Identification of grouper (Epinephelus guaza), wreck fish (Polyprion americanus), and Nile perch (Lates niloticus) fillets by polyclonal antibody-based enzyme-linked immunosorbent assay

An indirect enzyme-linked immunosorbent assay (ELISA) has been developed for the species identification of grouper (Epinephelus guaza), wreck fish (Polyprion americanus), and Nile perch (Lates niloticus) fillets. The assay was performed in two different formats, microtiter plates and immunostick tubes, and uses polyclonal antibodies raised in rabbits against muscle-soluble proteins of grouper (anti-GSP), wreck fish (anti-WSP), and Nile perch (anti-PSP). The antibodies were made species-specific by blocking them with the heterologous soluble muscle proteins. Immunorecognition of polyclonal antibodies adsorbed to their specific fish samples was made with swine antirabbit immunoglobulins conjugated to the enzyme horseradish peroxidase. Subsequent enzymatic conversion of the substrate allowed unequivocal identification of the species studied.     

Arabidopsis ENDO2: its catalytic role and requirement of N-glycosylation for function

The Arabidopsis thaliana At1g68290 gene encoding an endonuclease was isolated and designated ENDO2, which was cloned into a binary vector to overexpress ENDO2 with a C-terminal 6 × His-tag in A. thaliana. Our Arabidopsis transgenic lines harboring 35SP::ENDO2 produced stable active enzyme with high yield. The protein was affinity purified from transgenic plants, and its identity was confirmed by liquid chromatography-mass spectrometry and automatic Edman degradation. ENDO2 enzyme digests RNA, ssDNA, and dsDNA, with a substrate preference for ssDNA and RNA. The activity toward ssDNA (361.7 U/mg) is greater than its dsDNase activity (14.1 U/mg) at neutral pH. ENDO2 effectively cleaves mismatch regions in heteroduplex DNA containing single base pair mismatches or insertion/deletion bases and can be applied to high-throughput detection of single base mutation. Our data also validated that the removal of sugar groups from ENDO2 strongly affects its enzymatic stability and activity.     

Hemoglobin-mediated lipid oxidation and compositional characteristics of washed fish mince model systems made from cod (Gadus morhua), herring (Clupea harengus), and salmon (Salmo salar) muscle

The use of washed cod light muscle minces in mechanistic studies of hemoglobin (Hb)-mediated fish lipid oxidation has largely increased in the past 5 years. Although cod light muscle has a low level of intrinsic lipid oxidation catalysts, a prerequisite for a good oxidation model system, we believe it cannot fully mimic the oxidation kinetics taking place in other fish species being more susceptible to lipid oxidation. The aim of this study was to systematically investigate whether washed mince model systems useful in Hb-mediated oxidation studies could be prepared also from herring (Clupea harengus) and salmon (Salmo salar) light muscles. The kinetics of oxidation in the washed models was measured during ice storage (+/-Hb), and the results were related to compositional differences. Minces from cod, herring, and salmon light muscles were washed 3 times with 3 volumes of water and buffer. A 20 microM portion of Hb and 200 ppm streptomycin was then added, followed by adjustment of pH and moisture to 6.3 and 86%, respectively. Samples with or without Hb were then stored on ice, and oxidation was followed as peroxide value (PV), rancid odor, redness (a*) loss and yellowness (b*). Prior to storage, all minces and models were also analyzed for total lipids, fatty acids, alpha-tocopherol, proteins, Hb, Fe, Cu, and Zn. Hb-mediated lipid oxidation appeared within 2 days on ice in all models. Small differences in the oxidation rates ranked the models as herring > cod > salmon. These differences were ascribed to more preformed peroxides and trace elements in the herring model, and more antioxidants in the salmon model. Controls, without Hb, stayed stable in all cases except herring, where a very slight oxidation appeared, especially if the herring raw material had been prefrozen. In conclusion, fattier fish like dark muscle species and salmonoids are useful for making washed mince model systems and would be a better choice than cod if there is an interest in the oxidation kinetics of such species.     

PCR-ELISA for the semiquantitative detection of Nile perch (Lates niloticus) in sterilized fish muscle mixtures

A PCR-ELISA technique was developed for the semiquantitative detection of Nile perch (Lates niloticus) in experimentally sterilized fish muscle mixtures. Specific oligonucleotides derived from the 5S rDNA gene of Nile perch were selected. A forward primer, together with a reverse digoxigenin-labeled primer, permitted the amplification of specific 185 bp DNA fragments showing DNA intensities proportional to the contents of Nile perch muscle tissue in the fish mixtures. A biotinylated probe immobilized onto streptavidin-coated microplates was used to capture the digoxigenin-labeled fragments that were detected with peroxidase antidigoxigenin conjugate. Subsequent enzymatic conversion of substrate gave distinct absorbance differences when assaying fish binary mixtures containing different percentages of Nile perch muscle.     

