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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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Yudin Kharismasari C, Irkham, Zein MIHL, Hardianto A, Nur Zakiyyah S, Umar Ibrahim A, Ozsoz M, Wahyuni Hartati Y. CRISPR/Cas12-based electrochemical biosensors for clinical diagnostic and food monitoring. Bioelectrochemistry 2024; 155:108600. [PMID: 37956622 DOI: 10.1016/j.bioelechem.2023.108600] [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: 08/15/2023] [Revised: 11/04/2023] [Accepted: 11/04/2023] [Indexed: 11/15/2023]
Abstract
Each organism has a unique sequence of nitrogenous bases in in the form of DNA or RNA which distinguish them from other organisms. This characteristic makes nucleic acid-based detection extremely selective and compare to other molecular techniques. In recent years, several nucleic acid-based detection technology methods have been developed, one of which is the electrochemical biosensor. Electrochemical biosensors are known to have high sensitivity and accuracy. In addition, the ease of miniaturization of this electrochemical technique has garnered interest from many researchers. On the other hand, the CRISPR/Cas12 method has been widely used in detecting nucleic acids due to its highly selective nature. The CRISPR/Cas12 method is also reported to increase the sensitivity of electrochemical biosensors through the utilization of modified electrodes. The electrodes can be modified according to detection needs so that the biosensor's performance can be improved. This review discusses the application of CRISPR/Cas12-based electrochemical biosensors, as well as various electrode modifications that have been successfully used to improve the performance of these biosensors in the clinical and food monitoring fields.
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Affiliation(s)
- Clianta Yudin Kharismasari
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Padjajaran University, Sumedang 45363, Indonesia
| | - Irkham
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Padjajaran University, Sumedang 45363, Indonesia
| | - Muhammad Ihda H L Zein
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Padjajaran University, Sumedang 45363, Indonesia
| | - Ari Hardianto
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Padjajaran University, Sumedang 45363, Indonesia
| | - Salma Nur Zakiyyah
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Padjajaran University, Sumedang 45363, Indonesia
| | - Abdullahi Umar Ibrahim
- Department of Biomedical Engineering, Near East University, Mersin 99138, Turkey; Operational Research Centre in Healthcare, Near East University, Mersin 10, TRNC, Turkey
| | - Mehmet Ozsoz
- Department of Biomedical Engineering, Near East University, Mersin 99138, Turkey
| | - Yeni Wahyuni Hartati
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Padjajaran University, Sumedang 45363, Indonesia.
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3
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Giusti A, Malloggi C, Magagna G, Filipello V, Armani A. Is the metabarcoding ripe enough to be applied to the authentication of foodstuff of animal origin? A systematic review. Compr Rev Food Sci Food Saf 2024; 23:e13256. [PMID: 38284609 DOI: 10.1111/1541-4337.13256] [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: 07/04/2023] [Revised: 09/25/2023] [Accepted: 10/02/2023] [Indexed: 01/30/2024]
Abstract
Food authentication using molecular techniques is of great importance to fight food fraud. Metabarcoding, based on the next-generation sequencing (NGS) technologies, allowing large-scale taxonomic identification of complex samples via massive parallel sequencing of fragments (called DNA barcodes) simultaneously, has become increasingly popular in many scientific fields. A systematic review to answer the question "Is the metabarcoding ripe enough to be applied to the authentication of foodstuff of animal origin?" is presented. The inclusion criteria were focused on the selection of scientific papers (SPs) only applying metabarcoding to foodstuff of animal origin collected on the market. The 23 included SPs were first analyzed with respect to the metabarcoding phases: library preparation (target genes, primer pairs, and fragment length), sequencing (NGS platforms), and final data analysis (bioinformatic pipelines). Given the importance of primer selection, the taxonomic coverage of the used primers was also evaluated. In addition, the SPs were scored based on the use of quality control measures (procedural blanks, positive controls, replicates, curated databases, and thresholds to filter the data). A lack of standardized protocols, especially with respect to the target barcode/s and the universal primer/s, and the infrequent application of the quality control measures, leads to answer that metabarcoding is not ripe enough for authenticating foodstuff of animal origin. However, the observed trend of the SP quality improvement over the years is encouraging. Concluding, a proper protocol standardization would allow a wider use of metabarcoding by both official and private laboratories, enabling this method to become the primary for the authentication of foodstuffs of animal origin.
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Affiliation(s)
- Alice Giusti
- FishLab, Department of Veterinary Sciences, University of Pisa, Pisa, Italy
| | - Chiara Malloggi
- FishLab, Department of Veterinary Sciences, University of Pisa, Pisa, Italy
| | - Giulia Magagna
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna "Bruno Ubertini", Brescia, Italy
| | - Virginia Filipello
- Istituto Zooprofilattico Sperimentale della Lombardia e dell'Emilia Romagna "Bruno Ubertini", Brescia, Italy
| | - Andrea Armani
- FishLab, Department of Veterinary Sciences, University of Pisa, Pisa, Italy
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4
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Kwawukume S, Velez FJ, Williams D, Cui L, Singh P. Rapid PCR-lateral flow assay for the onsite detection of Atlantic white shrimp. FOOD CHEMISTRY. MOLECULAR SCIENCES 2023; 6:100164. [PMID: 36698370 PMCID: PMC9868375 DOI: 10.1016/j.fochms.2023.100164] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/27/2022] [Revised: 01/06/2023] [Accepted: 01/13/2023] [Indexed: 06/17/2023]
Abstract
The Atlantic white shrimp (Litopenaeus setiferus) is of great economic importance to the United States and risk being substituted with imported species due to a shortage in domestic production. To improve the current methods used for the identification of the Atlantic white shrimp species, we designed and validated a robust multiplex PCR-lateral flow assay for the onsite identification of L. setiferus. The standardized assay was validated using a miniaturized, low-cost PCR instrument with 68 shrimp, prawn, and fish samples, spread over fourteen seafood species. L. setiferus was simultaneously amplified by the multiplex assay to give three visual bands, which distinguished it from other species having either one or two bands on the dipstick. The standardized assay showed 100% inclusivity for target L. setiferus samples, 100% exclusivity for non-target samples and can be completed in less than two hours. The assay standardized in this study can be used for onsite testing of L. setiferus samples at processing facilities, restaurants, and wholesalers' facilities.
