Chapter 16
Species Identification of Seafood
LeeAnn Applewhite,
Rosalee Rasmussen,
Michael Morrissey,
Michael Morrissey
Food Innovation Center, FIC Experimental Station, Oregon State University, Portland, OR, USA
Search for more papers by this author
LeeAnn Applewhite,
Rosalee Rasmussen,
Michael Morrissey,
Michael Morrissey
Food Innovation Center, FIC Experimental Station, Oregon State University, Portland, OR, USA
Search for more papers by this author
Book Editor(s):Linda Ankenman Granata,
George J. Flick Jr.,
Roy E. Martin,
Linda Ankenman Granata
Food Science & Technology, Virginia Tech, Blacksburg, VA, USA
Search for more papers by this authorGeorge J. Flick Jr.
Food Science & Technology, Virginia Tech, Blacksburg, VA, USA
Search for more papers by this authorSummary
This chapter contains sections titled:
Significance of problem
Types of species substitution
Background
Comparison of protein- and DNA-based methods
DNA-based methods
General summary of DNA-based methods
Current regulatory activity
Current commercial applications
Online resources
Challenges and emerging trends
Conclusions
References
Further reading
Webliography
References
- Abercrombie D.L., S.C. Clarke, M.S. Shivji. 2005. Global-scale genetic identification of hammerhead sharks: application to assessment of the international fin trade and law enforcement. Conservation Genetics 6: 775– 788.
- Ahmed M.M.M., B.A. Ali, and S. El-ZaeemS. 2004. Application of RAPD markers in fish: part I - Some genera (Tilapia, Sarotherodon and Oreochromis) and species (Oreochromis aureus and Oreochromis niloticus) of tilapia. International Journal of Biotechnology 6: 86–93.
10.1504/IJBT.2004.004615 Google Scholar
- Akasaki T., T. Yanagimoto, K. Yamakami, H. Tomonaga, and S. Sato. 2006. Species identification and PCRRFLP analysis of cytochrome b gene in cod fish (order Gadiformes) products. Journal of Food Science 71(3): C190–C195.
- Ali B.A., T.H. Huang, D.N Qin, and X.M. Wang. 2004. A review of random amplified polymorphic DNA (RAPD) markers in fish research. Reviews in Fish Biology and Fisheries 14: 443–453.
- Applewhite L. and S. Bennett. 2008. Species identification programs for the seafood industry [abstract]. Presented at the 59th Pacific Fisheries Technologists Annual Meeting. February 3–6; San Francisco, CA.
- Apte, A. and S. Daniel. 2003. PCR primer design. In: PCR Primer: A Laboratory Manual, eds CW Dieffenbach, GS Dveksler, 2nd edn. Cold Spring Harbor, New York, pp. 61–74.
- Aranishi, F. 2005. Rapid PCR-RFLP method for discrimination of imported and domestic mackerel. Marine Biotechnology 7(6): 571–575.
- Aranishi, F. and T. Okimoto. 2004. PCR-based detection of allergenic mackerel ingredients in seafood. Journal of Genetics 83(2): 193–195.
- Aranishi, F., T. Okimoto, and S. Izumi. 2005a. Identification of gadoid species (Pisces, Gadidae) by PCR-RFLP analysis. Journal of Applied Genetics 46(1): 69–73.
- Aranishi, F., T. Okimoto, and M. Ohkubo. 2006. A shortcut DNA extraction from cod caviar. Journal of Science of Food and Agriculture 86: 425–428.
- Aranishi, F., T. Okimoto, M. Ohkubo, and S. Izumi. 2005b. Molecular identification of commercial spicy pollack roe products by PCR-RFLP analysis. Journal of Food Science 70(4): C235–C238.
- Arya, M., I.S. Shergill, M. Williamson, L. Gommersall, N. Arya, and H.R. PatelR. 2005. Basic principles of real-time quantitative PCR. Expert Review of Molecular Diagnostic 5(2): 209–219.
- Asensio, L. 2008. Application of multiplex PCR for the identification of grouper meals in the restaurant industry. Journal of Agricultural and Food Chemistry 47: 1046–1050.
- Asensio, L., I. Gonzalez, A. Fernandez, A. Cespedes, M.A. Rodriguez, P.E. Hernandez, T. Garcia, and R. Martin. 2001. Identification of Nile perch (Lates niloticus), grouper (Epinephelus guaza), and wreck fish (Polyprion americanus) fillets by PCR amplification of the 5S rDNA gene. Journal of AOAC International 84(3): 777–781.
- Bartlett, S.E. and W.S. Davidson. 1992. FINS (forensically informative nucleotide sequencing): a procedure for identifying the animal origin of biological specimens. BioTechniques 12(3): 408–411.
- Beacham, T.D., D.E. Hay, and K.D. Le. 2005. Population structure and stock identification of Eulachon (Thaleichthys pacificus), an anadromous smelt, in the Pacific Northwest. Marine Biotechnology 7(4): 363–372.
- Beacham, T.D., K.D. Le, and J.R. Candy. 2004. Population structure and stock identification of steelhead trout (Oncorhynchus mykiss) in British Columbia and the Columbia River based on microsatellite variation. Environmental Biology of Fishes 69: 95–109.
