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Mottola A, Piredda R, Lorusso L, Ranieri L, Intermite C, Barresi C, Galli C, Di Pinto A. Decoding Seafood: Multi-Marker Metabarcoding for Authenticating Processed Seafood. Foods 2024; 13:2382. [PMID: 39123573 PMCID: PMC11311639 DOI: 10.3390/foods13152382] [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: 07/04/2024] [Revised: 07/22/2024] [Accepted: 07/25/2024] [Indexed: 08/12/2024] Open
Abstract
Given the recognized nutritional value of fish and shifting consumer lifestyles, processed seafood has become increasingly prevalent, comprising a significant portion of global food production. Although current European Union labeling regulations do not require species declaration for these products, food business operators often voluntarily provide this information on ingredient lists. Next Generation Sequencing (NGS) approaches are currently the most effective methods for verifying the accuracy of species declarations on processed seafood labels. This study examined the species composition of 20 processed seafood products, each labeled as containing a single species, using two DNA metabarcoding markers targeting the mitochondrial cytochrome c oxidase I (COI) and 16S rRNA genes. The combined use of these markers revealed that the majority of the products contained multiple species. Furthermore, two products were found to be mislabeled, as the declared species were not detected. These findings underscore that NGS is a robust technique that could be adopted to support routine food industry activities and official control programs, thereby enhancing the 'From Boat to Plate' strategy and combating fraudulent practices in the complex fisheries supply chain.
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Affiliation(s)
- Anna Mottola
- Department of Veterinary Medicine, University of Bari Aldo Moro, Prov. le Casamassima 62, Km 3, 70010 Valenzano, Italy; (A.M.); (R.P.); (L.R.); (C.I.); (A.D.P.)
| | - Roberta Piredda
- Department of Veterinary Medicine, University of Bari Aldo Moro, Prov. le Casamassima 62, Km 3, 70010 Valenzano, Italy; (A.M.); (R.P.); (L.R.); (C.I.); (A.D.P.)
| | - Lucilia Lorusso
- Department of Veterinary Medicine, University of Bari Aldo Moro, Prov. le Casamassima 62, Km 3, 70010 Valenzano, Italy; (A.M.); (R.P.); (L.R.); (C.I.); (A.D.P.)
| | - Lucia Ranieri
- Department of Veterinary Medicine, University of Bari Aldo Moro, Prov. le Casamassima 62, Km 3, 70010 Valenzano, Italy; (A.M.); (R.P.); (L.R.); (C.I.); (A.D.P.)
| | - Chiara Intermite
- Department of Veterinary Medicine, University of Bari Aldo Moro, Prov. le Casamassima 62, Km 3, 70010 Valenzano, Italy; (A.M.); (R.P.); (L.R.); (C.I.); (A.D.P.)
| | - Concettina Barresi
- Laboratory of Modena, Department of Central Inspectorate for Fraud Repression and Quality Protection of the Agri-Food Products and Foodstuffs, Ministry of Agriculture, Food Sovereignty and Forests (ICQRF-MASAF), Via Domenico Cucchiari, 12, 41124 Modena, Italy;
| | - Carmela Galli
- Laboratory of Salerno, Department of Central Inspectorate for Fraud Repression and Quality Protection of the Agri-Food Products and Foodstuffs, Ministry of Agriculture, Food Sovereignty and Forests (ICQRF-MASAF), Via Frà Giacomo Acquaviva n. 1, 84135 Salerno, Italy;
| | - Angela Di Pinto
- Department of Veterinary Medicine, University of Bari Aldo Moro, Prov. le Casamassima 62, Km 3, 70010 Valenzano, Italy; (A.M.); (R.P.); (L.R.); (C.I.); (A.D.P.)
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2
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Yao L, Wang S, Xue H, Fei Y, Xiong X, Xiong X. Fish species mislabelling in China: evidence from a survey of frozen, dried, and surimi-based fish products marketed as cod-related species. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2024; 41:134-142. [PMID: 38206634 DOI: 10.1080/19440049.2024.2302962] [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: 11/14/2023] [Accepted: 01/04/2024] [Indexed: 01/12/2024]
Abstract
'Cod'-related species are among the most appreciated marine fish resources around the world, but are also prone to species mislabelling. In the present study, a total of 76 frozen, dried, and surimi-based fish products, sold as 'Cod' (59 products), 'Atlantic authentic Cod' (11 products), and 'Authentic Cod' (6 products), were collected in China. A species-specific LAMP (loop-mediated isothermal amplification) method was used to screen for the presence of Atlantic cod (Gadus morhua), Pacific cod (G. macrocephalus), Alaska pollock (G. chalcogrammus), Southern hake (Merluccius australis), which was cross-confirmed using real-time PCR and DNA sequencing methods. The results highlighted the greatest species diversity for 'Cod' products, and the identified species were from nine different families. It appears that the practice of assigning a specific type or category of species to the common name 'Cod' has not been widely advocated, and the misuse of this ambiguous common name has been a common practice for species adulteration, negatively impacting consumers' rights and marine conservation. To rebuild consumers' confidence, retail fish suppliers have differentiated their products by adding specific qualifiers in front of the common name 'Cod' on the label, such as 'Authentic cod' and 'Atlantic authentic cod'. The endeavour is highly meaningful, since Gadus morhua was identified as the species for a significant majority of 'Atlantic authentic cod' and 'Authentic cod' products (64.7%, 11/17), with the remaining six products identified as Alaskan pollock (G. chalcogrammus), Pacific cod (G. macrocephalus) and North Pacific hake (Merluccius productus). Despite the positive effort to reverse species mislabelling from retail on-line fish suppliers, a standardized fish nomenclature stipulated by the responsible authorities remains crucial for enhancing transparency and continuing to reduce species mislabelling.
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Affiliation(s)
- Lili Yao
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Shihui Wang
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Hanyue Xue
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Yanjin Fei
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Xiaohui Xiong
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Xiong Xiong
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
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3
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Boehm JT, Bovee E, Harris SE, Eddins K, Akahoho I, Foster M, Pell SK, Hickerson MJ, Amato G, DeSalle R, Waldman J. The United States dried seahorse trade: A comparison of traditional Chinese medicine and ecommerce-curio markets using molecular identification. PLoS One 2023; 18:e0291874. [PMID: 37788253 PMCID: PMC10547177 DOI: 10.1371/journal.pone.0291874] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Accepted: 09/07/2023] [Indexed: 10/05/2023] Open
Abstract
Tens of millions of dried seahorses (genus Hippocampus) are traded annually, and the pressure from this trade along with their life history traits (involved parental care and small migration distances and home ranges) has led to near global population declines. This and other forms of overexploitation have led to all seahorse species being listed in Appendix II under the Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES). The signatory nations of CITES recommended a 10-cm size limit of seahorses to ensure harvested individuals have reached reproductive maturity, and have thus had the chance to produce offspring, to maintain a more sustainable global seahorse fishery. We assessed adherence to CITES recommendations using DNA barcoding and size measurements to compare two prominent U.S. dried seahorse markets: (1) traditional Chinese medicine (TCM), and (2) non-medicinal ecommerce and coastal curio (ECC). We also estimated U.S. import abundance from CITES records. Of the nine species identified among all samples (n = 532), eight were found in the TCM trade (n = 168); composed mostly (75%) of the Indo-Pacific species Hippocampus trimaculatus, and Hippocampus spinosissimus, and the Latin American Hippocampus ingens. In contrast, ECC samples (n = 344) included 5 species, primarily juvenile Indo-Pacific Hippocampus kuda (51.5%) and the western Atlantic Hippocampus zosterae (40.7). The majority of TCM samples (85.7%) met the CITES size recommendation, in contrast to 4.8% of ECC samples. These results suggest non-size discriminatory bycatch is the most likely source of imported ECC specimens. In addition, CITES records indicate that approximately 602,275 dried specimens were imported into the U.S. from 2004-2020, but the exact species composition remains unknown as many U.S. imports records list one species or Hippocampus spp. from confiscated shipments due to difficulties in morphological identification and large numbers of individuals per shipment. Molecular identification was used to identify the species composition of confiscated shipment imports containing undesignated species, and similar to TCM, found H. trimaculatus and H. spinosissimus the most abundant. By combining DNA barcoding, size comparisons, and CITES database records, these results provide an important glimpse into the two primary dried U.S. seahorse end-markets, and may further inform the conservation status of several Hippocampus species.