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Affiliation(s)
- Samuel Kwawukume
- Department of Nutrition, and Integrative Physiology, Florida State University, Tallahassee, FL, USA
| | - Frank J. Velez
- Department of Nutrition, and Integrative Physiology, Florida State University, Tallahassee, FL, USA
| | - David Williams
- SeaD Consulting, 10015 Black Birch, Tomball, TX 77375, USA
| | - Leqi Cui
- Department of Nutrition, and Integrative Physiology, Florida State University, Tallahassee, FL, USA
| | - Prashant Singh
- Department of Nutrition, and Integrative Physiology, Florida State University, Tallahassee, FL, USA
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Filonzi L, Ardenghi A, Rontani PM, Voccia A, Ferrari C, Papa R, Bellin N, Nonnis Marzano F. Molecular Barcoding: A Tool to Guarantee Correct Seafood Labelling and Quality and Preserve the Conservation of Endangered Species. Foods 2023; 12:2420. [PMID: 37372635 DOI: 10.3390/foods12122420] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Revised: 06/14/2023] [Accepted: 06/16/2023] [Indexed: 06/29/2023] Open
Abstract
The recent increase in international fish trade leads to the need for improving the traceability of fishery products. In relation to this, consistent monitoring of the production chain focusing on technological developments, handling, processing and distribution via global networks is necessary. Molecular barcoding has therefore been suggested as the gold standard in seafood species traceability and labelling. This review describes the DNA barcoding methodology for preventing food fraud and adulteration in fish. In particular, attention has been focused on the application of molecular techniques to determine the identity and authenticity of fish products, to discriminate the presence of different species in processed seafood and to characterize raw materials undergoing food industry processes. In this regard, we herein present a large number of studies performed in different countries, showing the most reliable DNA barcodes for species identification based on both mitochondrial (COI, cytb, 16S rDNA and 12S rDNA) and nuclear genes. Results are discussed considering the advantages and disadvantages of the different techniques in relation to different scientific issues. Special regard has been dedicated to a dual approach referring to both the consumer's health and the conservation of threatened species, with a special focus on the feasibility of the different genetic and genomic approaches in relation to both scientific objectives and permissible costs to obtain reliable traceability.
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Affiliation(s)
- Laura Filonzi
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, 43124 Parma, Italy
| | - Alessia Ardenghi
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, 43124 Parma, Italy
| | - Pietro Maria Rontani
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, 43124 Parma, Italy
| | - Andrea Voccia
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, 43124 Parma, Italy
| | - Claudio Ferrari
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, 43124 Parma, Italy
| | - Riccardo Papa
- Department Biology, University of Puerto Rico, Rio Piedras, San Juan 00925, Puerto Rico
| | - Nicolò Bellin
- Department Biology, University of Puerto Rico, Rio Piedras, San Juan 00925, Puerto Rico
| | - Francesco Nonnis Marzano
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, 43124 Parma, Italy
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6
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Chatzoglou E, Tsaousi N, Apostolidis AP, Exadactylos A, Sandaltzopoulos R, Giantsis IA, Gkafas GA, Malandrakis EE, Sarantopoulou J, Tokamani M, Triantaphyllidis G, Miliou H. High-Resolution Melting (HRM) Analysis for Rapid Molecular Identification of Sparidae Species in the Greek Fish Market. Genes (Basel) 2023; 14:1255. [PMID: 37372435 DOI: 10.3390/genes14061255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Revised: 06/05/2023] [Accepted: 06/08/2023] [Indexed: 06/29/2023] Open
Abstract
The red porgy (Pagrus pagrus) and the common dentex (Dentex dentex) are Sparidae species of high commercial value, traded in the Greek market. In some cases, fish species identification from Greek fisheries is difficult for the consumer due to the strong morphological similarities with their imported counterparts or closely related species such as Pagrus major, Pagrus caeroleustictus, Dentex gibbosus and Pagellus erythrinus, especially when specimens are frozen, filleted or cooked. Techniques based on DNA sequencing, such as COI barcoding, accurately identify species substitution incidents; however, they are time consuming and expensive. In this study, regions of mtDNA were analyzed with RFLPs, multiplex PCR and HRM in order to develop a rapid method for species identification within the Sparidae family. HRM analysis of a 113 bp region of cytb and/or a 156 bp region of 16s could discriminate raw or cooked samples of P. pagrus and D. dentex from the aforementioned closely related species and P. pagrus specimens sampled in the Mediterranean Sea when compared to those fished in the eastern Atlantic. HRM analysis exhibited high accuracy and repeatability, revealing incidents of mislabeling. Multiple samples can be analyzed within three hours, rendering this method a useful tool in fish fraud monitoring.
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Affiliation(s)
- Evanthia Chatzoglou
- Laboratory of Applied Hydrobiology, Department of Animal Science, School of Animal Biosciences, Agricultural University of Athens, 11855 Athens, Greece
| | - Nefeli Tsaousi
- Laboratory of Applied Hydrobiology, Department of Animal Science, School of Animal Biosciences, Agricultural University of Athens, 11855 Athens, Greece
| | - Apostolos P Apostolidis
- Laboratory of Fish & Fisheries, Department of Animal Production, School of Agriculture, Faculty of Agriculture, Forestry and Natural Environment, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
| | - Athanasios Exadactylos
- Hydrobiology-Ichthyology Lab, Department of Ichthyology and Aquatic Environment, School of Agricultural Sciences, University of Thessaly, 38446 Volos, Greece
| | - Raphael Sandaltzopoulos
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, Greece
| | - Ioannis A Giantsis
- Department of Animal Science, Faculty of Agricultural Sciences, University of Western Macedonia, 53100 Florina, Greece
| | - Georgios A Gkafas
- Hydrobiology-Ichthyology Lab, Department of Ichthyology and Aquatic Environment, School of Agricultural Sciences, University of Thessaly, 38446 Volos, Greece
| | - Emmanouil E Malandrakis
- Laboratory of Applied Hydrobiology, Department of Animal Science, School of Animal Biosciences, Agricultural University of Athens, 11855 Athens, Greece
| | - Joanne Sarantopoulou
- Hydrobiology-Ichthyology Lab, Department of Ichthyology and Aquatic Environment, School of Agricultural Sciences, University of Thessaly, 38446 Volos, Greece
| | - Maria Tokamani
- Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, Greece
| | - George Triantaphyllidis
- Laboratory of Applied Hydrobiology, Department of Animal Science, School of Animal Biosciences, Agricultural University of Athens, 11855 Athens, Greece
| | - Helen Miliou
- Laboratory of Applied Hydrobiology, Department of Animal Science, School of Animal Biosciences, Agricultural University of Athens, 11855 Athens, Greece
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Identification of Fish Species and Targeted Genetic Modifications Based on DNA Analysis: State of the Art. Foods 2023; 12:foods12010228. [PMID: 36613444 PMCID: PMC9818732 DOI: 10.3390/foods12010228] [Citation(s) in RCA: 14] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Revised: 12/22/2022] [Accepted: 12/30/2022] [Indexed: 01/05/2023] Open
Abstract
Food adulteration is one of the most serious problems regarding food safety and quality worldwide. Besides misleading consumers, it poses a considerable health risk associated with the potential non-labeled allergen content. Fish and fish products are one of the most expensive and widely traded commodities, which predisposes them to being adulterated. Among all fraud types, replacing high-quality or rare fish with a less valuable species predominates. Because fish differ in their allergen content, specifically the main one, parvalbumin, their replacement can endanger consumers. This underlines the need for reliable, robust control systems for fish species identification. Various methods may be used for the aforementioned purpose. DNA-based methods are favored due to the characteristics of the target molecule, DNA, which is heat resistant, and the fact that through its sequencing, several other traits, including the recognition of genetic modifications, can be determined. Thus, they are considered to be powerful tools for identifying cases of food fraud. In this review, the major DNA-based methods applicable for fish meat and product authentication and their commercial applications are discussed, the possibilities of detecting genetic modifications in fish are evaluated, and future trends are highlighted, emphasizing the need for comprehensive and regularly updated online database resources.
