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Genetic Identification of Lophius budegassa and L. piscatorius by PCR-RFLP Analysis of a Mitochondrial tRNAGlu/Cytochrome b Segment
A. SANJUAN, J. RAPOSO-G UILLN AND A.S. COMESAA
ABSTRACT: Identification of Lophius budegassa (black-bellied angler) and L. piscatorius (angler) (Lophiiformes) was carried out on the amplification of a 486 bp tRNAGlu /cytochrome b segment using the polymerase chain reaction (PCR). Direct DNA sequencing of 6 PCR products was carried out. Six restriction endonucleases (AluI, CfoI, HaeIII, HinfI, MaeI, and ScrFI) with different species-specific restriction fragment length polymorphism (RFLP) were selected. Digestions of PCR products from 30 individuals showed no intraspecific polymorphism. Double digestions (CfoI and HinfI, and HaeIII and ScrFI) were simpler and more rapid than single digestions. This technique is suitable for distinguishing tails of both Lophius species. Keywords: anglerfishes, authentication, cytochrome b, Lophiiformes, PCR-RFLP
Introduction
HE IDENTIFICATION OF COMMERCIAL FISH SPECIES becomes a problem when the distinguishing external features of the fish are removed by processing into portions of flesh. The anglerfishes Lophius budegassa Spinola, 1807 (black-bellied angler) and L. piscatorius L. 1758 (angler) (Order Lophiiformes, Family Lophiidae) occur in the northeastern Atlantic (Caruso 1983), where they are important fishing resources with captures in 1999 of 876 and 53322 metric tons for L. budegassa and L. piscatorius, respectively (FAO 2001). Tails without external characteristics from these species are morphologically indistinguishable (Leiva Moreno 1998). Fresh, refrigerated, or frozen tails of L. piscatorius are sometimes labeled and marketed as L. budegassa, owing to the greater popularity and higher consumer demand for this latter species. Moreover, Storelli and Marcotrigiano (2001) have found that 23% of L. budegassa and 62.5% of L. piscatorius samples from the South Adriatic Sea showed mercury concentrations exceeding the tolerable peak value of 1 mg kg-1 wet wt set by the European Commission. The mercury concentration can be studied in tails of anglerfishes and identification of the species can be useful for comparative purposes. Identification of those products using nonmorphological methods is needed to avoid species substitution and to contribute for the estimate of the quality of these products from a hygienicsanitary standpoint. Several analytical methods have been developed for fish species authentication, including electrophoretic techniques, highperformance liquid chromatography, and immunoassays (Sotelo and others 1993; Andrews 1998; Mrtlbauer 1998; Etienne and others 2000, and references therein). Moreover, several of these approaches applied for different species of Lophius allow the identification of them (Lundstrom 1981; Crozier 1988; Grant and Leslie 1993). These methods rely upon the analysis of proteins, many of which are heat labile, lose their biological activity soon after death, and are subjet to modification in different cell types. Moreover, the above methods do not detect all the amino acid differences that may occur between different proteins (Bartlett and Davidson 1992; Davidson 1998; Mackie and others 1999; Wolf and others 2000). Advances in molecular biology techniques have enabled the devel-
opment of DNA-based methods for the identification of species origin in food products, as DNA is the same in every cell type of an individual, its information content is higher than that of proteins, and it is a remarkably stable molecule (Davidson 1998; Mackie and others 1999; Wolf and others 2000, and references therein). Most of these methods are based on amplification of a region of mitochondrial or nuclear DNA using the polymerase chain reaction (PCR) because of the simplicity, specificity, and sensitivity of this technique (Palumbi 1996). One of the PCR-based methodologies used has been the PCR direct sequence analysis, where the nucleotide sequence obtained of an amplified segment from a sample of an unknow species is compared with standard DNA sequences in a data base using a phylogenetic approach (Bartlett and Davidson 1991, 1992; Davidson 1998; Mackie and others 1999). Restriction Fragment Length Polymorphism (RFLP) of PCR products constitutes a simpler alternative than sequencing for the identification of species (Cspedes and others 1998, 2000; Davidson 1998; Mackie and others 1999; Cocolin and others 2000; Russell and others 2000; Wolf and others 2000; Sanjuan and Comesaa 2002, and references therein). The mitochondrial encoded cytochrome b (cyt b) gene has several advantages to be considered a useful genetical marker to identify the species origin of a fish sample: the high abundance of mitochondrial DNA in the total cellular nucleic acid preparations; the presence of only 1 allele, because of the maternal inheritance of mitochondria; the higher mutation rate compared to nuclear genes, which means considerable inter- and intra-species nucleotide variability but with the amount of variation within a species less than between species; and its pattern of nucleotide substitutions is known (for details see Carr and Marshall 1991; McVeigh and others 1991; Bartlett and Davidson 1992; Davidson 1998). Moreover, cyt b is among the most extensively sequenced genes to date across the vertebrates (Davidson 1998; Johns and Avise 1998), and in the authenticity methodologies one of the problems is the comparison of sample results with those of standards. These sequences can be found in international data banks, and can be used to compare sequences and to obtain restriction patterns. At present, a single sequence of a segment of the cyt b gene for Lophius species has
2002 Institute of Food Technologists
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Lophius budegassa
5, 199, 30, 252 486 486 280, 206 159, 42, 285 414, 72 280, 206 414, 72
Lophius piscatorius
5, 229, 252 164, 322 309, 177 486 159, 42, 213, 72 486 164, 322 309, 177
been published (GenBank accession number AF165074; Wolf and others 2000), but, unfortunately, the identity of the studied species is not clear (Lophius sp.), and the DNA sequence has 16 nucleotide indeterminations. The main objective of this work was to develop a simple method for the identification of refrigerated and frozen tails from commercial Lophius budegassa (black-bellied angler) and L. piscatorius (angler) species using PCR/RFLP analysis of a 486-bp fragment in the mitochondrial tRNAGlu /cyt b region. This methodology can be applied to the detection of fraudulent or unintentional mislabeling of these species in the market of processed products and as a complement to estimate the quality of Lophius tails.