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Affiliation(s)
- J T Boehm
- Sackler Institute for Comparative Genomics, American Museum of Natural History, New York, New York, United States of America
- Department of Biology, City College of New York, New York, New York, United States of America
- Subprogram in Ecology, Evolution Biology and Behavior, The Graduate Center of the City University of New York, New York, New York, United States of America
| | - Eric Bovee
- School of Forest, Fisheries, and Geomatics Sciences, University of Florida, Gainesville, Florida, United States of America
| | - Stephen E Harris
- Subprogram in Ecology, Evolution Biology and Behavior, The Graduate Center of the City University of New York, New York, New York, United States of America
- School of Natural and Social Science, SUNY Purchase College, Purchase, New York, United States of America
| | - Kathryn Eddins
- The New School, New York, New York, United States of America
| | - Ishmael Akahoho
- Brooklyn Academy of Science and the Environment High School, Brooklyn, New York, United States of America
| | - Marcia Foster
- Brooklyn Academy of Science and the Environment High School, Brooklyn, New York, United States of America
| | - Susan K Pell
- Brooklyn Botanic Garden, Brooklyn, New York, United States of America
| | - Michael J Hickerson
- Department of Biology, City College of New York, New York, New York, United States of America
- Subprogram in Ecology, Evolution Biology and Behavior, The Graduate Center of the City University of New York, New York, New York, United States of America
- Division of Invertebrate Zoology, American Museum of Natural History, New York, New York, United States of America
| | - George Amato
- Sackler Institute for Comparative Genomics, American Museum of Natural History, New York, New York, United States of America
| | - Rob DeSalle
- Sackler Institute for Comparative Genomics, American Museum of Natural History, New York, New York, United States of America
- Division of Invertebrate Zoology, American Museum of Natural History, New York, New York, United States of America
| | - John Waldman
- Subprogram in Ecology, Evolution Biology and Behavior, The Graduate Center of the City University of New York, New York, New York, United States of America
- Biology Department, Queens College, City University of New York, New York, United States of America
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4
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Monteiro FC, Carreira RDS, Gramlich KC, de Pinho JV, Massone CG, Vianna M, Hauser-Davis RA. A systematic review on polycyclic aromatic hydrocarbon contamination in elasmobranchs and associated human health risks. MARINE POLLUTION BULLETIN 2023; 195:115535. [PMID: 37714073 DOI: 10.1016/j.marpolbul.2023.115535] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2023] [Revised: 09/05/2023] [Accepted: 09/08/2023] [Indexed: 09/17/2023]
Abstract
Polycyclic aromatic hydrocarbon (PAH) contamination is ubiquitous and comprises a significant worldwide concern in ecological and Public Health frameworks. Many aquatic biota representatives have been reported as contaminated by these toxic compounds, including one of the most threatened vertebrate groups, elasmobranchs (sharks and rays). Although elasmobranchs play important ecological roles and provide significant ecosystem services, they are highly consumed and comprise a cheap source of protein for humans globally. Studies concerning elasmobranch PAH contamination are, however, notably lacking. A systematic review was, thus, conducted herein to assess PAH elasmobranch contamination and discuss potential human health risks following the Preferred Reporting Item Statement Guidelines for Systematic Reviews and Meta-analyses (PRISMA) guidelines applying the Population (P), Intervention (I), Comparison I, and Outcome (O) (PICO) strategy. A total of 86 published papers were retrieved by this method and analyzed. Only nine studies of this total concerned PAH elasmobranch contamination, assessed in 10 shark species and one ray species, with only one study calculating human health risks. A significant knowledge gap is, thus, noted for this subject, indicating the need to monitor PAH elasmobranch contamination in consumed shark and ray species worldwide.
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Affiliation(s)
- Francielli Casanova Monteiro
- Departamento de Química, Pontifícia Universidade Católica do Rio de Janeiro (PUC-Rio), Rua Marquês de São Vicente Street, 225, Gávea, Rio de Janeiro 22453-900, Brazil
| | - Renato da Silva Carreira
- Departamento de Química, Pontifícia Universidade Católica do Rio de Janeiro (PUC-Rio), Rua Marquês de São Vicente Street, 225, Gávea, Rio de Janeiro 22453-900, Brazil
| | - Kamila Cezar Gramlich
- Departamento de Química, Pontifícia Universidade Católica do Rio de Janeiro (PUC-Rio), Rua Marquês de São Vicente Street, 225, Gávea, Rio de Janeiro 22453-900, Brazil
| | - Júlia Vianna de Pinho
- Instituto de Química, Departmento de Bioquímica, Universidade Federal do Rio de Janeiro (UFRJ), Rio de Janeiro 21941-909, Brazil; Instituto Nacional de Controle de Qualidade em Saúde, Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro 21040-900, Brazil; Programa de Pós-Graduação em Vigilância Sanitária, Instituto Nacional de Controle de Qualidade em Saúde, Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro 21040-900, Brazil
| | - Carlos German Massone
- Departamento de Química, Pontifícia Universidade Católica do Rio de Janeiro (PUC-Rio), Rua Marquês de São Vicente Street, 225, Gávea, Rio de Janeiro 22453-900, Brazil
| | - Marcelo Vianna
- Laboratório de Biologia e Tecnologia Pesqueira, Departamento de Biologia Marinha, Instituto de Biologia, Universidade Federal do Rio de Janeiro (UFRJ), Avenida Carlos Chagas Filho, 373, CCS, Bl. A., Rio de Janeiro, Rio de Janeiro 21941-541, Brazil; Instituto Museu Aquário Marinho do Rio de Janeiro (IMAM), Centro de Pesquisas do Aquário do Rio de Janeiro, AquaRio, Rio de Janeiro, Brazil
| | - Rachel Ann Hauser-Davis
- Laboratório de Avaliação e Promoção da Saúde Ambiental, Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Av. Brasil 4365, 21045-900 Rio de Janeiro, RJ, Brasil..
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5
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Balàka PF, Ugarković P, Türtscher J, Kriwet J, Niedermüller S, Krstinić P, Jambura PL. Updated Checklist of Chondrichthyan Species in Croatia (Central Mediterranean Sea). BIOLOGY 2023; 12:952. [PMID: 37457320 PMCID: PMC7614753 DOI: 10.3390/biology12070952] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
Abstract
Almost half of all chondrichthyan species in the Mediterranean Sea are threatened with extinction, according to the IUCN Red List. Due to a substantial lack of access to data on chondrichthyan catches in the Mediterranean Sea, especially of threatened species, the implementation of conservation measures is extremely insufficient. This also concerns the Adriatic Sea. Here we present a detailed and up-to-date assessment of the species occurring in Croatian waters, as the last checklist of chondrichthyans in Croatian waters was conducted in 2009. Occurrence records from historical data, literature and citizen science information have been compiled in order to present a comprehensive list of species occurrences. We found 54 chondrichthyan species between 1822 and 2022, consisting of a single chimaera, 23 rays and skates, and 30 shark species. Here, four additional species are listed but are considered doubtful. Five species are reported here for the first time for Croatian waters that were not listed in the survey from 2009. Nearly one-third of the species reported here are critically endangered in the entire Mediterranean Sea, based on the IUCN Red List. Additionally, we revisited the Croatian records of the sandtiger shark Carcharias taurus Rafinesque, 1810 and discussed its potential confusion with the smalltooth sandtiger shark Odontaspis ferox (Risso, 1810). Our results thus provide novel insights into the historical and current distribution patterns of chondrichthyan fishes in the Croatian Sea and provide a basis for further research as well as conservation measures.
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Affiliation(s)
- Pia F. Balàka
- Department of Palaeontology, University of Vienna, Josef-Holaubek-Platz 2 (UZA II), 1090 Vienna, Austria
| | - Pero Ugarković
- World Wide Fund for Nature Adria (WWF Adria), Gundulićeva 63, 10 000 Zagreb, Croatia
| | - Julia Türtscher
- Department of Palaeontology, University of Vienna, Josef-Holaubek-Platz 2 (UZA II), 1090 Vienna, Austria
- Vienna Doctoral School of Ecology and Evolution (VDSEE), University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria
| | - Jürgen Kriwet
- Department of Palaeontology, University of Vienna, Josef-Holaubek-Platz 2 (UZA II), 1090 Vienna, Austria
- Vienna Doctoral School of Ecology and Evolution (VDSEE), University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria
| | - Simone Niedermüller
- World Wide Fund for Nature Mediterranean Marine Initiative (WWF MMI), Via Po 25/c, 00161 Rome, Italy
| | - Patrik Krstinić
- World Wide Fund for Nature Adria (WWF Adria), Gundulićeva 63, 10 000 Zagreb, Croatia
| | - Patrick L. Jambura
- Department of Palaeontology, University of Vienna, Josef-Holaubek-Platz 2 (UZA II), 1090 Vienna, Austria
- Vienna Doctoral School of Ecology and Evolution (VDSEE), University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria
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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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Gorini T, Mezzasalma V, Deligia M, De Mattia F, Campone L, Labra M, Frigerio J. Check Your Shopping Cart: DNA Barcoding and Mini-Barcoding for Food Authentication. Foods 2023; 12:2392. [PMID: 37372604 DOI: 10.3390/foods12122392] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 06/07/2023] [Accepted: 06/14/2023] [Indexed: 06/29/2023] Open
Abstract
The molecular approach of DNA barcoding for the characterization and traceability of food products has come into common use in many European countries. However, it is important to address and solve technical and scientific issues such as the efficiency of the barcode sequences and DNA extraction methods to be able to analyze all the products that the food sector offers. The goal of this study is to collect the most defrauded and common food products and identify better workflows for species identification. A total of 212 specimens were collected in collaboration with 38 companies belonging to 5 different fields: seafood, botanicals, agrifood, spices, and probiotics. For all the typologies of specimens, the most suitable workflow was defined, and three species-specific primer pairs for fish were also designed. Results showed that 21.2% of the analyzed products were defrauded. A total of 88.2% of specimens were correctly identified by DNA barcoding analysis. Botanicals (28.8%) have the highest number of non-conformances, followed by spices (28.5%), agrifood (23.5%), seafood (11.4%), and probiotics (7.7%). DNA barcoding and mini-barcoding are confirmed as fast and reliable methods for ensuring quality and safety in the food field.