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8
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A systematic approach for pufferfish identification at the species level using DNA-based methods. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109574] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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9
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Ozbay G, Babu BK, Peatman E, Kouhanastani ZM. Prescreening veterinary drug residues, heavy metal concentration, and genetic authentication in retail catfish fillets in the Northeast United States. Food Control 2022. [DOI: 10.1016/j.foodcont.2021.108792] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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10
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Xing RR, Hu RR, Wang N, Zhang JK, Ge YQ, Chen Y. Authentication of sea cucumber products using NGS-based DNA mini-barcoding. Food Control 2021. [DOI: 10.1016/j.foodcont.2021.108199] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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11
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A multiplex real-time PCR screening assay for routine species identification of four commercially relevant crustaceans. Food Control 2021. [DOI: 10.1016/j.foodcont.2021.107986] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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12
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Lea-Charris E, Castro LR, Villamizar N. DNA barcoding reveals fraud in commercial common snook ( Centropomus undecimalis) products in Santa Marta, Colombia. Heliyon 2021; 7:e07095. [PMID: 34095587 PMCID: PMC8165420 DOI: 10.1016/j.heliyon.2021.e07095] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 04/30/2021] [Accepted: 05/13/2021] [Indexed: 10/31/2022] Open
Abstract
The common snook Centropomus undecimalis is one of the main commercial fish species in the Caribbean region, including Colombia, where its populations have drastically decreased due to overfishing and environmental degradation. Thus, there is a market imbalance between the availability of snook products and their demand by consumers, which creates an opening for fraudulent actions such as species substitutions. Legislation in Colombia (and most Caribbean countries) lacks effective tools for the easy and rapid detection of frauds. Furthermore, there are very few studies published in scientific journals addressing this issue, of which none include C. undecimalis as the target species. Therefore, in order to investigate the existence of mislabeling in common snook products in Santa Marta, the present study analysed 44 frozen snook fillets from the five commercial brands available in the city. Moreover, 15 fresh snook fillets from six of the main fish markets were also analysed. To discover the frequency of possible frauds in labeling, samplings were carried out in July, September and November of 2019. Sample analyses involved the identification of each fillet at species level through molecular barcodes (16S-rRNA and COI), whose sequences were verified using BLAST and BOLD, and corroborated by a phylogenetic analysis. As a result, an astonishing 98% of the supermarkets fillets were found to be fraudulent, contrasting with a single case registered in the fish shop samples. The species used to substitute snook include the Pacific bearded brotula Brotula clarkae (38 samples), the Nile perch Lates niloticus (4 samples) and the acoupa weakfish Cynoscion acoupa (1 sample). Based on these results, there is a high rate of fraudulent labeling in the marketing of common snook in the city of Santa Marta, which calls for urgent actions to be taken by the corresponding authorities.
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Affiliation(s)
- Edison Lea-Charris
- Evolution, Systematics and Molecular Ecology Research Group with - GIESEMOL, Universidad del Magdalena, Santa Marta, Colombia
| | - Lyda R Castro
- Evolution, Systematics and Molecular Ecology Research Group with - GIESEMOL, Universidad del Magdalena, Santa Marta, Colombia
| | - Natalia Villamizar
- Biodiversity and Applied Ecology Research Group - GIBEA, Universidad del Magdalena, Carrera 32 No 22 - 08, 47001, Santa Marta, Colombia
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Kang TS. Identification and Authentication of Commercial Mi-iuy Croaker (Miichthys miiuy) Products by Two PCR-Based Methods. J Food Prot 2021; 84:463-471. [PMID: 33003192 DOI: 10.4315/jfp-20-143] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Accepted: 09/25/2020] [Indexed: 11/11/2022]
Abstract
ABSTRACT Mi-iuy croaker (Miichthys miiuy) is one of the most important ingredients of Korean cuisine and, thus, has a high economic value. However, the similar morphological traits among croaker fish belonging to family Sciaenidae are often exploited for seafood fraud. In this study, an M. miiuy-specific primer set was designed and further improved by the development of a rapid and cost-effective duplex PCR method. The specificity of M. miiuy-specific duplex PCR was tested using 22 seafood species, and no cross-reactivity was observed. The sensitivity of the PCR assay was found to be 0.1 ng/μL. For the first time, labeling compliance of 43 commercial mi-iuy croaker products was verified using both full DNA barcoding and M. miiuy-specific duplex PCR methods. For species identification, BOLDSYSTEMS and GenBank database were screened with the consensus sequences of each PCR product as a query. This identification result was further confirmed using the M. miiuy-specific duplex PCR method. The findings of this study revealed that principal species substituted were law croaker (Pseudotolithus senegallus, n = 4), bigeye croaker (Micropogonias megalops, n = 3), whitemouth croaker (Micropogonias furnieri, n = 1), and tigertoothed croaker (Otolithes ruber, n = 1). A significant percentage (21%) of mislabeling was present in commercial mi-iuy products sold on the South Korean market. HIGHLIGHTS
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Affiliation(s)
- Tae Sun Kang
- Department of Food and Nutrition, College of Health Science, Sangji University, Wonju, South Korea (ORCID: https://orcid.org/0000-0001-5939-6247)
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14
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Isaacs RB, Hellberg RS. Authentication of red snapper (Lutjanus campechanus) fillets using a combination of real-time PCR and DNA barcoding. Food Control 2020. [DOI: 10.1016/j.foodcont.2020.107375] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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15
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Pecoraro C, Crobe V, Ferrari A, Piattoni F, Sandionigi A, Andrews AJ, Cariani A, Tinti F. Canning Processes Reduce the DNA-Based Traceability of Commercial Tropical Tunas. Foods 2020; 9:E1372. [PMID: 32992465 PMCID: PMC7650566 DOI: 10.3390/foods9101372] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Revised: 09/18/2020] [Accepted: 09/24/2020] [Indexed: 11/16/2022] Open
Abstract
Canned tuna is one of the most widely traded seafood products internationally and is of growing demand. There is an increasing concern over the vulnerability of canned tuna supply chains to species mislabelling and fraud. Extensive processing conditions in canning operations can lead to the degradation and fragmentation of DNA, complicating product traceability. We here employed a forensically validated DNA barcoding tool (cytochrome b partial sequences) to assess the effects of canning processes on DNA degradation and the identification of four tropical tuna species (yellowfin, bigeye, skipjack and longtail tuna) collected on a global scale, along their commercial chains. Each species was studied under five different canning processes i.e., freezing, defrosting, cooking, and canning in oil and brine, in order to investigate how these affect DNA-based species identification and traceability. The highest percentage of nucleotide substitutions were observed after brine-canning operations and were greatest for yellowfin and skipjack tuna. Overall, we found that DNA degradation significantly increased along the tuna canning process for most specimens. Consequently, most of the specimens canned in oil or brine were misidentified due to the high rate of nucleotide substitution in diagnostic sequences.