- Beacham, T.D., S. Pollard, and K.D. Le. 2000. Microsatellite DNA population structure and stock identification of steelhead trout (Oncorhynchus mykiss) in the Nass and Skeena rivers in northern British Columbia. Marine Biotechnology 2(6): 587–600.
- Bensch, S. and M. Akesson. 2005. Ten years of AFLP in ecology and evolution: why so few animals? Molecular Ecology 14(10): 2899–2914.
- Blears, M.J., S.A. De Grandis, H. Lee, and J.T. Trevors. 1998. Amplified fragment length polymorphism (AFLP): a review of the procedure and its applications. Journal of Industrial Microbiology and Biotechnology 21: 99–114.
- Borgo, R., C. Souty-Grosset, D. Bouchon, and L. Gomot. 1996. PCR-RFLP analysis of mitochondrial DNA for identification of snail meat species. Journal of Food Science 61(1): 1–4.
- Bossier, P. 1999. Authentication of seafood products by DNA patterns. Journal of Food Science 64(2): 189–193.
- Brown, B. and J. Epifanio. 2003. Nuclear DNA. In: Population Genetics: Principles and Applications for Fisheries Scientists, ed. E.M. Hallerman. American Fisheries Society, Bethesda, MD, pp. 101–123.
- Buck, G. 2007. Seafood Marketing: Combating Fraud and Deception. CRS Report for Congress. August 8, 2007. Order Code RL34124.
- Bucklin, K.A., M.A. Banks, and D. Hedgecock. 2007. Assessing genetic diversity of protected coho salmon (Oncorhynchus kisutch) populations in California. Canadian Journal of Fisheries and Aquatic Sciences 64(1): 30–42.
- Calo-Mata, P., C.G. Sotelo, R.I. Perez-Martin, H. Rehbein, G.L. Hold, V.J. Russell, S. Pryde, J. Quinteiro, M. ReyMendez, C. Rosa, and A.T. Santos. 2003. Identification of gadoid fish species using DNA-based techniques. European Food Research and Technology 217: 259–264.
- Carrera, E., T. Garcia, A. Cespedes, I. Gonzalez, A. Fernandez, L.M. Asensio, P.E. Hernandez, and R. Martin. 2000a. Differentiation of smoked Salmo salar, Oncorhynchus mykiss and Brama raii using the nuclear marker 5S rDNA. International Journal of Food Science & Technology 35: 401–406.
- Carrera, E., T. Garcia, A. Cespedes, I. Gonzalez, A. Fernandez, L.M. Asensio, P.E. Hernandez, and R. Martin. 2000b. Identification of smoked Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss) using PCR-restriction fragment length polymorphism of the p53 gene. Journal of AOAC International 83(2): 341–346.
- Carrera, E., T. Garcia, A. Cespedes, I. Gonzalez, A. Fernandez, P.E. Hernandez, and R. Martin. 1999a. PCRRFLP of the mitochondrial cytochrome oxidase gene: a simple method for discrimination between Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss). Journal of the Science of Food and Agriculture 79: 1654–1658.
- Carrera, E., T. Garcia, A. Cespedes, I. Gonzalez, A. Fernandez, P.E. Hernandez, and R. Martin. 1999b. Salmon and trout analysis by PCR-RFLP for identity authentication. Journal of Food Science 64(3): 410–413.
- Castillo, A.G., J.L. Martinez, and E. Garcia-Vazquez. 2003. Identification of Atlantic hake species by a simple PCR-based methodology employing microsatellite loci. Journal of Food Protection 66(11): 2130–2134.
- ‘Catfish Industry Presses Antidumping Case against Vietnamese Fish Imports’ The Catfish Journal. August 2002, Vol. XVI, p. 1.
- Cespedes, A., T. Garcia, E. Carrera, I. Gonzalez, A. Fernandez, L. Asensio, P.E. Hernandez, and R. Martin. 2000. Genetic differentiation between sole (Solea solea) and Greenland halibut (Reinhardtius hippoglossoides)by PCR-RFLP analysis of a 12S rRNA gene fragment. Journal of the Science of Food and Agriculture 80: 29–32.
- Cespedes, A., T. Garcia, E. Carrera, I. Gonzalez, A. Fernandez, P.E. Hernandez, and R. Martin. 1999. Identification of sole (Solea solea) and Greenland halibut (Reinhardtius hippoglossoides) by PCR amplification of the 5S rDNA gene. Journal of Agricultural and Food Chemistry 47(3): 1046–1050.
- Cespedes, A., T. Garcia, E. Carrera, I. Gonzalez, B. Sanz, P.E. Hernandez, and R. Martin. 1998a. Identification of flatfish species using polymerase chain reaction (PCR) amplification and restriction analysis of the cytochrome b gene. Journal of Food Science 63(2): 206–209.
- Cespedes, A., T. Garcia, E. Carrera, I. Gonzalez, B. Sanz, P.E. Hernandez, and R. Martin. 1998b. Polymerase chain reaction-restriction fragment length polymorphism analysis of a short fragment of the cytochrome b gene for identification of flatfish species. Journal of Food Protection 61(12): 1684–1685.
- Chakraborty, A., F. Aranishi, and Y. Iwatsuki. 2005. Molecular identification of hairtail species (Pisces: Trichiuridae) based on PCR-RFLP analysis of the mitochondrial 16S rRNA gene. Journal of Applied Genetics 46(4): 381–385.