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Affiliation(s)
- Tommaso Gorini
- FEM2-Ambiente, Piazza della Scienza 2, 20126 Milano, Italy
| | | | - Marta Deligia
- Department of Scienze Agrarie, Forestali e Alimentari, University of Turin, Via Verdi 8, 10124 Torino, Italy
| | | | - Luca Campone
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milano, Italy
| | - Massimo Labra
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milano, Italy
| | - Jessica Frigerio
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milano, Italy
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8
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Mottola A, Piredda R, Lorusso L, Armani A, Di Pinto A. Preliminary study on species authentication in poultry meat products by next-generation sequencing. Food Control 2023. [DOI: 10.1016/j.foodcont.2022.109459] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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9
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Tellier JM, Winsmann B, Humphreys M, Minoudi S, Triantafyllidis A, Schultz ET. What Are You Doing Here? A Sculpin Endemic to Arkansas and Missouri (Cottus immaculatus) Appears in Connecticut. ICHTHYOLOGY & HERPETOLOGY 2023. [DOI: 10.1643/i2020078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Joshua M. Tellier
- Department of Ecology and Evolutionary Biology, University of Connecticut, U-3043, Storrs, Connecticut 06269-3043; (BW) brooke.
; and (ETS)
| | - Brooke Winsmann
- Department of Ecology and Evolutionary Biology, University of Connecticut, U-3043, Storrs, Connecticut 06269-3043; (BW) brooke.
; and (ETS)
| | - Michael Humphreys
- Fisheries Division, Connecticut Department of Energy and Environmental Protection, 54 Harris Rd., Litchfield, Connecticut 06759;
| | - Stella Minoudi
- Department of Genetics, Development and Molecular Biology, School of Biology, Aristotle University, 54124 Thessaloniki, Greece; (SM) ; and (AT)
| | - Alexandros Triantafyllidis
- Department of Genetics, Development and Molecular Biology, School of Biology, Aristotle University, 54124 Thessaloniki, Greece; (SM) ; and (AT)
| | - Eric T. Schultz
- Department of Ecology and Evolutionary Biology, University of Connecticut, U-3043, Storrs, Connecticut 06269-3043; (BW) brooke.
; and (ETS)
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10
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Frigerio J, Gorini T, Palumbo C, De Mattia F, Labra M, Mezzasalma V. A Fast and Simple DNA Mini-barcoding and RPA Assay Coupled with Lateral Flow Assay for Fresh and Canned Mackerel Authentication. FOOD ANAL METHOD 2023; 16:426-435. [PMID: 36530851 PMCID: PMC9734502 DOI: 10.1007/s12161-022-02429-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2022] [Accepted: 11/28/2022] [Indexed: 12/12/2022]
Abstract
Nowadays, food authentication is more and more required given its relevance in terms of quality and safety. The seafood market is heavily affected by mislabelling and fraudulent substitutions/adulterations, especially for processed food products such as canned food items, due to the loss of morphological features. This study aims to develop new assays based on DNA to identify fresh mackerel (Scomber spp.) and commercial products. A new primer pair was de novo designed on the 5S rRNA gene and non-transcribed spacer (NTS), identifying a DNA mini-barcoding region suitable for species identification of processed commercial products. Moreover, to offer a fast and low-cost analysis, a new assay based on recombinase polymerase amplification (RPA) was developed for the identification of fresh 'Sgombro' (Scomber scombrus) and 'Lanzardo o Occhione' (Scomber japonicus and Scomber colias), coupled with the lateral flow visualisation for the most expensive species (Scomber scombrus) identification. This innovative portable assay has great potential for supply chain traceability in the seafood market. Graphical Abstract Supplementary Information The online version contains supplementary material available at 10.1007/s12161-022-02429-6.
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Affiliation(s)
- Jessica Frigerio
- FEM2-Ambiente, Piazza Della Scienza 2, I-20126 Milan, Italy
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, FEM2-Ambiente, Piazza Della Scienza 2, I-20126 Milan, Italy
| | - Tommaso Gorini
- FEM2-Ambiente, Piazza Della Scienza 2, I-20126 Milan, Italy
| | - Cassandra Palumbo
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, FEM2-Ambiente, Piazza Della Scienza 2, I-20126 Milan, Italy
| | | | - Massimo Labra
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, FEM2-Ambiente, Piazza Della Scienza 2, I-20126 Milan, Italy
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11
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Sharrad AE, Reis-Santos P, Austin J, Gillanders BM. Umbrella terms conceal the sale of threatened shark species: A DNA barcoding approach. Food Control 2023. [DOI: 10.1016/j.foodcont.2023.109606] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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12
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Asorey CM, Jilberto F, Haase I, Schubbert R, Angélica Larraín M, Araneda C. Comparison of two commercial methods for smooth-shelled mussels ( Mytilus spp.) species identification. FOOD CHEMISTRY. MOLECULAR SCIENCES 2022; 5:100121. [PMID: 35865713 PMCID: PMC9294527 DOI: 10.1016/j.fochms.2022.100121] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Revised: 06/14/2022] [Accepted: 07/09/2022] [Indexed: 06/15/2023]
Abstract
Seafood international trade has increased the labeling requirements in standards and regulations to include product information that enable traders and consumers to make informed choices. The European Union (EU) Regulation No. 1379/2013 imposes the declaration of an official commercial designation and scientific names for all the fishery and aquaculture products to be offered for sale to the final consumers. DNA analyses are used to enforce this regulation and to test authenticity in processed foods. We compared the performance of two mono-locus approaches for species identification (SI) in 61 Mytilus mussels: the high-resolution melting analysis of the polyphenolic adhesive protein gene and the partial sequencing of the histone H1C gene. The H1C sequences were analyzed with five different methods. Both approaches show discrepancies in the identification of putative hybrids (0.0 < κ < 0.687 and 0.0 < MCC < 0.724). Excluding putative hybrids, methods show substantial to perfect agreement (0.772 < κ < 1.0 and 0.783 < MCC < 1.0). This study highlights the need to use standardized molecular tools, as well as to use multi-locus methods for SI of Mytilus mussels in testing laboratories.