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Affiliation(s)
- Carlo Pecoraro
- Physalia-Courses, 10249 Berlin, Germany;
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
| | - Valentina Crobe
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
| | - Alice Ferrari
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
| | - Federica Piattoni
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
| | - Anna Sandionigi
- Department of Electronics Information and Bioengineering, Politecnico di Milano, 20133 Milano, Italy;
| | - Adam J. Andrews
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
| | - Alessia Cariani
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
| | - Fausto Tinti
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, 48121 Ravenna, Italy; (A.F.); (F.P.); (A.J.A.); (A.C.); (F.T.)
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Fernandes TJR, Amaral JS, Mafra I. DNA barcode markers applied to seafood authentication: an updated review. Crit Rev Food Sci Nutr 2020; 61:3904-3935. [DOI: 10.1080/10408398.2020.1811200] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
| | - Joana S. Amaral
- Centro de Investigação de Montanha (CIMO), Instituto Politécnico de Bragança, Bragança, Portugal
| | - Isabel Mafra
- REQUIMTE-LAQV, Faculdade de Farmácia, Universidade do Porto, Porto, Portugal
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17
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Qin J, Vasefi F, Hellberg RS, Akhbardeh A, Isaacs RB, Yilmaz AG, Hwang C, Baek I, Schmidt WF, Kim MS. Detection of fish fillet substitution and mislabeling using multimode hyperspectral imaging techniques. Food Control 2020. [DOI: 10.1016/j.foodcont.2020.107234] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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18
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How Fishy Is Your Fish? Authentication, Provenance and Traceability in Fish and Seafood by Means of Vibrational Spectroscopy. APPLIED SCIENCES-BASEL 2020. [DOI: 10.3390/app10124150] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Food authenticity, traceability and provenance are emerging issues of major concern for consumers, industries and regulatory bodies worldwide. In addition, both food safety and security are an intrinsic component of food quality where the above issues are key in modern traceability and management systems. It has been reported that substitution of a high-quality species by less expensive ones might be a frequent practice in seafood products such as fish and shellfish. In this type of products, the source (e.g., origin) and identification of the species are complex. Although different countries have implemented strict regulations and labelling protocols, these issues still are of concern. This article briefly reviews some of the most recent applications of vibrational spectroscopy (near and mid infrared, Raman) combined with chemometrics to target some of these issues in the seafood and fish industries.
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19
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Liou P, Banda A, Isaacs RB, Hellberg RS. Labeling compliance and species authentication of fish fillets sold at grocery stores in Southern California. Food Control 2020. [DOI: 10.1016/j.foodcont.2020.107137] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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20
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Gianì S, Di Cesare V, Gavazzi F, Morello L, Breviario D. Tubulin-based polymorphism genome profiling: a novel method for animal species authentication in meat and poultry. Food Control 2020. [DOI: 10.1016/j.foodcont.2019.107010] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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21
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Shi R, Xiong X, Huang M, Xu W, Li Y, Cao M, Xiong X. High resolution melting (HRM) analysis of a 12S rRNA mini barcode as a novel approach for codfish species authentication in processed fish products. Eur Food Res Technol 2020. [DOI: 10.1007/s00217-020-03456-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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22
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Jiang XY, Wang FL, Zhao CC, Yan JN, Han JR, Shang WH, Du YN, Wu HT. Identification of two jellyfish species (Rhopilema esculentum kishinouye and Stomolophus meleagris) in Liaoning Province of China by a rapid, simple PCR-RFLP method. Food Control 2019. [DOI: 10.1016/j.foodcont.2019.05.018] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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23
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Dunham-Cheatham SM, Klingler K, Peacock M, Teglas MB, Gustin MS. What is in commercial cat and dog food? The case for mercury and ingredient testing. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 684:276-280. [PMID: 31153074 DOI: 10.1016/j.scitotenv.2019.05.337] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2019] [Revised: 05/19/2019] [Accepted: 05/22/2019] [Indexed: 06/09/2023]
Abstract
Commercial pet foods should be safe for long-term feeding. However, recent recalls and lawsuits have eroded public trust in pet food companies and products. Recent studies have identified high concentrations of mercury, a potent neurotoxin, in pet food products. Here we posit that pet food products require independent testing to verify safety and compliance with developed Food and Drug Administration and Association of American Feed Control Officials standards, and initiate a discussion as to why including quantification of mercury and methylmercury, as well as the identification of adulteration, are important to such testing protocols. The outcomes of these discussions will be multi-faceted: initiating the impetus to investigate the quality and label accuracy of pet foods; ensuring product safety; promoting transparency within the pet food industry; informing veterinary practices regarding pet food recommendations; providing data for evidence-based policy and regulatory enforcement; and working toward fulfilling the National Research Council's call for research that identifies levels of contaminants in animal feeds and residues in human foods.
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Affiliation(s)
- Sarrah M Dunham-Cheatham
- Department of Natural Resources and Environmental Science, University of Nevada, Reno, NV 89557, USA.
| | - Kelly Klingler
- Department of Biology, University of Nevada, Reno, NV 89557, USA
| | - Mary Peacock
- Department of Biology, University of Nevada, Reno, NV 89557, USA
| | - Michael B Teglas
- Department of Agriculture, Veterinary and Range Sciences, University of Nevada, Reno, NV 89557, USA
| | - Mae Sexauer Gustin
- Department of Natural Resources and Environmental Science, University of Nevada, Reno, NV 89557, USA.