PCR-RFLP authentication of meats from red deer (Cervus elaphus), fallow deer (Dama dama), roe deer (Capreolus capreolus), cattle (Bos taurus), sheep (Ovis aries), and goat (Capra hircus)

PCR-RFLP analysis has been applied to the identification of meats from red deer (Cervus elaphus), fallow deer (Dama dama), roe deer (Capreolus capreolus), cattle (Bos taurus), sheep (Ovis aries), and goat (Capra hircus). PCR amplification was carried out using a set of primers flanking a conserved region of approximately 712 base pairs from the mitochondrial 12S rRNA gene. Restriction site analysis based on sequence data from this DNA fragment permitted the selection of MseI, MboII, BslI, and ApoI endonucleases for species identification. The restriction profiles obtained when amplicons were digested with the chosen enzymes allowed the unequivocal identification of all domestic and game meat species analyzed in the present work.     

Isolation and identification of the DNA aptamer target to acetamiprid

As an alternative to antibodies, aptamers have a great potential as analytical tools for pesticide detection. In this work, aptamers targeting acetamiprid were selected by a specific systematic evolution of ligands by exponential enrichment (SELEX) strategy, where a single-stranded DNA (ssDNA) library was immobilized and target modification was eliminated. After 18 rounds of repeated selection, the ssDNA pool was enriched and then 14 sequences were selected and carefully identified. At last, an acetamiprid-specific aptamer with the apparent dissociation constant (K(d)) estimated to be 4.98 μM was successfully obtained. Further work is ongoing to develop an aptamer-based detection method for field determination of this pesticides in agricultural products and environmental samples.     

SELEX技术筛选重组人超氧化物歧化酶核酸适体研究

运用指数富集配基系统技术（SELEX）筛选人超氧化物歧化酶（rhSOD）特异性核酸适体。体外化学合成长度为78 bp的中间含有35个随机序列的单链DNA文库,通过比较不对称PCR和生物素-链亲和素磁珠分离方法制备ssDNA文库的效果,确定以生物素-链亲和素磁珠分离方法制备ssDNA文库,采用硝酸纤维素膜为介质,以SOD蛋白为靶标,筛选其亲和性核酸适体,酶联仪测定定D450值,计算每轮ssDNA文库与靶分子的结合率。经过11轮筛选后,随机ssDNA文库与SOD的结合率从初始的0.47%上升到37.5%,随着筛选轮数的增加,ssDNA与靶分子结合率趋于稳定。初步筛选出具有高亲和力的SOD酶特异性核酸适体,为进一步开发和研究SOD新药及模拟药物提供参考。     

Trace Metal Incorporation in Otoliths of Black Bream (Acanthopagrus butcheri Munro), an Indicator of Exposure to Metal Contamination

Otoliths of black bream (Acanthopagrus butcheri) collected from the Swan River Estuary were analysed by Laser Ablation Inductively Coupled Plasma Mass Spectrometry (LA-ICP-MS) to measure concentrations of 14 trace metals. Trace metal concentrations in the otoliths may be related to the environmental exposure history of fish to contamination. The following metal isotopes were investigated: aluminium (²⁷Al), calcium (⁴⁴Ca), manganese (⁵⁵Mn), iron (⁵⁷Fe), copper (⁶⁵Cu), zinc (⁶⁶Zn), strontium (⁸⁸Sr), cadmium (¹¹¹Cd), tin (¹²⁰Sn), barium (¹³⁸Ba), mercury (²⁰²Hg), lead (²⁰⁸Pb) and the metalloids arsenic (⁷⁵As, ⁷⁷As) and selenium (⁸²Se). Significant differences in otolith trace metal composition were found between sampling sites. Lead and ⁵⁷Fe were consistently lower in downstream fish relative to upstream fish, while ⁸⁸Sr varied with the salinity gradient in the urban estuary. Lead and ⁵⁷Fe followed similar patterns within the otoliths, and appeared to provide the best discriminatory power for relating otolith metal concentration to the environmental history of the fish.     