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Affiliation(s)
- Cynthia M. Asorey
- Food Quality Research Center. Universidad de Chile, Santiago, Chile
- Universidad Católica del Norte, Facultad de Ciencias del Mar, Sala de Colecciones Biológicas, Departamento de Biología Marina, Larrondo 1281, Coquimbo, Chile
| | - Felipe Jilberto
- Food Quality Research Center. Universidad de Chile, Santiago, Chile
- Universidad de Chile, Facultad de Ciencias Agronómicas, Departamento de Producción Animal, Avenida Santa Rosa 11315, La Pintana, Santiago, Chile
- Universidad de Chile, Facultad de Ciencias Químicas y Farmacéuticas, Departamento de Ciencia de los Alimentos y Tecnología Química, Santiago, Chile
| | - Ilka Haase
- Eurofins Genomics, Anzinger Str. 7a, 85560 Ebersberg, Germany
| | | | - María Angélica Larraín
- Food Quality Research Center. Universidad de Chile, Santiago, Chile
- Universidad de Chile, Facultad de Ciencias Químicas y Farmacéuticas, Departamento de Ciencia de los Alimentos y Tecnología Química, Santiago, Chile
| | - Cristián Araneda
- Food Quality Research Center. Universidad de Chile, Santiago, Chile
- Universidad de Chile, Facultad de Ciencias Agronómicas, Departamento de Producción Animal, Avenida Santa Rosa 11315, La Pintana, Santiago, Chile
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13
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Nascimento BM, de Paula TS, Brito PMM. DNA barcode of tilapia fish fillet from the Brazilian market and a standardized COI haplotyping for molecular identification of Oreochromis spp. (Actinopterygii, Cichlidae). FORENSIC SCIENCE INTERNATIONAL: ANIMALS AND ENVIRONMENTS 2022. [DOI: 10.1016/j.fsiae.2022.100059] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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14
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Mislabeling in seafood products sold on the Italian market: A systematic review and meta-analysis. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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15
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Mottola A, Piredda R, Catanese G, Giorelli F, Cagnazzo G, Ciccarese G, Dambrosio A, Quaglia NC, Di Pinto A. DNA metabarcoding for identification of species used in fish burgers. Ital J Food Saf 2022; 11:10412. [PMID: 36120526 PMCID: PMC9472284 DOI: 10.4081/ijfs.2022.10412] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Accepted: 05/23/2022] [Indexed: 01/04/2023] Open
Abstract
The absence of morphological identification characters, together with the complexity of the fish supply chain make processed seafood vulnerable to cases of species substitution. Therefore, the authentication and the traceability of such products play a strategic role in ensuring quality and safety. The aim of the present study was to detect species used in the production of multi-species fish burgers and to evaluate mislabelling rates, using a DNA metabarcoding approach by sequencing a fragment of the 16S rRNA mitochondrial gene. The study highlighted the presence of 16 marine and 2 mammalian taxa with an overall mislabelling rate of 80%, including cases of species substitution, the undeclared presence of molluscs and of taxa whose use is not permitted by current Italian legislation. The presence of swine DNA as well as the inclusion of undeclared taxa potentially causing allergies raise concerns regarding consumer safety and protection regarding ethical or religious issues. Overall, the study shows that the application of DNA metabarcoding is a promising approach for successfully enforcing traceability systems targeting multi-species processed food and for supporting control activities, as a guarantee of an innovative food safety management system.
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16
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Dawan J, Ahn J. Application of DNA barcoding for ensuring food safety and quality. Food Sci Biotechnol 2022; 31:1355-1364. [PMID: 36060568 PMCID: PMC9433498 DOI: 10.1007/s10068-022-01143-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Revised: 06/29/2022] [Accepted: 07/18/2022] [Indexed: 11/29/2022] Open
Abstract
With increasing international food trade, food quality and safety are high priority worldwide. The consumption of contaminated and adulterated food can cause serious health problems such as infectious diseases and allergies. Therefore, the authentication and traceability systems are needed to improve food safety. The mitochondrial DNA can be used for species authentication of food and food products. Effective DNA barcode markers have been developed to correctly identify species. The US FDA approved to the use of DNA barcoding for various food products. The DNA barcoding technology can be used as a regulatory tool for identification and authenticity. The application of DNA barcoding can reduce the microbiological and toxicological risks associated with the consumption of food and food products. DNA barcoding can be a gold-standard method in food authenticity and fraud detection. This review describes the DNA barcoding method for preventing food fraud and adulteration in meat, fish, and medicinal plants.
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17
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Berio F, Bayle Y, Baum D, Goudemand N, Debiais-Thibaud M. Hide and seek shark teeth in Random Forests: machine learning applied to Scyliorhinus canicula populations. PeerJ 2022; 10:e13575. [PMID: 35811817 PMCID: PMC9261926 DOI: 10.7717/peerj.13575] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Accepted: 05/22/2022] [Indexed: 01/17/2023] Open
Abstract
Shark populations that are distributed alongside a latitudinal gradient often display body size differences at sexual maturity and vicariance patterns related to their number of tooth files. Previous works have demonstrated that Scyliorhinus canicula populations differ between the northeastern Atlantic Ocean and the Mediterranean Sea based on biological features and genetic analysis. In this study, we sample more than 3,000 teeth from 56 S. canicula specimens caught incidentally off Roscoff and Banyuls-sur-Mer. We investigate population differences based on tooth shape and form by using two approaches. Classification results show that the classical geometric morphometric framework is outperformed by an original Random Forests-based framework. Visually, both S. canicula populations share similar ontogenetic trends and timing of gynandric heterodonty emergence but the Atlantic population has bigger, blunter teeth, and less numerous accessory cusps than the Mediterranean population. According to the models, the populations are best differentiated based on their lateral tooth edges, which bear accessory cusps, and the tooth centroid sizes significantly improve classification performances. The differences observed are discussed in light of dietary and behavioural habits of the populations considered. The method proposed in this study could be further adapted to complement DNA analyses to identify shark species or populations based on tooth morphologies. This process would be of particular interest for fisheries management and identification of shark fossils.
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Affiliation(s)
- Fidji Berio
- Institut de Génomique Fonctionnelle de Lyon, École Normale Supérieure de Lyon, CNRS, UCBL, Lyon, France
- Institut des Sciences de l’Évolution de Montpellier, CNRS, IRD, EPHE, Université de Montpellier, Montpellier, France
| | - Yann Bayle
- Université de Bordeaux, Bordeaux INP, CNRS, LaBRI, Talence, France
| | - Daniel Baum
- Department of Visual and Data-Centric Computing, Zuse Institute Berlin, Berlin, Germany
| | - Nicolas Goudemand
- Institut de Génomique Fonctionnelle de Lyon, École Normale Supérieure de Lyon, CNRS, UCBL, Lyon, France
| | - Mélanie Debiais-Thibaud
- Institut des Sciences de l’Évolution de Montpellier, CNRS, IRD, EPHE, Université de Montpellier, Montpellier, France
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18
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Blockchain: An emerging novel technology to upgrade the current fresh fruit supply chain. Trends Food Sci Technol 2022. [DOI: 10.1016/j.tifs.2022.03.030] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
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19
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Liu B, Yang JW, Liu BS, Zhang N, Guo L, Guo HY, Zhang DC. Detection and identification of marine fish mislabeling in Guangzhou's supermarkets and sushi restaurants using DNA barcoding. J Food Sci 2022; 87:2440-2449. [PMID: 35438192 DOI: 10.1111/1750-3841.16150] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Revised: 02/28/2022] [Accepted: 03/21/2022] [Indexed: 12/28/2022]
Abstract
In this study, DNA barcoding was applied to identify the distinct species of fish products in Guangzhou supermarkets and sushi restaurants in order to confirm whether products were correctly labeled. Samples were analyzed using mitochondrial cytochrome C oxidase subunit I (CO I) gene as the target. Our results showed that the CO I gene of all 139 samples examined was successfully amplified by PCR. When sequenced, 30 samples (21.58%) were mislabeled as the wrong species, 11 samples had insufficient information provided on the label to determine if the labeling was correct (7.91%), and four samples failed sequencing (2.88%). We also found that the use of proper labels for fish products in sushi restaurants was higher than that in supermarkets. As a simple, rapid, and efficient technology, DNA barcoding can be widely used for species identification of fish products. Our work shows that regulation of the labeling of fish products, as we evaluated in Guangzhou and other markets in China, is needed on a global scale.
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Affiliation(s)
- Bo Liu
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China
| | - Jing-Wen Yang
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China
| | - Bao-Suo Liu
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China
| | - Nan Zhang
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China
| | - Liang Guo
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China
| | - Hua-Yang Guo
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China
| | - Dian-Chang Zhang
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture and Rural Affairs, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.,Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, China.,School of Life Science, Guangzhou University, Guangzhou, China.,Tropical Aquaculture Research and Development Center, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Sanya, China
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20
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Berba CMP, Matias AMA. State of biodiversity documentation in the Philippines: Metadata gaps, taxonomic biases, and spatial biases in the DNA barcode data of animal and plant taxa in the context of species occurrence data. PeerJ 2022; 10:e13146. [PMID: 35341040 PMCID: PMC8944339 DOI: 10.7717/peerj.13146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2021] [Accepted: 03/01/2022] [Indexed: 01/12/2023] Open
Abstract
Anthropogenic changes in the natural environment have led to alarming rates of biodiversity loss, resulting in a more urgent need for conservation. Although there is an increasing cognizance of the importance of incorporating biodiversity data into conservation, the accuracy of the inferences generated from these records can be highly impacted by gaps and biases in the data. Because of the Philippines' status as a biodiversity hotspot, the assessment of potential gaps and biases in biodiversity documentation in the country can be a critical step in the identification of priority research areas for conservation applications. In this study, we systematically assessed biodiversity data on animal and plant taxa found in the Philippines by examining the extent of metadata gaps, taxonomic biases, and spatial biases in DNA barcode data while using species occurrence data as a backdrop of the 'Philippines' biodiversity. These barcode and species occurrence datasets were obtained from public databases, namely: GenBank, Barcode of Life Data System and Global Biodiversity Information Facility. We found that much of the barcode data had missing information on either records and publishing, geolocation, or taxonomic metadata, which consequently, can limit the usability of barcode data for further analyses. We also observed that the amount of barcode data can be directly associated with the amount of species occurrence data available for a particular taxonomic group and location-highlighting the potential sampling biases in the barcode data. While the majority of barcode data came from foreign institutions, there has been an increase in local efforts in recent decades. However, much of the contribution to biodiversity documentation only come from institutions based in Luzon.