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24
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Kang TS. Basic principles for developing real-time PCR methods used in food analysis: A review. Trends Food Sci Technol 2019. [DOI: 10.1016/j.tifs.2019.07.037] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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25
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Xiong X, Yuan F, Huang M, Lu L, Xiong X, Wen J. DNA Barcoding Revealed Mislabeling and Potential Health Concerns with Roasted Fish Products Sold across China. J Food Prot 2019; 82:1200-1209. [PMID: 31233362 DOI: 10.4315/0362-028x.jfp-18-514] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
HIGHLIGHTS 75.5% of products were identified as species outside the expected family. Six products were identified as containing multiple species from distinct families. Species from distinct families were verified in products of same brand for six groups. Identification of potentially toxic pufferfish species highlighted health concerns.
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Affiliation(s)
- Xiong Xiong
- 1 College of Food Science and Light Industry, Nanjing Tech University, Nanjing, 211800, People's Republic of China
| | - Fangying Yuan
- 1 College of Food Science and Light Industry, Nanjing Tech University, Nanjing, 211800, People's Republic of China
| | - Manhong Huang
- 1 College of Food Science and Light Industry, Nanjing Tech University, Nanjing, 211800, People's Republic of China
| | - Lixia Lu
- 1 College of Food Science and Light Industry, Nanjing Tech University, Nanjing, 211800, People's Republic of China
| | - Xiaohui Xiong
- 1 College of Food Science and Light Industry, Nanjing Tech University, Nanjing, 211800, People's Republic of China
| | - Jing Wen
- 2 Department of Biology, Lingnan Normal University, Zhanjiang, 524048, People's Republic of China
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26
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Labrador K, Agmata A, Palermo JD, Follante J, Pante MJ. Authentication of processed Philippine sardine products using Hotshot DNA extraction and minibarcode amplification. Food Control 2019. [DOI: 10.1016/j.foodcont.2018.11.027] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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27
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Sánchez A, Quinteiro J, Vázquez JA, Perez-Martín RI, Sotelo CG. Comparison of real-time PCR methods for quantification of European hake (Merluccius merluccius) in processed food samples. Food Chem 2019; 272:279-285. [PMID: 30309545 DOI: 10.1016/j.foodchem.2018.08.031] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2017] [Revised: 07/29/2018] [Accepted: 08/08/2018] [Indexed: 11/16/2022]
Abstract
The quantification of species in commercial products is limited by analytical shortcomings, as most of them provide semiquantitative results. An exception is real-time PCR, which can provide quantitative results using hybridization probes. In the present work, this technique has been applied to the absolute, absolute-relative and relative quantification of the most valued hake species in European markets, Merluccius merluccius (European Hake). The best quantification results for this species in binary mixtures with non-target species (Merluccius capensis) and using a species-specific real-time PCR MMER_VIC system was achieved using a relative quantification approach (MLL as reference system). Absolute quantification using the MLL nuclear system has been demonstrated as appropriate for the quantification of the Merluccius genus in food model samples. This study reveals the impact of different reference systems (MLL and HAKE) in the absolute-relative and relative quantification approaches, showing that the nuclear MLL system performed better than the mitochondrial HAKE system.
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Affiliation(s)
- A Sánchez
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, Vigo 36208, Pontevedra, Spain.
| | - J Quinteiro
- Departamento de Bioquímica y Biología Molecular, Facultad de Biología, Universidad de Santiago de Compostela, Santiago de Compostela 15782, A Coruña, Spain
| | - J A Vázquez
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, Vigo 36208, Pontevedra, Spain
| | - R I Perez-Martín
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, Vigo 36208, Pontevedra, Spain
| | - C G Sotelo
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas (CSIC), Eduardo Cabello 6, Vigo 36208, Pontevedra, Spain
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28
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Comparison of quantitative methods based on SYBR Green real-time qPCR to estimate pork meat adulteration in processed beef products. Food Chem 2018; 269:549-558. [DOI: 10.1016/j.foodchem.2018.06.141] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2018] [Revised: 06/19/2018] [Accepted: 06/28/2018] [Indexed: 11/22/2022]
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29
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Yanshuang W, Guangxin Y, Lihua Z, Mingcheng L, Yingnuo L. Establishment of mink heart identification method based on mitochondrial cytochrome b gene and development of its detection kit. Mitochondrial DNA A DNA Mapp Seq Anal 2018; 30:325-331. [PMID: 30318961 DOI: 10.1080/24701394.2018.1504932] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
In this study, the mink heart mitochondrial DNA was used as the target gene to design the specific primers of mink heart mtDNA Cytb, the extraction and detection reagents of mink heart DNA were developed using DNA fingerprinting technique, and the specificity, reproducibility, and stability of the reagents were investigated. Molecular cloning and sequencing technique were used to clone the standard substance of mink heart DNA detection, then a DNA fingerprint detection method of mink heart and the quality standard for mink heart were established, and a DNA detection kit of mink heart was developed. The results showed that the structure of DNA extracted from mink heart by self-developed reagents was complete, and both the concentration and purity of DNA were high. A specific amplification band of the original mink samples was found at 337 bp. The sequence of mink heart DNA was consistent with that of mink heart mtDNA specific fingerprint region. The mink heart DNA fingerprint identification method established, in this study, is accurate and reliable, and the procedure of the developed DNA kit is easy, the results obtained using this kit is stable and the method is suitable for popularization and application.
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Affiliation(s)
- Wang Yanshuang
- a College of Medicine ; Beihua University , Jilin , China
| | - Yuan Guangxin
- b College of Pharmacy , Beihua University , Jilin , China
| | - Zhang Lihua
- c Jilin Leining Food and Drug Testing Technology Service Co., Ltd , Jilin , China
| | - Li Mingcheng
- d School of Laboratory Medicine , Beihua University , Jilin , China
| | - Li Yingnuo
- b College of Pharmacy , Beihua University , Jilin , China
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30
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Vaithiyanathan S, Vishnuraj MR, Reddy GN, Kulkarni VV. Application of DNA technology to check misrepresentation of animal species in illegally sold meat. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2018. [DOI: 10.1016/j.bcab.2018.10.012] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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31
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Noh ES, Park YJ, Kim EM, Park JY, Shim KB, Choi TJ, Kim KH, Kang JH. Quantitative analysis of Alaska pollock in seafood products by droplet digital PCR. Food Chem 2018; 275:638-643. [PMID: 30724244 DOI: 10.1016/j.foodchem.2018.09.093] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2017] [Revised: 09/04/2018] [Accepted: 09/14/2018] [Indexed: 01/06/2023]
Abstract
A highly accurate quantitative method, based on the new technique, droplet digital PCR (ddPCR), was applied to determine the content of Alaska pollock (Gadus chalcogrammus) in seafood products. Using this method, we found a linear relationship among raw sample weight, DNA concentration and DNA copy number. We also established a formula to calculate the raw sample weight, based on the number of DNA copies. To confirm the accuracy and applicability of this method, mixed samples of known composition were analyzed. Results from this study indicated that the ddPCR method described is suitable for quantifying Alaska pollock in seafood products and has the potential applied to a variety of tasks in food quality certification.