- Chapela, M.J., C.G. Sotelo, P. Calo-Mata, R.I. Perez-Martin, H. Rehbein, G.L. Hold, J. Quinteiro, M. ReyMendez, C. Rosa, and A.T. Santos. 2002. Identification of cephalopod species (Ommastrephidae and Loliginidae) in seafood products by forensically informative nucleotide sequencing (FINS). Journal of Food Science 67(5): 1672–1676.
- Chapela, M.J., C.G. Sotelo, and R.I. Perez-Martin. 2003. Molecular identification of cephalopod species by FINS and PCR-RFLP of a cytochrome b gene fragment. European Food Research and Technology 217: 524–529.
- Chapela, M.J., C.G. Sotelo, R.I. Perez-Martin, M.A. Pardo, B. Perez-Villareal, P. Gilardi, and J. Riese. 2007. Comparison of DNA extraction methods from muscle of canned tuna for species identification. Food Control 18: 1211–1215.
- Chow, S., K. Nohara, T. Tanabe, T. Itoh, S. Tsuji, Y. Nishikawa, S. Uyeyanagi, and K. Uchikawa. 2003. Genetic and morphological identification of larval and small juvenile tunas (Pisces: Scombridae) caught by a mid-water trawl in the western Pacific. Bulletin of Fish-eries Research Agency 8: 1–14.
- Civera, T. 2003. Species identification and safety of fish products. Veterinary Research Communications 27: 481–489.
- Clarke, S.C., J.E. Magnussen, D.L. Abercrombie, M.K. McAllister, and M.S. Shivji. 2006. Identification of shark species composition and proportion in the Hong Kong shark fin market based on molecular genetics and trade records. Conservation Biology 20(1): 201–211.
- Comesana, A.S., P. Abella, and A. Sanjuan. 2003. Molecular identification of five commercial flatfish species by PCR-RFLP analysis of a 12S rRNA gene fragment. Journal of the Science of Food and Agriculture 83: 752–759.
- Dawnay, N., R. Ogden, R. McEwing, G.R. Carvalho, and R.S. Thorpe. 2007. Validation of the barcoding gene COI for use in forensic genetic species identification. Forensic Science International 173(1): 1–6.
- DeSalle, R., M.G. Egan, and M. Siddall. 2005. The unholy trinity: taxonomy, species delimitation and DNA bar-coding. Philosophical Transactions of the Royal Society B 360(1462): 1905–1916.
- Dooley, J.J. and S.D. Garrett. 2001. Development of meat speciation assays using the Agilent 2100 bioanalyser. Agilent technologies application note no 5988–4069EN.
- Dooley, J.J., S.D. Garrett, and H.M. Brown. 2003. Development of molecular markers suitable for the detection of olive oil adulteration with hazelnut oil. Final report for Food Standards Agency project no Q01060.
- Dooley, J.J., H.D. Sage, H.M. Brown, and S.D. Garrett. 2005a. Improved fish species identification by use of lab-on-a-chip technology. Food Control 16: 601–607.
- Dooley, J.J., H.D. Sage, M.A. Clarke, H.M. Brown HM, and S.DS. Garrett. 2005b. Fish species identification using PCR-RFLP analysis and lab-on-a-chip capillary electrophoresis: application to detect white fish species in food products and an interlaboratory study. Journal of Agricultural and Food Chemistry 53(9): 3348– 3357.
- Fernandez, A., T. Garcia, L. Asensio, M.A. Rodriguez, I. Gonzalez, A. Cespedes, P.E. Hernandez, and R. Martin. 2000. Identification of the clam species Ruditapes decussatus (grooved carpet shell), Venerupis pullastra (pullet carpet shell), and Ruditapes philippinarum (Japanese carpet shell) by PCR-RFLP. Journal of Agricultural and Food Chemistry 48(8): 3336–3341.
- Fernandez, A., T. Garcia, I. Gonzalez, L. Asensio, M.A. Rodriguez, P.E. Hernandez, and R. Martin. 2002. Polymerase chain reaction-restriction fragment length polymorphism analysis of a 16S rRNA gene fragment for authentication of four clam species. Journal of Food Protection 65(4): 692–695.
- Gil, L.A. 2007. PCR-based methods for fish and fishery products authentication. Trends in Food Science & Technology 18: 558–566.
- Gilliland, G., S. Perrin, K. Blanchard, and H.F. Bunn. 1990. Analysis of cytokine mRNA and DNA: detection and quantitation by competitive polymerase chain reaction. Proceedings of the National Academy of Sciences of the United States of America 87(7): 2725–2729.
- Gopalakrishnan, A., P.M. Abdul Muneer, K.K. Musammilu, K.K. Lal, D. Kapoor, and V. Mohindra. 2006. Primers from the orders Osteoglossiform and Siluri-form detect polymorphic microsatellite loci in suncatfish, Horabagrus brachysoma (Teleostei: Bagridae). Journal of Applied Ichthyology 22(5): 456–458.
- Greig, C., D.P. Jacobson, and M.A. Banks. 2003. New tetranucleotide microsatellites for fine-scale discrimination among endangered chinook salmon (Oncorhynchus tshawytscha). Molecular Ecology Notes 3(3): 376–379.
10.1046/j.1471-8286.2003.00455.x Google Scholar
- Greig, C., J.M. Robertson, and M.A. Banks. 2002. Rapid PCR-based species tests for threatened sympatric salmonids. Conservation Genetics 3: 83–86.