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21
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Piredda R, Mottola A, Cipriano G, Carlucci R, Ciccarese G, Di Pinto A. Next Generation Sequencing (NGS) approach applied to species identification in mixed processed seafood products. Food Control 2022. [DOI: 10.1016/j.foodcont.2021.108590] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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22
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Dufflocq P, Larraín MA, Araneda C. Species substitution and mislabeling in the swordfish (Xiphias gladius) market in Santiago, Chile: Implications in shark conservation. Food Control 2022. [DOI: 10.1016/j.foodcont.2021.108607] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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23
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Giagkazoglou Z, Griffiths AM, Imsiridou A, Chatzispyrou A, Touloumis K, Hebb JL, Mylona D, Malamidou AK, Apostolidi ED, Batjakas IΕ, Gubili C. Flying under the radar: DNA barcoding ray wings in Greece detects protected species and umbrella labelling terms. Food Control 2022. [DOI: 10.1016/j.foodcont.2021.108517] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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24
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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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25
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Zhang X, Armani A, Wen J, Giusti A, Zhao J, Li X. DNA barcoding for the identification of shark lips (鱼唇): A nationwide survey for analyzing a never investigated product in the Chinese market. Food Control 2021. [DOI: 10.1016/j.foodcont.2021.108075] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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26
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Bioinformatics Approach to Mitigate Mislabeling in EU Seafood Market and Protect Consumer Health. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2021; 18:ijerph18147497. [PMID: 34299949 PMCID: PMC8305968 DOI: 10.3390/ijerph18147497] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/05/2021] [Revised: 07/08/2021] [Accepted: 07/09/2021] [Indexed: 11/17/2022]
Abstract
Fisheries products are some of the most traded commodities world-wide and the potential for fraud is a serious concern. Fish fraud represents a threat to human health and poses serious concerns due to the consumption of toxins, highly allergenic species, contaminates or zoonotic parasites, which may be present in substituted fish. The substitution of more expensive fish by cheaper species, with similar morphological characteristics but different origins, reflects the need for greater transparency and traceability upon which which the security of the entire seafood value-chain depends. Even though EU regulations have made significant progress in consumer information by stringent labelling requirements, fraud is still widespread. Many molecular techniques such as DNA barcoding provide valuable support to enhance the Common Fisheries Policy (CFP) in the protection of consumer interests by unequivocally detecting any kind of fraud. This paper aims to highlight both the engagement of EU fishery policy and the opportunity offered by new biotechnology instruments to mitigate the growing fraud in the globalized fish market and to enforce the food security system to protect consumers' health. In this paper, after a presentation of EU rules on fish labeling and a general overview on the current state of the global fish market, we discuss the public health implications and the opportunities offered by several techniques based on genetics, reporting a case study to show the efficacy of the DNA barcoding methodology in assessing fish traceability and identification, comparing different species of the Epinephelus genus, Mottled Grouper (Mycteroperca rubra) and Wreckfish (Polyprion americanus), often improperly sold with the commercial name of "grouper".
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27
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Filonzi L, Vaghi M, Ardenghi A, Rontani PM, Voccia A, Nonnis Marzano F. Efficiency of DNA Mini-Barcoding to Assess Mislabeling in Commercial Fish Products in Italy: An Overview of the Last Decade. Foods 2021; 10:foods10071449. [PMID: 34206502 PMCID: PMC8305242 DOI: 10.3390/foods10071449] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 06/07/2021] [Accepted: 06/15/2021] [Indexed: 11/24/2022] Open
Abstract
The problem of fish traceability in processed products is still an important issue in food safety. Major attention is nowadays dedicated to consumer health and prevention of possible frauds regulated by national and international laws. For this reason, a technical approach is fundamental in revealing mislabeling at different levels. In particular, the use of genetic markers has been standardized and DNA barcoding is considered the gold-standard strategy to examine and prevent species substitution. Considering the richness of available DNA databases, it is nowadays possible to rapidly reach a reliable taxonomy at the species level. Among different approaches, an innovative method based on DNA mini barcoding has recently been proposed at an international level. Starting from this evidence, we herein illustrate an investigation dealing with the evolution of this topic in Italy over the last decade. The molecular analysis of 71 commercial fish samples based on mini-COI sequencing with two different primer sets reached an amplification success rate of 87.3 and 97.2%. The investigation revealed four major frauds (5.8%) and four minor ones (5.8%). Results highlighted a decrease in incorrect labeling in Italy from 32% to 11.6% over the last decade, although a recurrent involvement of “endangered” species sensu IUCN was still observed.
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28
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Barbosa AJ, Sampaio I, Santos S. Re-visiting the occurrence of mislabeling in frozen "pescada-branca" (Cynoscion leiarchus and Plagioscion squamosissimus - Sciaenidae) sold in Brazil using DNA barcoding and octaplex PCR assay. Food Res Int 2021; 143:110308. [PMID: 33992328 DOI: 10.1016/j.foodres.2021.110308] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Revised: 02/12/2021] [Accepted: 03/05/2021] [Indexed: 10/21/2022]
Abstract
In Brazil, Cynoscion leiarchus and Plagioscion squamosissimus are the species allowed to be labeled as "pescada-branca". These species have high economic value, especially when sold in the form of fillets. Therefore, when morphological traits are removed, fish are highly prone to be substituted, which has been reported for species of the family Sciaenidae sold in Brazil, including "pescada-branca". We have sequenced 618 bp of the COI of 143 samples to re-evaluate the occurrence of substitutions in frozen "pescada-branca" marketed in Brazil. We observed more than 73% of mislabeling, with only 26.57% being P. squamosissimus, and none, C. leiarchus. In general, the substitutes were closely related Sciaenidae, but cheaper species, which indicates commercial fraud. Based on these results we used 1.2 kb of COI to develop an octaplex PCR assay that unequivocally identified the target species and six substitute species through the banding pattern. Specific reverse primers combined with a universal forward primer were used in the protocol and identified the species C. leiarchus (~290 bp), N. microps (~340 bp), M. ancylodon (~470 bp), C. acoupa (~540 bp), C. microlepidotus (~850 bp), P. auratus (~950 bp), C. virescens (~1050 bp), and P. squamosissimus (~1140 bp). The DNA barcoding and the multiplex PCR were accurate and specific to authenticate processed products labeled as "pescada-branca". The multiplex assay constitutes a cost-effective alternative for the authentication of these products and other sciaenids. Additionally, we suggest that the multiplex assay can be adopted by both companies and regulatory agencies to prevent commercial fraud in the marketing of processed fishery products in Brazil and other countries where these products are commercialized.
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Affiliation(s)
- Andressa Jisely Barbosa
- Laboratory of Fish Microbiology, Institute of Coastal Studies, Federal University of Para, Alameda Leandro Ribeiro s/n, 68600-000 Braganca, Para, Brazil
| | - Iracilda Sampaio
- Laboratory of Genetics and Molecular Biology, Institute of Coastal Studies, Federal University of Para, Alameda Leandro Ribeiro s/n, 68600-000 Braganca, Para, Brazil.
| | - Simoni Santos
- Laboratory of Fish Microbiology, Institute of Coastal Studies, Federal University of Para, Alameda Leandro Ribeiro s/n, 68600-000 Braganca, Para, Brazil.
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29
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Species substitutions revealed through genotyping: Implications of traceability limitations and unregulated fishing. Food Control 2021. [DOI: 10.1016/j.foodcont.2020.107779] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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30
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Xu W, Fu M, Huang M, Cui X, Li Y, Cao M, Wang L, Xiong X, Xiong X. Duplex real-time PCR combined with melting curve analysis for rapid detection of Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss). J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2020.103765] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
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31
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Wang N, Xing RR, Zhou MY, Sun RX, Han JX, Zhang JK, Zheng WJ, Chen Y. Application of DNA barcoding and metabarcoding for species identification in salmon products. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2021; 38:754-768. [PMID: 33783328 DOI: 10.1080/19440049.2020.1869324] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Mislabelling is a significant manifestation of food fraud. Traditional Sanger sequencing technology is the gold standard for seafood species identification. However, this method is not suitable for analysing processed samples that may contain more than one species. This study tested the feasibility of next-generation sequencing in identifying mixed salmon products. Salmon samples containing up to eight species were amplified using 16S rRNA mini-barcode primers, and sequenced on an Illumina HiSeq2500 platform. All species were accurately identified, and mixtures as low as 1% (w/w) could be detected. Furthermore, this study conducted a market survey of 32 products labelled as salmon. For pure and mixed fish products, Sanger and next-generation sequencing techniques were respectively used for species identification, and for NGS results, we also used real-time PCR method to cross-validate the mixed products to further verify the accuracy of the DNA metabarcoding technology established in this study. DNA barcoding and metabarcoding of commercial salmon food products revealed the presence of mislabelling in 16 of 32 (50%) samples. The developed DNA barcoding and metabarcoding methods are useful for the identification of salmon species in food and can be used for quality control of various types of salmon products.