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Affiliation(s)
- Eun Soo Noh
- Biotechnology Research Division, National Institute of Fisheries Science, 216, Gijanghaean-ro, Gijang-eup, Gijang-gun, Busan 46083, Republic of Korea
| | - Yeon Jung Park
- Biotechnology Research Division, National Institute of Fisheries Science, 216, Gijanghaean-ro, Gijang-eup, Gijang-gun, Busan 46083, Republic of Korea
| | - Eun Mi Kim
- Biotechnology Research Division, National Institute of Fisheries Science, 216, Gijanghaean-ro, Gijang-eup, Gijang-gun, Busan 46083, Republic of Korea
| | - Jung Youn Park
- Biotechnology Research Division, National Institute of Fisheries Science, 216, Gijanghaean-ro, Gijang-eup, Gijang-gun, Busan 46083, Republic of Korea
| | - Kil Bo Shim
- Food Safety and Processing Research Division, National Institute of Fisheries Science, 216, Gijanghaean-ro, Gijang-eup, Gijang-gun, Busan 46083, Republic of Korea
| | - Tae-Jin Choi
- Department of Microbiology, College of Natural Science, Pukyong National University, 45 Yongso-ro, Nam-gu, Busan 48513, Republic of Korea
| | - Kyoung-Ho Kim
- Department of Microbiology, College of Natural Science, Pukyong National University, 45 Yongso-ro, Nam-gu, Busan 48513, Republic of Korea
| | - Jung-Ha Kang
- Biotechnology Research Division, National Institute of Fisheries Science, 216, Gijanghaean-ro, Gijang-eup, Gijang-gun, Busan 46083, Republic of Korea.
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32
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33
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Identification of undeclared ingredients in red pepper products sold on the South Korea commercial market using real-time PCR methods. Food Control 2018. [DOI: 10.1016/j.foodcont.2018.02.033] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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34
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Veneza I, Silva R, Freitas L, Silva S, Martins K, Sampaio I, Schneider H, Gomes G. Molecular authentication of Pargo fillets Lutjanus purpureus (Perciformes: Lutjanidae) by DNA barcoding reveals commercial fraud. NEOTROPICAL ICHTHYOLOGY 2018. [DOI: 10.1590/1982-0224-20170068] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
ABSTRACT The Caribbean Red Snapper (Pargo) Lutjanus purpureus is the most economically important snapper in Brazil, which is sold, among other forms, as frozen fillets. During the process of transformation into fillets there is the removal of the distinctive morphological traits, being able to favor the substitution by less valued species. In addition, there is no national legislation requiring the insertion of the specific name on the product label. However, according to a Normative Instruction (IN N ° 29/2015 MAPA) that correlates the common and specific names of the products destined to the national trade, in Brazil only L. purpureus and L. campechanus can be denominated “Pargo”. Thus, the DNA barcode tool was used to identify the fillets sold in north of Brazil, labeled “Pargo”, with the aid of sequences from the public and control databases. The results showed that among 142 fillets examined, 78% was identified as L. purpureus and 22% as Rhomboplites aurorubens, a snapper with low commercial value in the country, revealing commercial fraud. The molecular identification method successfully used in this study to authenticate fillets snappers may also be used by surveillance authorities in the quality control of processed fish products, towards ensuring consumer rights.
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Affiliation(s)
| | | | | | | | | | | | | | - Grazielle Gomes
- Universidade Federal do Pará, Brazil; Universidade Federal do Pará, Brazil
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35
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Madeira P, Stefanni S, Ávila SP. Non-destructive tissue sampling and the use of PCR-RFLPs in two edible sea cucumbers from the north-eastern Atlantic, Holothuria mammata Grube, 1840 and H. sanctori Delle Chiaje, 1823 (Echinodermata: Holothuroidea). EUROPEAN ZOOLOGICAL JOURNAL 2018. [DOI: 10.1080/24750263.2018.1438529] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- P. Madeira
- Departamento de Biologia, Faculdade de Ciências e Tecnologia, Universidade dos Açores, Azores, Portugal
- CIBIO-Açores, Universidade dos Açores, Azores, Portugal
- MPB – Marine Palaeo Biogeography, Working Group of the University of the Azores, Azores, Portugal
| | - S. Stefanni
- Department of Biology and Evolution of Marine Organisms, Stazione Zoologica A Dohrn, Naples, Italy
| | - S. P. Ávila
- Departamento de Biologia, Faculdade de Ciências e Tecnologia, Universidade dos Açores, Azores, Portugal
- CIBIO-Açores, Universidade dos Açores, Azores, Portugal
- MPB – Marine Palaeo Biogeography, Working Group of the University of the Azores, Azores, Portugal
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36
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Rodrigues PA, Ferrari RG, Conte-Junior CA. Application of molecular tools to elucidate the microbiota of seafood. J Appl Microbiol 2018; 124:1347-1365. [PMID: 29345036 DOI: 10.1111/jam.13701] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Revised: 01/09/2018] [Accepted: 01/11/2018] [Indexed: 12/19/2022]
Abstract
The aim of this review is to present the methodologies currently applied to identify microbiota and pathogens transmitted to humans through seafood consumption, focusing on molecular techniques and pointing out their importance, advantages, disadvantages and applicability. Knowledge of available techniques allows researchers to identify which technique best fits their expectations. With such discernment, it will be possible to infer which disadvantages will be present and, therefore, not interfering with the final result. Two methodologies can be employed for this purpose, dependent and independent cultures. However, the dependent culture has certain limitations that can be solved through the independent cultivation techniques, such as PCR, PFGE and NGS, especially through the sequencing of the 16S rRNA region, providing a complete view of microbial diversity. These have revolutionized microbiological knowledge, mainly because they allow for the identification of uncultivable micro-organisms, which represent a substantial portion of total micro-organisms, making it possible to elucidate not yet described taxa which may display pathogenic potential, besides quantifying microbial communities, microbiota genetics, translated proteins and produced metabolites. In addition, transcriptomic and metabolomic techniques also allow for the evaluation of possible impacts that microbial communities may create in their environment, as well as the determination of potential pathogenicity to humans.