- Han. K. and B. Ely. 2002. Use of AFLP analyses to assess genetic variation in Morone and Thunnus species. Marine Biotechnology 4(2): 141–145.
- He, C., L. Chen, M. Simmons, P. Li, S. Kim, and Z.J. Liu. 2003. Putative SNP discovery in interspecific hybrids of catfish by comparative EST analysis. Animal Genetics 34(6): 445–448.
- Hebert, P.D.N., A. Cywinska, S.L. Ball, and J.R. deWaard. 2003a. Biological identifications through DNA bar-codes. Proceedings of the Royal Society of London B Biological Sciences 270: 313–321.
- Hebert, P.D.N., S. Ratnasingham, and J.R. deWaard. 2003b. Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species. Proceedings of the Royal Society of London B Biological Sciences 270: S596–S599.
- Hird, H.J., G.L. Hold, J. Chisholm, P. Reece, V.J. Russell, J. Brown, R. Goodier, and R. MacArthur. 2005. Development of a method for the quantification of haddock (Melanogrammus aeglefinus) in commercial products using real-time PCR. European Food Research and Technology 220: 633–637.
- Horstkotte, B. and H. Rehbein. 2003. Fish species identification by means of restriction fragment length polymorphism and high-performance liquid chromatography. Journal of Food Science 68(9): 2658– 2666.
- Hsieh, H.S., T. Chai, C.A. Cheng, Y.W. Hsieh, and D.F. Hwang. 2004. Application of DNA technique for identifying the species of different processed products of swordfish meat. Journal of Food Science 69(1): FCT1–FCT6.
- Hsieh, P., F. Chen, and M. Nur. (1997) Rapid Species Identification of Cooked Red Snapper Using Isoelectric Focusing. Journal of Food Science 62, 15–19.
- Hubner, P., E. Studer, and J. Luthy. 1999. Quantitative competitive PCR for the detection of genetically modified organisms in food. Food Control 10(6): 353– 358.
- Imai, H., J.H. Cheng, K. Hamasaki, and K.I. Numachi. 2004. Identification of four mud crab species (genus Scylla) using ITS-1 and 16S rDNA markers. Aquatic Living Resources 17: 31–34.
- Imsiridou, A., H. Hardy, N. Maudling, G. Amoutzias, J.M. Zaldivar Comenges. 2003. Web database of molecular genetic data from fish stocks. Journal of Heredity 94(3): 265–267.
- Itoi, S., M. Nakaya, G. Kaneko, H. Kondo, K. Sezaki, and S. Watabe. 2005. Rapid identification of eels Anguilla japonica and Anguilla anguilla by polymerase chain reaction with single nucleotide polymorphism-based specific probes. Fisheries Science 71: 1356–1364.
- Ivanova, N.V., T.S. Zemlak, R.H. Hanner, P.D.N. Hebert. 2007. Universal primer cocktails for fish DNA barcoding. Molecular Ecology Notes 7: 544–548.
- Jenneckens, I., J.N. Meyer, G. Horstgen-Schwark, B. May, M.L. Debus, H. Wedekind, and A. Ludwig. 2001. A fixed allele at microsatellite locus LS-39 exhibiting species-specificity for the black caviar producer Acipenser stellatus. Journal of Applied Ichthyology 17: 39–42.
- Jerome, M., C. Lemaire, V. Verrez-Bagnis, and M. Etienne. 2003. Direct sequencing method for species identification of canned sardine and sardine-type products. Journal of Agricultural and Food Chemistry 51(25): 7326–7332.
- Jones, B. 2008. A new bait-and-switch scam: fake grouper sandwiches. Miami Herald, May 13.
- Karaiskou, N., A.P. Apostolidis, A. Triantafyllidis, A. Kouvatsi and C. Triantaphyllidis. 2003. Genetic identification and phylogeny of three species of the genus Trachurus based on mitochondrial DNA analysis. Marine Biotechnology 5(5): 493–504.
- Klinbunga, S., P. Pripue, N. Khamnamtong, N. Puanglarp, A. Tassanakajon, P. Jarayabhand, I, Hirono, T. Aoki, and P. Menasveta. 2003. Genetic diversity and molecular markers of the tropical abalone (Haliotis asinina) in Thailand. Marine Biotechnology 5(5): 505–517.
- Kochzius, M., M. Nölte, H. Weber, N. Silkenbeumer, S. Hjörleifsdottir, G.O. Hreggvidsson, V. Marteinsson, K. Kappel, S. Planes, F. Tinti, A. Magoulas, E. Garcia Vazquez, C. Turan, C. Hervet, D. Campo Falgueras, A. Antoniou, M. Landi, and D. Blohm. 2008. DNA microarrays for identifying fishes. Marine Biotechnology 10: 207–217.
- Kyle, C.J. and C.C. Wilson. 2007. Mitochondrial DNA identification of game and harvested freshwater fish species. Forensic Science International 166(1): 68–76.
- Lai, R.Y., E.T. Lagally, S.H. Lee, H.T. Soh, K.W. Plaxco, and A.J. Heeger. 2006. Rapid, sequence-specific detection of unpurified PCR amplicons via a reusable, electro-chemical sensor. Proceedings of the National Academy of Sciences 103(11): 4017–4021.