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Affiliation(s)
- Nan Wang
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China
| | - Ran-Ran Xing
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China
| | - Meng-Yue Zhou
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China.,College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Rui-Xue Sun
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China.,College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Jian-Xun Han
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China
| | - Jiu-Kai Zhang
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China
| | - Wen-Jie Zheng
- Tianjin Key Laboratory of Animal and Plant Resistance, Tianjin Normal University, Tianjin, China
| | - Ying Chen
- Agro-product Safety Research Center, Chinese Academy of Inspection and Quarantine, Beijing, China
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32
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van Bemmelen van der Plaat A, van Treuren R, van Hintum TJL. Reliable genomic strategies for species classification of plant genetic resources. BMC Bioinformatics 2021; 22:173. [PMID: 33789577 PMCID: PMC8011391 DOI: 10.1186/s12859-021-04018-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2020] [Accepted: 02/11/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND To address the need for easy and reliable species classification in plant genetic resources collections, we assessed the potential of five classifiers (Random Forest, Neighbour-Joining, 1-Nearest Neighbour, a conservative variety of 3-Nearest Neighbours and Naive Bayes) We investigated the effects of the number of accessions per species and misclassification rate on classification success, and validated theirs generic value results with three complete datasets. RESULTS We found the conservative variety of 3-Nearest Neighbours to be the most reliable classifier when varying species representation and misclassification rate. Through the analysis of the three complete datasets, this finding showed generic value. Additionally, we present various options for marker selection for classification taks such as these. CONCLUSIONS Large-scale genomic data are increasingly being produced for genetic resources collections. These data are useful to address species classification issues regarding crop wild relatives, and improve genebank documentation. Implementation of a classification method that can improve the quality of bad datasets without gold standard training data is considered an innovative and efficient method to improve gene bank documentation.
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Affiliation(s)
| | - Rob van Treuren
- Centre for Genetic Resources, Wageningen University and Research, P.O. Box 16, 6700 AA, Wageningen, The Netherlands
| | - Theo J L van Hintum
- Centre for Genetic Resources, Wageningen University and Research, P.O. Box 16, 6700 AA, Wageningen, The Netherlands
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Ferrari A, Di Crescenzo S, Cariani A, Crobe V, Benvenuto A, Piattoni F, Mancusi C, Bonnici L, Bonello JJ, Schembri PJ, Serena F, Massi D, Titone A, Tinti F. Puzzling over spurdogs: molecular taxonomy assessment of the Squalus species in the Strait of Sicily. THE EUROPEAN ZOOLOGICAL JOURNAL 2021. [DOI: 10.1080/24750263.2020.1849436] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
Affiliation(s)
- A. Ferrari
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
| | - S. Di Crescenzo
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
| | - A. Cariani
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
| | - V. Crobe
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
| | - A. Benvenuto
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
| | - F. Piattoni
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
| | - C. Mancusi
- Environmental Protection Agency of Tuscany Region (ARPAT), Livorno, Italy
| | - L. Bonnici
- Department of Biology, University of Malta, Msida, Malta
| | - J. J. Bonello
- Department of Biology, University of Malta, Msida, Malta
| | - P. J. Schembri
- Department of Biology, University of Malta, Msida, Malta
| | - F. Serena
- Institute for Marine Biological Resources and Biotechnologies (IRBIM), National Research Council – (CNR), Mazara del Vallo, Italy
| | - D. Massi
- Institute for Marine Biological Resources and Biotechnologies (IRBIM), National Research Council – (CNR), Mazara del Vallo, Italy
| | - A. Titone
- Institute for Marine Biological Resources and Biotechnologies (IRBIM), National Research Council – (CNR), Mazara del Vallo, Italy
| | - F. Tinti
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, Ravenna, Italy
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Nehal N, Choudhary B, Nagpure A, Gupta RK. DNA barcoding: a modern age tool for detection of adulteration in food. Crit Rev Biotechnol 2021; 41:767-791. [PMID: 33530758 DOI: 10.1080/07388551.2021.1874279] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Globalization of the food trade requires precise and exact information about the origin, methods of production, transformation technologies, authentication, and the traceability of foodstuffs. New challenges in food supply chains such as deliberate fraudulent substitution, tampering or mislabeling of food and its ingredients or food packaging incapacitates the market and eventually the national economy. Currently, no proper standards have been established for the authentication of most of the food materials. However, in order to control food fraud, various robust and cost-effective technologies have been employed, like a spectrophotometer, GC-MS, HPLC, and DNA barcoding. Among these techniques, DNA barcoding is a biotechnology advantage with the principle of using 400-800 bp long standardized unique DNA sequences of mitochondrial (e.g. COI) or plastidial (e.g. rbcL) of nuclear origin (e.g. ITS) to analyze and classify the food commodities. This review covers several traded food commodities like legumes, seafood, oils, herbal products, spices, fruits, cereals, meat, and their unique barcodes which are critically analyzed to detect adulteration or fraud. DNA barcoding is a global initiative and it is being accepted as a global standard/marker for species identification or authentication. The research laboratories and industries should collaborate to realize its potential in setting standards for quality assurance, quality control, and food safety for different food products.
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Affiliation(s)
- Nazish Nehal
- University School of Biotechnology, Guru Gobind Singh Indraprastha University, Dwarka, India
| | - Bharti Choudhary
- School of Studies in Biotechnology, Pt. Ravi Shankar Shukla University, Raipur, India
| | - Anand Nagpure
- Biology Division, State Forensic Science Laboratory, Bhopal, India
| | - Rajinder K Gupta
- Department of Applied Chemistry, Delhi Technological University, Delhi, India
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Tatulli G, Cecere P, Maggioni D, Galimberti A, Pompa PP. A Rapid Colorimetric Assay for On-Site Authentication of Cephalopod Species. BIOSENSORS-BASEL 2020; 10:bios10120190. [PMID: 33255443 PMCID: PMC7760856 DOI: 10.3390/bios10120190] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/19/2020] [Revised: 11/11/2020] [Accepted: 11/19/2020] [Indexed: 11/16/2022]
Abstract
A colorimetric assay, exploiting the combination of loop-mediated isothermal amplification (LAMP) with DNA barcoding, was developed to address the authentication of some cephalopod species, a relevant group in the context of seafood traceability, due to the intensive processing from the fishing sites to the shelf. The discriminating strategy relies on accurate design of species-specific LAMP primers within the conventional 5' end of the mitochondrial COI DNA barcode region and allows for the identification of Loligo vulgaris among two closely related and less valuable species. The assay, coupled to rapid genomic DNA extraction, is suitable for large-scale screenings and on-site applications due to its easy procedures, with fast (30 min) and visual readout.
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Affiliation(s)
- Giuseppina Tatulli
- Istituto Italiano di Tecnologia, Nanobiointeractions&Nanodiagnostics, Via Morego 30, 16163 Genova, Italy; (G.T.); (P.C.)
| | - Paola Cecere
- Istituto Italiano di Tecnologia, Nanobiointeractions&Nanodiagnostics, Via Morego 30, 16163 Genova, Italy; (G.T.); (P.C.)
| | - Davide Maggioni
- Department of Earth and Environmental Sciences (DISAT), University of Milano-Bicocca, P.za Della Scienza 1, 20126 Milan, Italy;
- Marine Research and High Education (MaRHE) Center, University of Milano-Bicocca, Faafu Magoodhoo 12030, Maldives
| | - Andrea Galimberti
- ZooPlantLab, Department of Biotechnology and Biosciences, University of Milano-Bicocca, P.za Della Scienza 2, 20126 Milan, Italy
- Correspondence: (A.G.); (P.P.P.)
| | - Pier Paolo Pompa
- Istituto Italiano di Tecnologia, Nanobiointeractions&Nanodiagnostics, Via Morego 30, 16163 Genova, Italy; (G.T.); (P.C.)
- Correspondence: (A.G.); (P.P.P.)