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Affiliation(s)
- P A Rodrigues
- Department of Food Technology, Faculty of Veterinary, Molecular & Analytical Laboratory Center, Universidade Federal Fluminense, Niterói, Brazil
| | - R G Ferrari
- Department of Food Technology, Faculty of Veterinary, Molecular & Analytical Laboratory Center, Universidade Federal Fluminense, Niterói, Brazil.,Chemistry Institute, Food Science Program, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - C A Conte-Junior
- Department of Food Technology, Faculty of Veterinary, Molecular & Analytical Laboratory Center, Universidade Federal Fluminense, Niterói, Brazil.,Chemistry Institute, Food Science Program, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.,National Institute of Health Quality Control, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
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37
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Kim MR, Kwon K, Jung YK, Kang TS. A rapid real-time PCR method to differentiate between mottled skate (Beringraja pulchra) and other skate and ray species. Food Chem 2018; 255:112-119. [PMID: 29571456 DOI: 10.1016/j.foodchem.2018.02.056] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Revised: 09/10/2017] [Accepted: 02/11/2018] [Indexed: 10/18/2022]
Abstract
Skates and rays are commercially important fish in South Korea, and among them, Beringraja pulchra has the highest economic value. However, the similar morphological traits among skates and rays are often exploited for seafood fraud. Here, we designed both Beringraja pulchra-specific and skate-universal primer sets, capable of detecting short sequences in the cytochrome oxidase subunit I gene, and developed highly sensitive and reliable quantitative real-time PCR (qPCR) assays to differentiate between Beringraja pulchra and other skate and ray species. AΔCq method based on differences in the amplification efficiency was developed, validated, and then used to confirm the presence of Beringraja pulchra in twenty-six commercial skate products. The averageΔCq value obtained for other skate species (18.94 ± 3.46) was significantly higher than that of Beringraja pulchra (1.18 ± 0.15). For on-site applications, we developed an ultra-fast qPCR assay, allowing for completion of the entire analytical procedure within 30 min.
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Affiliation(s)
- Mi-Ra Kim
- New Hazardous Substance Team, Food Safety Evaluation Department, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, 187 Osongsaengmyeong 2-ro, Osong-eup, Heungdeok-gu, Cheongju-si, Chungcheongbuk-do 28159, South Korea
| | - Kisung Kwon
- New Hazardous Substance Team, Food Safety Evaluation Department, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, 187 Osongsaengmyeong 2-ro, Osong-eup, Heungdeok-gu, Cheongju-si, Chungcheongbuk-do 28159, South Korea
| | - Yoo-Kyung Jung
- New Hazardous Substance Team, Food Safety Evaluation Department, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, 187 Osongsaengmyeong 2-ro, Osong-eup, Heungdeok-gu, Cheongju-si, Chungcheongbuk-do 28159, South Korea
| | - Tae Sun Kang
- New Hazardous Substance Team, Food Safety Evaluation Department, National Institute of Food and Drug Safety Evaluation, Ministry of Food and Drug Safety, 187 Osongsaengmyeong 2-ro, Osong-eup, Heungdeok-gu, Cheongju-si, Chungcheongbuk-do 28159, South Korea.
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38
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Pollack SJ, Kawalek MD, Williams-Hill DM, Hellberg RS. Evaluation of DNA barcoding methodologies for the identification of fish species in cooked products. Food Control 2018. [DOI: 10.1016/j.foodcont.2017.08.013] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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39
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Cutarelli A, Galiero G, Capuano F, Corrado F. Species Identification by Means of Mitochondrial Cytochrome <i>b</i> DNA Sequencing in Processed Anchovy, Sardine and Tuna Products. ACTA ACUST UNITED AC 2018. [DOI: 10.4236/fns.2018.94029] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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40
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El Sheikha AF, Mokhtar NFK, Amie C, Lamasudin DU, Isa NM, Mustafa S. Authentication technologies using DNA-based approaches for meats and halal meats determination. FOOD BIOTECHNOL 2017. [DOI: 10.1080/08905436.2017.1369886] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Aly Farag El Sheikha
- Department of Biology, McMaster University, Hamilton, Ontario, Canada
- Department of Food Science and Technology, Faculty of Agriculture, Minufiya University, Shibin El Kom, Egypt
| | - Nur Fadhilah Khairil Mokhtar
- Laboratory of Halal Products Research Institute, Halal Products Research Institute, Universiti Putra Malaysia (UPM), Selangor, Malaysia
| | - Ceesay Amie
- Department of Microbiology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia (UPM), Selangor, Malaysia
| | - Dhilia Udie Lamasudin
- Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia (UPM), Selangor, Malaysia
| | - Nurulfiza Mat Isa
- Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia (UPM), Selangor, Malaysia
| | - Shuhaimi Mustafa
- Laboratory of Halal Products Research Institute, Halal Products Research Institute, Universiti Putra Malaysia (UPM), Selangor, Malaysia
- Department of Microbiology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia (UPM), Selangor, Malaysia
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41
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42
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Hellberg RS, Hernandez BC, Hernandez EL. Identification of meat and poultry species in food products using DNA barcoding. Food Control 2017. [DOI: 10.1016/j.foodcont.2017.04.025] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Veneza I, da Silva R, Sampaio I, Schneider H, Gomes G. Molecular protocol for authentication of snappers (Lutjanidae-Perciformes) based on multiplex PCR. Food Chem 2017; 232:36-42. [DOI: 10.1016/j.foodchem.2017.03.007] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2015] [Revised: 02/01/2017] [Accepted: 03/03/2017] [Indexed: 10/20/2022]
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Hong E, Lee SY, Jeong JY, Park JM, Kim BH, Kwon K, Chun HS. Modern analytical methods for the detection of food fraud and adulteration by food category. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2017; 97:3877-3896. [PMID: 28397254 DOI: 10.1002/jsfa.8364] [Citation(s) in RCA: 153] [Impact Index Per Article: 21.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2016] [Revised: 03/23/2017] [Accepted: 04/04/2017] [Indexed: 06/07/2023]
Abstract
This review provides current information on the analytical methods used to identify food adulteration in the six most adulterated food categories: animal origin and seafood, oils and fats, beverages, spices and sweet foods (e.g. honey), grain-based food, and others (organic food and dietary supplements). The analytical techniques (both conventional and emerging) used to identify adulteration in these six food categories involve sensory, physicochemical, DNA-based, chromatographic and spectroscopic methods, and have been combined with chemometrics, making these techniques more convenient and effective for the analysis of a broad variety of food products. Despite recent advances, the need remains for suitably sensitive and widely applicable methodologies that encompass all the various aspects of food adulteration. © 2017 Society of Chemical Industry.
