of Seafood, Zhejiang Gongshang University, Hangzhou, Zhejiang 310012, PR China.
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14
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Xu K, Feng J, Ma X, Wang X, Zhou D, Dai Z. Identification of tuna species (Thunnini tribe) by PCR-RFLP analysis of mitochondrial DNA fragments. FOOD AGR IMMUNOL 2015. [DOI: 10.1080/09540105.2015.1086978] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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15
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Liu S, Xu K, Wu Z, Xie X, Feng J. Identification of five highly priced tuna species by quantitative real-time polymerase chain reaction. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3270-9. [PMID: 25714139 DOI: 10.3109/19401736.2015.1015004] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Tunas are economically important fishery worldwide, and are often used for commercial processed production. For effective fishery management and protection of consumers' rights, it is important to develop a molecular method to identify species in canned tuna products rapidly and reliably. Here, we have developed a duplex quantitative real-time PCR (qPCR) for identification of five highly priced tuna species (Thunnus maccoyii, Thunnus obesus, Thunnus albacares, Thunnus alalunga and Katsuwonus pelamis) from processed as well as fresh fish. After amplification and sequencing of seven genetic markers commonly used for species identification, 16S rDNA and control region (CR) of mitochondrial DNA were selected as the reference gene markers for genus Thunnus and tuna species identification, respectively. Subsequently, a 73 bp fragment of 16S rDNA and 85-99 bp fragment of CR were simultaneously amplified from each target species by qPCR. The qPCR efficiency of each reaction was calculated according to the standard curves, and the method was validated by amplification DNA extracted from single or mixed tuna specimen. The developed duplex qPCR system was applied to authenticate species of 14 commercial tuna products successfully, which demonstrated it was really a useful and academic technique to identify highly priced tuna species.
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Affiliation(s)
- Shasha Liu
- a Institute of Bioengineering, Zhejiang Sci-Tech University , Hangzhou , Zhejiang , P.R. China
| | - Kunhua Xu
- b Institute of Aquatic Products Processing, College of Food Science and Biotechnology, Zhejiang Gongshang University , Hangzhou , Zhejiang , P.R. China , and
| | - Zhigang Wu
- c Zhejiang Entry-Exit Inspection and Quarantine Bureau , Hangzhou , Zhejiang , P.R. China
| | - Xiao Xie
- c Zhejiang Entry-Exit Inspection and Quarantine Bureau , Hangzhou , Zhejiang , P.R. China
| | - Junli Feng
- a Institute of Bioengineering, Zhejiang Sci-Tech University , Hangzhou , Zhejiang , P.R. China .,b Institute of Aquatic Products Processing, College of Food Science and Biotechnology, Zhejiang Gongshang University , Hangzhou , Zhejiang , P.R. China , and
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16
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Santaclara FJ, Velasco A, Pérez-Martín RI, Quinteiro J, Rey-Méndez M, Pardo MA, Jimenez E, Sotelo CG. Development of a multiplex PCR-ELISA method for the genetic authentication of Thunnus species and Katsuwonus pelamis in food products. Food Chem 2014; 180:9-16. [PMID: 25766795 DOI: 10.1016/j.foodchem.2014.11.076] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2013] [Revised: 03/24/2014] [Accepted: 11/12/2014] [Indexed: 10/24/2022]
Abstract
In the present work a PCR-ELISA technique for the authentication of Thunnus species was developed. This method is composed by four systems that can be used in a hierarchical way allowing the identification of several scombroids species; or each individual system independently. The hierarchical strategy, proposes a first step, to assign one sample to the Thunnus genus. Next, if the result is positive, several tests can be applied to assign the sample to some particular species of the Thunnus genus. In the case that the result is negative (absence of Thunnus species), it is possible to verify if Katsuwonus pelamis is included in the sample. The method even allows the detection of mixtures of these species in relatively low amounts (up to 1%). Finally, this method was applied to 11 commercial samples to verify the labelling status of tuna products in the market, detecting that 18% were mislabelling.