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Biffi D, López-Mobilia A, Kelez S, Williams DA, Chumchal MM, Weinburgh M. Mislabelling and high mercury content hampers the efforts of market-based seafood initiatives in Peru. Sci Rep 2020; 10:20390. [PMID: 33230206 PMCID: PMC7683551 DOI: 10.1038/s41598-020-77338-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Accepted: 11/06/2020] [Indexed: 11/09/2022] Open
Abstract
Peru is experiencing a "gastronomic boom" that is increasing the demand for seafood. We investigated two implicit assumptions of two popular sustainable seafood consumer-based initiatives: (1) seafood is labelled correctly, and (2) the recommended species are healthy for consumers. We used DNA barcoding to determine the taxonomic identity of 449 seafood samples from markets and restaurants and analysed the concentration of total mercury (THg) in a sub-sample (271 samples) of these. We found that a third of seafood is mislabelled and that over a quarter of all samples had mercury levels above the upper limit recommended by the US EPA (300 ng/g ww). Additionally, 30% of samples were threatened and protected species. Mislabelling often occurred for economic reasons and the lack of unique common names. Mislabelled samples also had significantly higher mercury concentrations than correctly labelled samples. The "best choice" species compiled from two sustainable seafood guides had less mislabelling, and when identified correctly through DNA barcoding, had on average lower mercury than the other species. Nevertheless, some high mercury species are included in these lists. Mislabelling makes the efforts of seafood campaigns less effective as does the inclusion of threatened species and species high in mercury.
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Affiliation(s)
- Daniella Biffi
- Andrews Institute of Mathematics & Science Education, Texas Christian University, Fort Worth, 76129, USA. .,ecOceánica, Lima, Peru.
| | | | | | - Dean A Williams
- Department of Biology, College of Science and Engineering, Fort Worth, 76129, USA
| | - Matthew M Chumchal
- Department of Biology, College of Science and Engineering, Fort Worth, 76129, USA
| | - Molly Weinburgh
- Andrews Institute of Mathematics & Science Education, Texas Christian University, Fort Worth, 76129, USA
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Barbosa AJ, Sampaio I, da Silva EM, Alcântara JVL, Santos S. Molecular authentication by DNA barcoding and multiplex PCR assay reveals mislabeling and commercial fraud of the Acoupa weakfish (Cynoscion acoupa), an economically important sciaenid marketed in Brazil. Food Control 2020. [DOI: 10.1016/j.foodcont.2020.107351] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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Tiktak GP, Butcher D, Lawrence PJ, Norrey J, Bradley L, Shaw K, Preziosi R, Megson D. Are concentrations of pollutants in sharks, rays and skates (Elasmobranchii) a cause for concern? A systematic review. MARINE POLLUTION BULLETIN 2020; 160:111701. [PMID: 33181965 DOI: 10.1016/j.marpolbul.2020.111701] [Citation(s) in RCA: 46] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 09/18/2020] [Accepted: 09/19/2020] [Indexed: 06/11/2023]
Abstract
This review represents a comprehensive analysis on pollutants in elasmobranchs including meta-analysis on the most studied pollutants: mercury, cadmium, PCBs and DDTs, in muscle and liver tissue. Elasmobranchs are particularly vulnerable to pollutant exposure which may pose a risk to the organism as well as humans that consume elasmobranch products. The highest concentrations of pollutants were found in sharks occupying top trophic levels (Carcharhiniformes and Lamniformes). A human health risk assessment identified that children and adults consuming shark once a week are exposed to over three times more mercury than is recommended by the US EPA. This poses a risk to local fishing communities and international consumers of shark-based products, as well as those subject to the widespread mislabelling of elasmobranch products. Wider screening studies are recommended to determine the risk to elasmobranchs from emerging pollutants and more robust studies are recommended to assess the risks to human health.
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Affiliation(s)
- Guuske P Tiktak
- Ecology & Environment Research Centre, Manchester Metropolitan University, Manchester M1 5GD, UK.
| | - Demi Butcher
- School of Geography, Earth and Environmental Sciences, University of Plymouth, Drake Circus, Plymouth PL4 8AA, UK
| | - Peter J Lawrence
- Bangor University, School of Ocean Sciences, Askew St, Menai Bridge, Wales LL59 5AB, UK
| | - John Norrey
- Ecology & Environment Research Centre, Manchester Metropolitan University, Manchester M1 5GD, UK
| | - Lee Bradley
- Ecology & Environment Research Centre, Manchester Metropolitan University, Manchester M1 5GD, UK
| | - Kirsty Shaw
- Ecology & Environment Research Centre, Manchester Metropolitan University, Manchester M1 5GD, UK
| | - Richard Preziosi
- Ecology & Environment Research Centre, Manchester Metropolitan University, Manchester M1 5GD, UK
| | - David Megson
- Ecology & Environment Research Centre, Manchester Metropolitan University, Manchester M1 5GD, UK
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Xiong X, Huang M, Xu W, Li Y, Cao M, Xiong X. Rainbow trout (Oncorhynchus mykiss) identification in processed fish products using loop-mediated isothermal amplification and polymerase chain reaction assays. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2020; 100:4696-4704. [PMID: 32458471 DOI: 10.1002/jsfa.10526] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2020] [Revised: 05/18/2020] [Accepted: 05/26/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND Financial loss and health risk caused by the substitution of rainbow trout for other salmonid species have become a common issue around the world. The situation could be further exacerbated in China by the 'abused' common name of San Wen Yu (the corresponding Chinese ideogram ) for salmonids, considering the absence of a standardized naming system for seafood species. To prevent such episodes, the present study aimed to develop novel loop-mediated isothermal amplification (LAMP) and polymerase chain reaction (PCR) assays targeting the mitochondrial cytochrome b gene for rapid identification of rainbow trout in processed fish products. RESULTS Rainbow trout-specific primers (LAMP and PCR) were designed, and the specificity against 23 different fish species was confirmed. The minimum amount of detectable DNA for LAMP assay reached 500 pg, up to 10-fold less than for PCR assay. In addition to agarose gel electrophoresis, naked-eye inspection of the LAMP-positive samples using SYBR Green I under daylight or ultraviolet light was also validated. Finally, commercial San Wen Yu products made from rainbow trout could be accurately identified using the newly developed LAMP and PCR assays, further cross-confirmed by mini DNA barcoding and neighbor-joining dendrograms. CONCLUSIONS The LAMP and PCR assays established in the study allow a fast and accurate identification of rainbow trout in processed fish products. © 2020 Society of Chemical Industry.
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Affiliation(s)
- Xiong Xiong
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Manhong Huang
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Wenjie Xu
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Yi Li
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Min Cao
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Xiaohui Xiong
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
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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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Hrbek V, Zdenkova K, Jilkova D, Cermakova E, Jiru M, Demnerova K, Pulkrabova J, Hajslova J. Authentication of Meat and Meat Products Using Triacylglycerols Profiling and by DNA Analysis. Foods 2020; 9:foods9091269. [PMID: 32927765 PMCID: PMC7555453 DOI: 10.3390/foods9091269] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2020] [Revised: 09/06/2020] [Accepted: 09/08/2020] [Indexed: 11/16/2022] Open
Abstract
Two alternative, complementary analytical strategies were successfully used to identify the most common meat species—beef, pork and chicken—in meat products. The first innovative high-throughput approach was based on triacylglycerols fingerprinting by direct analysis in real time coupled with high-resolution mass spectrometry (DART–HRMS). The second was the classic commonly used DNA analysis based on the use of nuclear or mitochondrial DNA in multiplex polymerase chain reaction (mPCR). The DART–HRMS method represents a rapid, high throughput screening method and was shown to have a good potential for the authentication of meat products. Nevertheless, it should be noted that due to a limited number of samples in this pilot study, we present here a proof of concept. More samples must be analyzed by DART–HRMS to build a robust classification model applicable for reliable authentication. To verify the DART–HRMS results, all samples were analyzed by PCRs. Good compliance in samples classification was documented. In routine practice under these conditions, screening based on DART–HRMS could be used for identification of suspect samples, which could be then examined and validated by accurate PCRs. In this way, saving of both labor and cost could be achieved. In the final phase, commercially available meat products from the Czech market were tested using this new strategy. Canned meats—typical Czech sausages and luncheon meats, all with declared content of beef, pork and chicken meat—were used. Compliance with the label declaration was confirmed and no adulteration was found.
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Affiliation(s)
- Vojtech Hrbek
- Department of Food Analysis and Nutrition, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (V.H.); (M.J.); (J.P.); (J.H.)
| | - Kamila Zdenkova
- Department of Biochemistry and Microbiology, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (E.C.); (K.D.)
- Correspondence:
| | - Diliara Jilkova
- Department of Biochemistry and Microbiology, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (E.C.); (K.D.)