- Lal, K.K., T. Chauhan, A. Mandal, R.K. Singh, L. Khulbe, A.G. Ponniah, and V. Mohindra. 2004. Identification of microsatellite DNA markers for population structure analysis in Indian major carp, Cirrhinus mrigala (Hamilton-Buchanan, 1982). Journal of Applied Ichthyology 20(2): 87–91.
- Laube, I., J. Zagon, and H. Broll. 2007a. Quantitative determination of commercially relevant species in foods by real-time PCR. International Journal of Food Science & Technology 42: 336–341.
- Laube, I., J. Zagon, A. Spiegelberg, A. Butschke, L.W. Kroh, and H. Broll. 2007b. Development and design of a ‘ready-to-use’ reaction plate for a PCR-based simultaneous detection of animal species in foods. International Journal of Food Science & Technology 42: 9–17.
- Lenstra, J.A. 2003. DNA methods for identifying plant and animal species in food. In: Lees M, editor. Food authenticity and traceability. Woodhead Publishing Limited, Cambridge, England, pp. 34–53.
10.1533/9781855737181.1.34 Google Scholar
- Li, L. and X. Guo. 2004. AFLP-based genetic linkage maps of the Pacific oyster Crassostrea gigas Thunberg. Marine Biotechnology 6(1): 26–36.
- Lin, W.F. and D.F. Hwang. 2007. Application of PCR-RFLP analysis on species identification of canned tuna. Food Control 18: 1050–1057.
- Liu, Z., A. Nichols, P. Li, and R.A. Dunham. 1998a. Inheritance and usefulness of AFLP markers in channel catfish (Ictalurus punctatus), blue catfish (I. furcatus), and their F1, F2, and backcross hybrids. Molecular & General Genetics 258(3): 260–268.
- Liu, Z.J. and J.F. Cordes. 2004. DNA marker technologies and their applications in aquaculture genetics. Aqua-culture 238: 1–37.
- Liu, Z.J., P. Li, B. Argue, and R. Dunham. 1998b. Inheritance of RAPD markers in channel catfish (Ictalurus punctatus), blue catfish (I. furcatus), and their F1, F2 and backcross hybrids. Animal Genetics 29: 58–62.
- Lockley, A.K. and R.G. Bardsley. 2000. DNA-based methods for food authentication. Trends in Food Science & Technology 11: 67–77.
- Lopez, I. and M.A. Pardo. 2005. Application of relative quantification TaqMan real-time polymerase chain reaction technology for the identification and quantification of Thunnus alalunga and Thunnus albacares. Journal of Agricultural and Food Chemistry 53(11): 4554–4560.
- Mabuchi, K., N. Okuda, T. Kokita, and M. Nishida. 2003. Genetic comparison of two color-morphs of Apogon properuptus from southern Japan. Ichthylogcal Research 50: 293–296.
- Mackie, I.M., S.E. Pryde, C. Gonzales-Sotelo, I. Medina, R.I. Perez-Martin, J. Quinteiro, M. Rey-Mendez, and H. Rehbein. 1999. Challenges in the identification of species of canned fish. Trends in Food Science & Technology 10: 9–14.
- Maes, G.E., J.M. Pujolar, J.A.M. Raeymaekers, J. Dannewitz,and F.A.M. Volckaert. 2006. Microsatellite conservation and Bayesian individual assignment in four Anguilla species. Marine Ecology Progress Series 319: 251–261.
- Magnussen, J.E., E.K. Pikitch, S.C. Clarke, C. Nicholson, A.R. Hoelzel, and M.S. Shivji. 2007. Genetic tracking of basking shark products in international trade. Animal Conservation 10: 199–207.
- Marmiroli, N., C. Peano, and E. Maestri. 2003. Advanced PCR techniques in identifying food components. In: Food Authenticity and Traceability, ed. M. Lees. Wood-head Publishing Limited, Cambridge, England, pp. 3–33.
10.1533/9781855737181.1.3 Google Scholar
- Marras, S.A., S. Tyagi, and F.R. Kramer. 2006. Real-time assays with molecular beacons and other fluorescent nucleic acid hybridization probes. Clinica Chimica Acta 363(1–2): 48–60.
- Martinez, I., D. James, and H. Loreal. 2005. Application of modern analytical techniques to ensure seafood safety and authenticity. FAO Fisheries Technical Paper. No. 455. FAO, Rome, Italy, p. 73.
- McDowell, D.G., H.C. Parkes, C.L Archard, and L. Birch. 2001. Evaluation of LabChip technology for GMO analysis in food. Food Control 12(8): 535–540.
- Moran, P. and E. Garcia-Vazquez. 2006. Identification of highly prized commercial fish using a PCR-based methodology. Biochemistry and Molecular Biology Education 34(2): 121–124.
- Moretti, V.M., G.M. Turchini, F. Bellagamba, and F. Caprino. 2003. Traceability issues in fishery and aqua-culture products. Veterinary Research Communications 27 Suppl 1: 497–505.
- Nagaraj, S.H., R.B. Gasser, S. Ranganathan. 2007. A hitchhiker's guide to expressed sequence tag (EST) analysis. Briefings in Bioinformatics 8(1): 6–21.
- Nijman, I.J., M.P. Hogendoorn, E. Gruys, G. Luikart, O. Ertugrul, Y. Zagdsuren, L.O. Ngere, N. Hasima, G. Erhardt, P. Ajmone-Marsan, and J.A. Lenstra. 2002. Detection of sheep-goat interspecies hybridization by analysis of satellite DNA. Online Journal of Veterinary Research 1: 1–6.