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Affiliation(s)
- Francisco J Santaclara
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, 36208 Vigo, Spain.
| | - Amaya Velasco
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, 36208 Vigo, Spain
| | - Ricardo I Pérez-Martín
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, 36208 Vigo, Spain
| | - Javier Quinteiro
- Universidad de Santiago de Compostela, Facultad de Biología, Departamento de Bioquímica y Biología Molecular, Campus Vida, 15782 Santiago de Compostela, Spain
| | - Manuel Rey-Méndez
- Universidad de Santiago de Compostela, Facultad de Biología, Departamento de Bioquímica y Biología Molecular, Campus Vida, 15782 Santiago de Compostela, Spain
| | - Miguel Angel Pardo
- AZTI - Tecnalia, Unidad de Investigación Alimentaria, Bizkaiko Teknologi Parkea, Astondo Bidea - Edif. 609, 48160 Derio, Bizkaia, Spain
| | - Elisa Jimenez
- AZTI - Tecnalia, Unidad de Investigación Alimentaria, Bizkaiko Teknologi Parkea, Astondo Bidea - Edif. 609, 48160 Derio, Bizkaia, Spain
| | - Carmen G Sotelo
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, 36208 Vigo, Spain
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17
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Sánchez A, Vázquez JA, Quinteiro J, Sotelo CG. Modeling real-time PCR kinetics: Richards reparametrized equation for quantitative estimation of European hake (Merluccius merluccius). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2013; 61:3488-3493. [PMID: 23484589 DOI: 10.1021/jf400136j] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Real-time PCR is the most sensitive method for detection and precise quantification of specific DNA sequences, but it is not usually applied as a quantitative method in seafood. In general, benchmark techniques, mainly cycle threshold (Ct), are the routine method for quantitative estimations, but they are not the most precise approaches for a standard assay. In the present work, amplification data from European hake (Merluccius merluccius) DNA samples were accurately modeled by three sigmoid reparametrized equations, where the lag phase parameter (λc) from the Richards equation with four parameters was demonstrated to be the perfect substitute for Ct for PCR quantification. The concentrations of primers and probes were subsequently optimized by means of that selected kinetic parameter. Finally, the linear correlation among DNA concentration and λc was also confirmed.
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Affiliation(s)
- Ana Sánchez
- Grupo de Bioquı́mica de Alimentos, Instituto de Investigacións Mariñas (CSIC), Vigo, Spain.
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18
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Chuang PS, Chen MI, Shiao JC. Identification of tuna species by a real-time polymerase chain reaction technique. Food Chem 2012. [DOI: 10.1016/j.foodchem.2012.01.076] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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19
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Le Fresne S, Popova M, Le Vacon F, Carton T. Application of denaturing high-performance liquid chromatography (DHPLC) for the identification of fish: a new way to determine the composition of processed food containing multiple species. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2011; 59:12302-12308. [PMID: 22023225 DOI: 10.1021/jf2030242] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The identification of fish species in transformed food products is difficult because the existing methods are not adapted to heat-processed products containing more than one species. Using a common to all vertebrates region of the cytochrome b gene, we have developed a denaturing high-performance liquid chromatography (DHPLC) fingerprinting method, which allowed us to identify most of the species in commercial crab sticks. Whole fish and fillets were used for the creation of a library of referent DHPLC profiles. Crab sticks generated complex DHPLC profiles in which the number of contained fish species can be estimated by the number of major fluorescence peaks. The identity of some of the species was predicted by comparison of the peaks with the referent profiles, and others were identified after collection of the peak fractions, reamplification, and sequencing. DHPLC appears to be a quick and efficient method to analyze the species composition of complex heat-processed fish products.
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Affiliation(s)
- Sophie Le Fresne
- Biofortis SAS , 21 rue de La Noue Bras de Fer, 44200 Nantes, France
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