- Research Department, Food Research Institute Prague, Radiová 1285/7, 10231 Prague 10, Czech Republic;
| | - Eliska Cermakova
- Department of Biochemistry and Microbiology, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (E.C.); (K.D.)
| | - Monika Jiru
- Department of Food Analysis and Nutrition, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (V.H.); (M.J.); (J.P.); (J.H.)
| | - Katerina Demnerova
- Department of Biochemistry and Microbiology, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (E.C.); (K.D.)
| | - Jana Pulkrabova
- Department of Food Analysis and Nutrition, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (V.H.); (M.J.); (J.P.); (J.H.)
| | - Jana Hajslova
- Department of Food Analysis and Nutrition, University of Chemistry and Technology, Technicka 5, 166 28 Prague 6, Czech Republic; (V.H.); (M.J.); (J.P.); (J.H.)
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Liu K, Zhao S, Yu Z, Zhou Y, Yang J, Zhao R, Yang C, Ma W, Wang X, Feng M, Tang Y, Li K, Zhou C. Application of DNA barcoding in fish identification of supermarkets in Henan province, China: More and longer COI gene sequences were obtained by designing new primers. Food Res Int 2020; 136:109516. [PMID: 32846590 DOI: 10.1016/j.foodres.2020.109516] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2020] [Revised: 06/12/2020] [Accepted: 07/02/2020] [Indexed: 11/26/2022]
Abstract
In recent years, DNA barcode technology has been widely used in food identification, especially in the identification of fish. In China, there are few studies on the authenticity of fish products in Henan province of China. In this study, 179 fish samples were collected from supermarkets in Zhengzhou city and Xinxiang city in Henan province, China. COI gene sequences were obtained with PCR technology by designing specific primers and universal primers. COI gene sequences of all samples were obtained to identify species, which is used to investigate species substitution and mislabeling of the fish sold in the two regional markets. The molecular identification results showed that 28.49% (51/179) fish samples were not consistent with the labels. Substitution of high-price fish by low-price fish was prevalent. For example, halibut (Pleuronectiformes) and cod (Gadus) are replaced by striped catfish (Pangasianodon hypophthalmus), and some merchants label bighead carp (Hypophthalmichthys nobilis) as cod (Gadus), there are also accidental labeling errors (such as labels for greenfin horse-faced filefish (Thamnaconus septentrionalis) have been identified as grass carp (Ctenopharyngodon idella) and Wuchang bream (Megalobrama amblycephala) etc. Most of the samples labeled correctly are the fish of low economic value and the fresh fish. This study shows that almost all the commercial fish can be identified by COI DNA barcoding by newly designed primers. Finally, this study also gives a reference of real species of fish fillet in Henan province in China.
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Affiliation(s)
- Kaiying Liu
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Shan Zhao
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Zichen Yu
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Yuejuan Zhou
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Jinyi Yang
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Rui Zhao
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Changxing Yang
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Wenwen Ma
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Xi Wang
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Mengxia Feng
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Yongtao Tang
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Kui Li
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China
| | - Chuanjiang Zhou
- Engineering Technology Research Center of Henan Province for Aquatic Animal Cultivation, Engineering Lab of Henan Province for Aquatic Animal Disease Control, College of Fisheries, Henan Normal University, Xinxiang 453007, Henan, China.
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Determining the Authenticity of Shark Meat Products by DNA Sequencing. Foods 2020; 9:foods9091194. [PMID: 32872285 PMCID: PMC7555804 DOI: 10.3390/foods9091194] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Revised: 08/24/2020] [Accepted: 08/26/2020] [Indexed: 01/25/2023] Open
Abstract
Given that the global shark meat market is poised to grow in future years, the aim of this study was to use DNA sequencing of the cytochrome c oxidase I (COI) and NADH dehydrogenase subunit 2 (NADH2) mitochondrial genes to examine the market of shark meat products in Italy. This made it possible to analyze patterns of species utilization and commercialization of threatened, endangered and/or prohibited species, focusing on fraudulent activities in the shark food chain in order to propose seafood safety and environmental sustainability solutions. The study shows that the labeling of shark meat products generally lacks comprehensive information, thus making it difficult for consumers to make informed purchasing decisions and fails to comply with European Union (EU) legislation regarding seafood labelling. Molecular investigation reveals a high mislabeling rate (45.4%), highlighting widespread use of cheaper species either in order to replace species that are better known and more popular, or else in order to sell various threatened species. Considering that seafood mislabeling can circumvent the management of sustainable fisheries and facilitate Illegal, Unreported and Unregulated (IUU) fishing, the routine use of genetic analysis should be encouraged among control and enforcement agencies in order to implement effective management measures. This would help to build a species-specific reporting system for all catches, and enhance control measures, in order to prevent illegal activities connected with shark catches and trade around the world.
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Shi R, Huang M, Wang J, He C, Ying X, Xiong X, Xiong X. Molecular identification of dried squid products sold in China using DNA barcoding and SYBR green real time PCR. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2020; 37:1061-1074. [DOI: 10.1080/19440049.2020.1746411] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Rongzhen Shi
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Manhong Huang
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Jing Wang
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Chuhan He
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Xiaoguo Ying
- Zhejiang Provincial Key Laboratory of Health Risk Factors for Seafood, Department of Food Science and Pharmacy, Zhejiang Ocean University, Zhoushan, China
| | - Xiaohui Xiong
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
| | - Xiong Xiong
- College of Food Science and Light Industry, Nanjing Tech University, Nanjing, China
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Hsieh CH, Huang CG, Wu WJ, Wang HY. A rapid insect species identification system using mini-barcode pyrosequencing. PEST MANAGEMENT SCIENCE 2020; 76:1222-1227. [PMID: 31696604 DOI: 10.1002/ps.5674] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2019] [Revised: 10/31/2019] [Accepted: 11/04/2019] [Indexed: 06/10/2023]
Abstract
BACKGROUND Rapid and accurate species identification is not only important for biodiversity studies and pest quarantine and management, but in some cases may also influence the results of international trade negotiations. In this study, we developed a rapid species identification system for insects. RESULTS A universal DNA mini-barcode primer pair was designed to target ∼ 120 bp of the mitochondrial 16S rDNA gene. This primer set can amplify the targeted region from all 300 species of 26 insect orders tested as well as other classes of Arthropoda. Although we found no within-species variation in this region, it provided enough information to separate closely related species or species complexes, in particular Thrips spp. and Bemisia spp. By combining a quick DNA extraction method with pyrosequencing, we were able to generate DNA sequences and complete species identification within 5 h. CONCLUSION Mini-barcode pyrosequencing of 16S rDNA coupled with the GenBank database provides a rapid, accurate, and efficient species identification system. This system is therefore useful for biodiversity discovery, forensic identification, and quarantine control and management. © 2019 Society of Chemical Industry.
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Affiliation(s)
- Chia-Hung Hsieh
- Department of Forestry and Nature Conservation, Chinese Culture University, Taipei, Taiwan
| | - Chin-Gi Huang
- Department of Earth and Life Science, University of Taipei, Taipei, Taiwan
- National Mosquito-Borne Diseases Control Research Center, National Health Research Institutes, Miaoli, Taiwan
| | - Wen-Jer Wu
- Department of Entomology, National Taiwan University, Taipei, Taiwan
| | - Hurng-Yi Wang
- Graduate Institute of Clinical Medicine, National Taiwan University, Taipei, Taiwan
- Institute of Ecology and Evolutionary Biology, National Taiwan University, Taipei, Taiwan
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Xiong X, Yuan F, Huang M, Cao M, Xiong X. Development of a rapid method for codfish identification in processed fish products based on SYBR Green real‐time PCR. Int J Food Sci Technol 2020. [DOI: 10.1111/ijfs.14446] [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]
Affiliation(s)
- Xiong Xiong
- College of Food Science and Light Industry Nanjing Tech University Nanjing 211800 China
| | - Fangying Yuan
- College of Food Science and Light Industry Nanjing Tech University Nanjing 211800 China
| | - Manhong Huang
- College of Food Science and Light Industry Nanjing Tech University Nanjing 211800 China
| | - Min Cao
- College of Food Science and Light Industry Nanjing Tech University Nanjing 211800 China
| | - Xiaohui Xiong
- College of Food Science and Light Industry Nanjing Tech University Nanjing 211800 China
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Xiong X, Huang M, Xu W, Cao M, Li Y, Xiong X. Tracing Atlantic Salmon (Salmo salar) in Processed Fish Products Using the Novel Loop-Mediated Isothermal Amplification (LAMP) and PCR Assays. FOOD ANAL METHOD 2020. [DOI: 10.1007/s12161-020-01738-y] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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Zahn RJ, Silva AJ, Hellberg RS. Development of a DNA mini-barcoding protocol targeting COI for the identification of elasmobranch species in shark cartilage pills. Food Control 2020. [DOI: 10.1016/j.foodcont.2019.106918] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
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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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