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Affiliation(s)
- Eunyoung Hong
- Advanced Food Safety Research Group, BK21 Plus, School of Food Science and Technology, Chung-Ang University, Gyeonggi-do, Republic of Korea
| | - Sang Yoo Lee
- Advanced Food Safety Research Group, BK21 Plus, School of Food Science and Technology, Chung-Ang University, Gyeonggi-do, Republic of Korea
| | - Jae Yun Jeong
- Science and Technology Management Policy, University of Science & Technology, Gyeonggi-do, Republic of Korea
- R&D Strategy, Korea Food Research Institute, Gyeonggi-do, Republic of Korea
| | - Jung Min Park
- Science and Technology Management Policy, University of Science & Technology, Gyeonggi-do, Republic of Korea
- R&D Strategy, Korea Food Research Institute, Gyeonggi-do, Republic of Korea
| | - Byung Hee Kim
- Department of Food Science and Nutrition, Sookmyung Women's University, Seoul, Republic of Korea
| | - Kisung Kwon
- New Hazardous Substances Team, National Institute of Food and Drug Safety Evaluation, Chungcheongbuk-do, Republic of Korea
| | - Hyang Sook Chun
- Advanced Food Safety Research Group, BK21 Plus, School of Food Science and Technology, Chung-Ang University, Gyeonggi-do, Republic of Korea
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Taboada L, Sánchez A, Sotelo CG. A new real-time PCR method for rapid and specific detection of ling ( Molva molva ). Food Chem 2017; 228:469-475. [DOI: 10.1016/j.foodchem.2017.01.117] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2016] [Revised: 01/19/2017] [Accepted: 01/24/2017] [Indexed: 10/20/2022]
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Abbadi M, Marciano S, Tosi F, De Battisti C, Panzarin V, Arcangeli G, Cattoli G. Species identification of bivalve molluscs by pyrosequencing. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2017; 97:512-519. [PMID: 27068666 DOI: 10.1002/jsfa.7754] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2015] [Revised: 02/23/2016] [Accepted: 04/05/2016] [Indexed: 06/05/2023]
Abstract
BACKGROUND The increase in seafood consumption and the presence of different species of bivalves on the global markets has given rise to several commercial frauds based on species substitution. To prevent and detect wilful or unintentional frauds, reliable and rapid techniques are required to identify seafood species in different products. In the present work, a pyrosequencing-based technology has been used for the molecular identification of bivalve species. RESULTS Processed and unprocessed samples of 15 species belonging to the bivalve families Pectinidae, Mytilidae, Donacidae, Ostreidae, Pharide and Veneridae were analysed and correctly identified by the developed pyrosequencing-based method according to the homology between query sequences of the 16S ribosomal RNA (16S rRNA) and cytochrome c oxidase I (COI) genes and their correspondent reference libraries. This technique exhibits great potential in automated and high-throughput processing systems, allowing the simultaneous analysis of 96 samples in shorter execution and turnaround times. CONCLUSIONS The correct identification of all the species shows how useful this technique may prove to differentiate species from different products, providing an alternative, simple, rapid and economical tool to detect seafood substitution frauds. © 2016 Society of Chemical Industry.
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Affiliation(s)
- Miriam Abbadi
- Research and Innovation Department, Istituto Zooprofilattico Sperimentale delle Venezie, 35020 Legnaro, Padova, Italy
| | - Sabrina Marciano
- Research and Innovation Department, Istituto Zooprofilattico Sperimentale delle Venezie, 35020 Legnaro, Padova, Italy
| | - Federica Tosi
- National Reference Laboratory for Fish, Molluscs and Crustacean Diseases, Istituto Zooprofilattico Sperimentale delle Venezie, 45011 Adria, Rovigo, Italy
- Department of Chemical and Pharmaceutical Sciences, University of Ferrara, 44121 Ferrara, Italy
| | - Cristian De Battisti
- Research and Innovation Department, Istituto Zooprofilattico Sperimentale delle Venezie, 35020 Legnaro, Padova, Italy
| | - Valentina Panzarin
- Research and Innovation Department, Istituto Zooprofilattico Sperimentale delle Venezie, 35020 Legnaro, Padova, Italy
| | - Giuseppe Arcangeli
- National Reference Laboratory for Fish, Molluscs and Crustacean Diseases, Istituto Zooprofilattico Sperimentale delle Venezie, 45011 Adria, Rovigo, Italy
| | - Giovanni Cattoli
- Research and Innovation Department, Istituto Zooprofilattico Sperimentale delle Venezie, 35020 Legnaro, Padova, Italy
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White fish authentication by COIBar-RFLP: Toward a common strategy for the rapid identification of species in convenience seafood. Food Control 2016. [DOI: 10.1016/j.foodcont.2016.05.026] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Velasco A, Aldrey A, Pérez-Martín RI, Sotelo CG. Assessment of the labelling accuracy of spanish semipreserved anchovies products by FINS (forensically informative nucleotide sequencing). Heliyon 2016; 2:e00124. [PMID: 27441295 PMCID: PMC4946307 DOI: 10.1016/j.heliyon.2016.e00124] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2016] [Revised: 04/19/2016] [Accepted: 06/14/2016] [Indexed: 11/26/2022] Open
Abstract
Anchovies have been traditionally captured and processed for human consumption for millennia. In the case of Spain, ripened and salted anchovies are a delicacy, which, in some cases, can reach high commercial values. Although there have been a number of studies presenting DNA methodologies for the identification of anchovies, this is one of the first studies investigating the level of mislabelling in this kind of products in Europe. Sixty-three commercial semipreserved anchovy products were collected in different types of food markets in four Spanish cities to check labelling accuracy. Species determination in these commercial products was performed by sequencing two different cyt-b mitochondrial DNA fragments. Results revealed mislabelling levels higher than 15%, what authors consider relatively high considering the importance of the product. The most frequent substitute species was the Argentine anchovy, Engraulis anchoita, which can be interpreted as an economic fraud.
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Affiliation(s)
- Amaya Velasco
- Instituto de Investigaciones Marinas (IIM-CSIC), C/Eduardo Cabello 6, Vigo, Pontevedra, Spain
- Corresponding author.
| | - Anxela Aldrey
- Instituto de Investigaciones Agrobiológicas (IIAG), Av. de Vigo, s/n. Campus Universitario Sur, Santiago de Compostela (Spain)
| | - Ricardo I. Pérez-Martín
- Instituto de Investigaciones Marinas (IIM-CSIC), C/Eduardo Cabello 6, Vigo, Pontevedra, Spain
| | - Carmen G. Sotelo
- Instituto de Investigaciones Marinas (IIM-CSIC), C/Eduardo Cabello 6, Vigo, Pontevedra, Spain
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Chin Chin T, Adibah A, Danial Hariz Z, Siti Azizah M. Detection of mislabelled seafood products in Malaysia by DNA barcoding: Improving transparency in food market. Food Control 2016. [DOI: 10.1016/j.foodcont.2015.11.042] [Citation(s) in RCA: 64] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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