- Nijman, I.J., M. Otsen, E.L. Verkaar, C. de Ruijter, E. Hanekamp, J.W. Ochieng, S. Shamshad, J.E. Rege, O. Hanotte, M.W. Barwegen, T. Sulawati, and J.A. Lenstra. 2003. Hybridization of banteng (Bos javanicus)andzebu (Bos indicus) revealed by mitochondrial DNA, satellite DNA, AFLP and microsatellites. Heredity 90(1): 10–16.
- Pardo, M.A. and B. Perez-Villareal. 2004. Identification of commercial canned tuna species by restriction site analysis of mitochondrial DNA products obtained by nested primer PCR. Food Chemistry 86: 143–150.
- Pepe, T., M. Trotta, I. di Marco, P. Cennamo, A. Anastasio, and M.L. Cortesi. 2005. Mitochondrial cytochrome bDNA sequence variations: an approach to fish species identification in processed fish products. Journal of Food Protection 68(2): 421–425.
- Perez, M., C. Alvarez, M. Balado, A.G. Cabado, J.M. Vieites, and P. Presa. 2004. Identification of South Atlantic hakes (Merluccius australis and Merluccius hubbsi) in processed foods by PCR-RFLPs of cytochrome b gene. Journal of Aquatic Food Product Technology 13(2): 59–67.
- Peter, C., C. Brunen-Nieweler, K. Cammann, and T. Borchers. 2004. Differentiation of animal species in food by oligonucleotide microarray hybridization. European Food Research and Technology 219(3): 286–293.
- Quinteiro, J., C.G. Sotelo, H. Rehbein, S.E. Pryde, I. Medina, R.I. Perez-Martin, M. Rey-Mendez, and I.M. Mackie. 1998. Use of mtDNA direct polymerase chain reaction (PCR) sequencing and PCR-restriction fragment length polymorphism methodologies in species identification of canned tuna. Journal of Agricultural and Food Chemistry 46: 1662–1669.
- Quinteiro, J., R. Vidal, M. Izquierdo, C.G. Sotelo, M.J. Chapela, R.I. Perez-Martin, H. Rehbein, G.L. Hold, V.J. Russell, S.E. Pryde, C. Rosa, A.T. Santos, and M. ReyMendez. 2001. Identification of hake species (Merluccius genus) using sequencing and PCR-RFLP analysis of mitochondrial DNA control region sequences. Journal of Agricultural and Food Chemistry 49(11): 5108– 5114.
- Ram. J.L., M.L. Ram, and F.F. Baidoun. 1996. Authentication of canned tuna and bonito by sequence and restriction site analysis of polymerase chain reaction products of mitochondrial DNA. Journal of Agricultural and Food Chemistry 44: 2460–2467.
- Ramella, M.S., M.A. Kroth, C. Tagliari, and A.C.M. Arisi. 2005. Optimization of random amplified polymorphic DNA protocol for molecular identification of Lophius gastrophysus. Cienc Tecnol Aliment Campinas 25(4): 733–735.
- Randolph, S. 2006. Email communication to Steve Otwell.
- Rasmussen, R. and M. Morrissey. 2008. DNA-based methods for the identification of commercial fish and seafood. Comprehensive Reviews in Food Science and Food Safety 7(3): 280–295.
- Rego, I., A. Martinez, A. Gonzalez-Tizon, J. Vieites, F. Leira, and J. Mendez. 2002. PCR technique for the identification of mussel species. Journal of Agricultural and Food Chemistry 50(7): 1780–1784.
- Rehbein, H., C. Gonzales-Sotelo, R.I. Perez-Martin, J. Quinteiro M. Rey-Mendez, S. Pryde, I.M. Mackie, and A.T. Santos. 1999a. Differentiation of sturgeon caviar by single strand conformational polymorphism (PCR-SSCP) analysis. Archiv f ür Lebensmittelhygiene 50: 13–17.
- Rehbein, H., G. Kress, and T. Schmidt. 1997. Application of PCR-SSCP to species identification of fishery products. Journal of the Science of Food and Agriculture 74: 35–41.
- Rehbein, H., I.M. Mackie, S. Pryde, C. Gonzales-Sotelo, I. Medina, R.I. Perez-Martin, J. Quinteiro, and M. ReyMendez. 1999b. Fish species identification in canned tuna by PCR-SSCP: validation by a collaborative study and investigation of intra-species variability of the DNA-patterns. Food Chemistry 64(2): 263–268.
- Rehbein, H., C.G. Sotelo, R.I. Perez-Martin, M.J. ChapelaGarrido, G.L. Hold, V.J. Russell, S. Pryde, A.T. Santos, C. Rosa, J. Quinteiro, and M. Rey-Mendez. 2002. Differentiation of raw or processed eel by PCR-based techniques: restriction fragment length polymorphism analysis (RFLP) and single strand conformation polymorphism analysis (SSCP). European Food Research and Technology 214(2): 171–177.
- Renshaw, M.A., E. Saillant, R.E. Broughton, and J.R. Gold. 2006. Application of hypervariable genetic markers to forensic identification of ‘wild’ from hatchery-raised red drum, Sciaenops ocellatus. Forensic Science International 156(1): 9–15.