AluI CfoI HaeIII HinfI MaeI Scr FI CfoI + HinfI HaeIII + ScrFI
Double-stranded (symmetric) amplifications were carried out in a final volume of 50 mL containing 9 mM Tris HCl, pH 9.0, 2 mM MgCl2, 45 mM KCl, 0.09% Triton X-100; 0.2 mM each of dATP, dCTP, dGTP, and dTTP (Amersham-Pharmacia-Biotech, Buckinghamshire, U.K.); 0.06 mM of each primer; 1.5 U of Taq DNA polymerase (Promega, Southampton, U.K.), and 3 mL of the above extracted genomic DNA as template. A negative control reaction, without extracted DNA, was also included for each set of PCR to test possible contamination. DNA amplification was performed in a Master Gradient thermal cycler (Eppendorf, Hamburg, Germany). An initial denaturation at 95 C for 5 min and, subsequently, 30 cycles were carried out with the following step-cycle profile: strand denaturation at 93 C for 60 s, primer annealing at 45 C for 60 s, and primer extension at 72 C for 120 s, with a final extension at 72 C for 10 min. The results of PCR amplifications were examined by agarose gel electrophoresis. The PCR products and a molecular weight marker (100 bp ladder, Amersham Pharmacia Biotech, Buckinghamshire, U.K.) were loaded in a 1.5% SeaKem LE agarose gel (FMC BioProducts, Rockland, Maine, U.S.A.), containing 1.2 mL of an ethidium bromide solution (10 mg mL-1), in TBE buffer (89 mM Tris base, 89 mM boric acid, 2.5 mM ethylenediaminetetraacetic acid, pH 7.5). Electrophoretic migration was carried out at 100 V for 45 min, and DNA fragments were visualized by UV transillumination and photographed with a Polaroid camera.
Figure 2Electrophoretic restriction patterns of the PCR products of the 486-bp tRNAGlu/cytochrome b region for 2 individuals of each L. budegassa (Lb) and L. piscatorius (Lp). a) Single digestions with AluI and MaeI. b) Double digestions using CfoI and HinfI, and HaeIII and ScrFI. U = undigested PCR product; L = 100-bp ladder.
Conclusions
CR-RFLP OF A FRAGMENT OF 486 BP FOR THE tRNAGlu /cyt b region provided a powerful method to detect mislabeling or fraudulent substitution of Lophius budegassa and L. piscatorius. This method provides a simpler alternative to direct sequencing of PCR products or conventional mitochondrial DNA analysis for routinely studying large numbers of samples, as in inspection programs, for species identification. However, the new present DNA sequences of both Lophius species could also be used as standards for identification purposes using comparison of DNA sequences.
References
Andrews AT. 1998. Electrophoretic methods. In: Ashurst PR, Dennis MJ, editors. Analytical methods of food authentication. London: Blackie Academic and Professional, Thomson Science. p 204-239. Bartlett SE, Davidson WS. 1991. Identification of Thunnus tuna species by the polymerase chain reaction and direct sequence analysis of their mitochondrial cytochrome b genes. Can J Fish Aquat Sci 48:309-317. Bartlett SE, Davidson WS. 1992. FINS (Forensically Informative Nucleotide Sequencing): a procedure for identifying the animal origin of biological speci-
The authors are with Xentica Evolutiva Molecular, Facultade de CienciasBioloxa, Univ. de Vigo, E-36200 Vigo, Spain. Author Sanjuan is with Xentica Evolutiva Molecular, Facultade de Ciencias-Bioloxa, Univ. de Vigo, E-36200 Vigo, Spain; Direct inquiries to author Sanjuan (E-mail: asanjuan@uvigo.es).
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