- Russell, V.J., G.L. Hold, S.E. Pryde, H. Rehbein, J. Quinteiro, M. Rey-Mendez, C.G. Sotelo, R.I. Perez-Martin, A.T. Santos, and C. Rosa. 2000. Use of restriction fragment length polymorphism to distinguish between salmon species. Journal of Agricultural and Food Chemistry 48(6): 2184–2188.
- Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4(4): 406–425.
- Sanjuan, A. and A.S. Comesana. 2002. Molecular identification of nine commercial flaffish species by polymerase chain reaction-restriction fragment length polymorphism analysis of a segment of the cytochrome b region. Journal of Food Protection 65(6): 1016–1023.
- Santaclara, F.J., A.G. Cabado, and J.M. Vieites. 2006. Development of a method for genetic identification of four species of anchovies: E. encrasicolus, E. anchoita, E. ringens and E. japonicus. European Food Research and Technology 223: 609–614.
- Serapion, J., H. Kucuktas, J. Feng, and Z. Liu. 2004. Bioinformatic mining of type I microsatellites from expressed sequence tags of channel catfish (Ictalurus punctatus). Marine Biotechnology 6(4): 364–377.
- Sevilla, R.G., A. Diez, M. Noren, O. Mouchel, M. Jerome, V. Verrez-Bagnis, H. Van Pelt, L. Favre-Krey, G. Krey, FishTraceConsortium, and J.M. Bautista. 2007. Primers and polymerase chain reaction conditions for DNA barcoding teleost fish based on the mitochondrial cytochrome b and nuclear rhodopsin genes. Molecular Ecology Notes 7: 730–734.
- Shivji, M., S. Clarke, M. Pank, L. Natanson, N. Kohler, and M. Stanhope. 2002. Genetic identification of pelagic shark body parts for conservation and trade monitoring. Conservation Biology 16(4): 1036–1047.
- Smith, P.J., S.M. McVeagh, Steinke D. 2008. DNA barcoding for the identification of smoked fish products. Journal of Fish Biology 72: 464–471.
- Sotelo, CG, Calo-Mata P, M.J. Chapela, R.I. Perez-Martin, H. Rehbein, G.L. Hold, V.J. Russell, S. Pryde, J. Quinteiro, M. Izquierdo, M. Rey-Mendez, C. Rosa, and A.T. Santos. 2001. Identification of flatfish (Pleuronectiforme) species using DNA-based techniques. Journal of Agricultural and Food Chemistry 49(10): 4562–4569.
- Sotelo, C.G., M.J. Chapela, M. Rey, and R. Perez-Martin. 2003. Development of an identification and quantitation system for cod (Gadus morhua) using Taqman assay. In Proceedings of the First Trans-Atlantic Fish-eries Technology Conference. June 10–14; Reykjavik, Iceland, pp. 195–198.
- Takeyama, H., S. Chow, H. Tsuduki, and T. Matsunaga. 2001. Mitochondrial DNA sequence variation within and between Thunnus tuna species and its application to species identification. Journal of Fish Biology 58(6): 1646–1657.
- Tamura, K. and M. Nei. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molecular Biology and Evolution 10(3): 512–526.
- Taylor, M.I., C. Fox, I. Rico, and C. Rico. 2002. Species-specific TaqMan probes for simultaneous identification of (Gadus morhua L.), haddock (Melanogrammus aeglefinus L.) and whiting (Merlangius merlangus L.). Molecular Ecology Notes 2: 599–601.
- Teletchea, F., C. Maudet, and C. Hanni. 2005. Food and forensic molecular identification: update and challenges. Trends in Biotechnology 23(7): 359–366.
- Trotta, M., S. Schonhuth, T. Pepe, M.L. CortesiL, A. Puyet, and J.M. Bautista. 2005. Multiplex PCR method for use in real-time PCR for identification of fish fillets from grouper (Epinephelus and Mycteroperca species) and common substitute species. Journal of Agricultural and Food Chemistry 53(6): 2039–2045.
- Seafood Business ‘Ukrop's Spotlights US Blue Crab.’ Seafood Business. September 2000, Vol. 20, No. 9, p. 10.
- Verkaar, E.L., K. Boutaga, I.J. Nijman, and J.A. Lenstra. 2001. Differentiation of bovine species in beef by PCRRFLP of mitochondrial and satellite DNA. Meat Science 60: 365–369.
- Vos, P., R. Hogers, M. Bleeker, M. Reijans, T. van de Lee, M. Hornes, A. Frijters, J. Pot, J. Peleman, M. Kuiper, and M. Zabeau. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23: 4407–4414.
- Waldbieser, G.C., B.G. Bosworth, D.J. Nonneman, and W.R. Wolters. 2001. A microsatellite-based genetic linkage map for channel catfish, Ictalurus punctatus. Genetics 158(2): 727–734.
- Ward, R.D., T.S. Zemlak, B.H. Innes, P.R. Last, and P.D.N. Hebert. 2005. Barcoding Australia's fish species. Philosophical Transactions of the Royal Society B 360: 1847–1857.
- Williams, J.G., A.R. Kubelik, K.J. Livak, J.A. Rafalski, and S.V. Tingey. 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Research 18(22): 6531–6535.
- Withler, R., J.R. Candy, T.D. Beacham, and K.M. Miller. 2004. Forensic DNA analysis of Pacific salmonid samples for species and stock identification. Environmental Biology of Fishes 69: 275–285.
- Withler, R.E., T.D. Beacham, T.J. Ming, and K.M. Miller. 1997. Species identification of Pacific salmon by means of a major histocompatibility complex gene. North American Journal of Fisheries Management 17: 929–938.
10.1577/1548-8675(1997)017<0929:SIOPSB>2.3.CO;2 Google Scholar
- Wolf, C., M. Burgener, P. Hubner, and J. Luthy. 2000. PCRRFLP analysis of mitochondrial DNA: differentiation of fish species. Lebensmittel-Wissenschaft und-Technologie 33(2): 144–150.
- Wolf, C., P. Hubner, and J. Luthy. 1999. Differentiation of sturgeon species by PCR-RFLP. Food Research International 32: 699–705.
- Wolf, C. and J. Luthy. 2001. Quantitative competitive (QC) PCR for quantification of porcine DNA. Meat Science 57: 161–168.
- Woolfe, M. and S. Primrose. 2004. Food forensics: using DNA technology to combat misdescription and fraud. Trends Biotechnol 22(5): 222–226.
- Yancy, H.F., T.S. Zemlak, J.A. Mason, J.D. Washington, B.J. Tenge, N.T. Nguyen, J.D. Barnett, W.E. Savary, W.E. Hill, M.M. Moore, F.S. Fry, S.C. Randolph, P.L. Rogers, and P.D.N. Hebert. 2008. Potential use of DNA bar-codes in regulatory science: applications of the Regulatory Fish Encyclopedia. Journal of Food Protection 71(1): 210–217.
- Young, W.P., P.A. Wheeler, V.H. Coryell, P. Keim, and G.H. Thorgaard. 1998. A detailed linkage map of rainbow trout produced using doubled haploids. Genetics 148(2): 839–850.
- Yowell, K. and W. Flurkey. 1986. Effect of freezing and microwave heating on proteins from codfish fillets: analysis by SES polyacrylamide gel electrophoresis. Journal of Food Science 51(2): 508–509.
- Yu, Z. and X. Guo. 2003. Genetic linkage map of the eastern oyster Crassostrea virginica Gmelin. Biological Bulletin 204(3): 327–338.
- Yue, G., Y. Li, F. Chen, S. Cho, L.C. Lim, and L. Orban. 2002. Comparison of three DNA marker systems for assessing genetic diversity in Asian arowana (Scleropages formosus). Electrophoresis 23(7–8): 1025–1032.
10.1002/1522-2683(200204)23:7/8<1025::AID-ELPS1025>3.0.CO;2-Y CASPubMedWeb of Science®Google Scholar
- Zhang, J. and Z. Cai. 2006. Differentiation of the rainbow troutOncorhynchus mykiss) from Atlantic salmon (Salmo salmar) by the AFLP-derived SCAR. European Food Research and Technology 223: 413–417.
Further reading
- Applewhite, L. and S. Bennett. 2007. Fish Species Identification- Analytical Services for Commercial Products, Seafood Science and Technology, 31st Annual Meeting. Nov. 2007. Punta Cana, Dominican Republic.
- Rapley, R. 2000. Molecular biology and basic techniques. In: Principles and Techniques of Practical Biochemistry, eds K. Wilson and J. Walker, 5th edn. Cambridge University Press, Cambridge, UK, pp. 80–137.
- Webliography
- USFDA. 2006. Seafood Species Substitution and Economic Fraud. College Park, Maryland: US Food and Drug Administration Center for Food Safety and Applied Nutrition. Available from: http://www. cfsan.fda.gov/∼frf/econ.html (accessed February 10, 2008).
- Seafood Science and Technology Society Presentation. A fish by any other name: a report on species substitution. http://sst.ifas.ufl.edu/22ndann/file08.pdf (accessed October 31, 2011).
- FDA Regulatory Fish Encyclopedia. http://www.fda. gov/Food/FoodSafety/Product-SpecificInformation/ Seafood/RegulatoryFishEncyclopediaRFE/default. htm.html (accessed October 31, 2011).
- FDA Seafood Guidance for Industry. www.cfsan.fda. gov/∼frf/seaintro.html (accessed October 31, 2011).
- National Center for Biotechnology Information. http:// www.ncbi.nlm.nih.gov (accessed October 31, 2011).
- Therion International. www.theriondna.com/ (accessed March 21, 2009).
- Bionastra–Biotechnology in Madrid. http://www. bionostra.net/ (accessed October 31, 2011).
- Biotools—a Spanish biotechnology group. www. biotools.net (accessed October 31, 2011).
- Gen-Probe–leader in the development of molecular diagnostic products. www.tepnel.com (accessed October 31, 2011).
- Barcoding of European Marine Fish. http://www. fishtrace.org (accessed October 31, 2011).
- Seafood Plus. http://www.seafoodplus.org/DNA_ database.637.0.html (accessed October 31, 2011).
- Genetics for Identification of Fish Origin. http:// fishgen.jrc.it/welcome.php3 (accessed October 31, 2011).
- Lonza BioResearch Laboratory. http://www.lonzabio science.com/prod.flash (accessed October 31, 2011).
- Biomerieux–Biological Research Laboratory. http:// www.biomerieux.com (accessed October 31, 2011).