Identification of gadoid species in fish meat by polymerase chain reaction (PCR) on genomic DNA

Identification of fish species is significant due to the increasing interest of consumers in the meat of sea fish. Methods focusing on fish species identification help to reveal fraudulent substitution among economically important gadoid species in commercial seafood products. The objective of this work was to develop a conventional PCR method for the differentiation of the following gadoid fish species in fish products: Alaska pollack ( Theragra chalcogramma), blue whiting ( Micromesistius poutassou), hake spp. ( Merluccius spp.), Atlantic cod ( Gadus morhua), saithe ( Pollachius virens), and whiting ( Merlangius merlangus). The species-specific primer pairs for gadoid species determination were based on the partial pantophysin I ( PanI) genomic sequence. Sequence identification was confirmed by cloning and sequencing of the PCR products obtained from the species considered. For the simultaneous detection of Alaska pollack, blue whiting, and hake spp., a quadruplex PCR system was constructed. Other gadoid species were detected in separate PCR reactions. After optimization of the reactions, the developed PCR systems were used for the analysis of codfish samples obtained from the Czech market and the customs' laboratories. This method represents an alternative approach in the use of genomic DNA for the identification of fish species. This method is rapid, simple, and reliable without the need for further confirmative methods. Furthermore, the identification of a mixture of more than one species is possible. The PCR system has been optimized for routine diagnostic purposes.     

Novel method for the discrimination of tuna (Thunnus thynnus) and bonito (Sarda sarda) DNA

A novel method for the discrimination of bluefin tuna (Thunnus thynnus) from Atlantic bonito (Sarda sarda) was developed, based on species-specific amplification of a region of the mitochondrial cytochrome b gene by Polymerase Chain Reaction (PCR). The method, which uses a one-step amplification reaction, is more rapid to perform than any of the currently described techniques for species determination in fish. The species of origin of the DNA is indicated by the distinctive size of the PCR product on electrophoresis, but the test could readily be adapted to other forms of electrophoresis or fluorescence-based systems for quantification. Given the possibility of intraspecific variability in mitochondrial DNA and the consequent desirability of performing two independent tests, the new method constitutes a valuable addition to the range of tuna speciation methodologies currently available.     

Protective effect of supplementation of fish oil with high n-3 polyunsaturated fatty acids against oxidative stress-induced DNA damage of rat liver in vivo

The present study was undertaken to know the effect of supplementation of fish oil with high n-3 polyunsaturated fatty acids (PUFA) on oxidative stress-induced DNA damage of rat liver in vivo. Male Wistar rats were fed a diet containing fish oil or safflower oil with high n-6 PUFA at 50 g/kg of diet and an equal amount of vitamin E at 59 mg/kg of diet for 6 weeks. Livers of rats fed fish oil were rich in n-3 PUFA, whereas those of rats fed safflower oil were rich in n-6 PUFA. Ferric nitrilotriacetate was intraperitoneally injected to induce oxidative stress. The degree of lipid peroxidation of the liver was assessed by the levels of phospholipid hydroperoxides and thiobarbituric acid-reactive substances (TBARS), and the degree of oxidative DNA damage was assessed by comet type characterization in alkaline single-cell gel electrophoresis and 8-hydroxy-2'-deoxyguanosine levels. The levels of TBARS of the livers of the fish oil diet group increased to a greater extent than those of the safflower oil diet group, whereas the levels of the hydroperoxides of the livers of both diet groups increased to a similar extent. The vitamin E level of livers of the fish oil diet group was remarkably decreased. The degree of DNA damage of both diet groups was increased, but the increased level of the fish oil diet group was remarkably lower than that of the safflower oil diet group. The above results indicate that fish oil supplementation does not enhance but appears to protect against oxidative stress-induced DNA damage and suggest that lipid peroxidation does not enhance but lowers the DNA damage.     

Detection of genetically modified soybean using peptide nucleic acids (PNAs) and microarray technology

Peptide nucleic acid (PNA) microarrays for the detection of Roundup Ready soybeans in food have been prepared. PNA probes are known to be more efficient and selective in binding DNA sequences than the analogous oligonucleotides and are very suitable to be used for diagnostics in food. PNAs of different lengths were carefully designed and synthesized by solid-phase synthesis on an automatic synthesizer adopting the BOC strategy. PNAs were purified by HPLC and characterized by HPLC/MS. The probes were spotted on a functionalized surface to produce a microarray to be hybridized with PCR products. DNA extracted from reference material was amplified using Cy3- and Cy5-labeled primers, and the fluorescent PCR products obtained were hybridized on the microarray. Two protocols were adopted: the hybridization with dsDNA or with ssDNA obtained by digestion with the enzyme lambda exonuclease. The best results were obtained using a 15-mer PNA probe in combination with the ssPCR product derived from enzymatic digestion. The method was applied to the analysis of a sample of certified transgenic soybean flour.     

Multiplex PCR method for use in real-time PCR for identification of fish fillets from grouper (Epinephelus and Mycteroperca species) and common substitute species

Mitochondrial 16S rRNA sequences from morphological validated grouper (Epinephelus aeneus, E. caninus, E. costae, and E. marginatus; Mycteroperca fusca and M. rubra), Nile perch (Lates niloticus), and wreck fish (Polyprion americanus) were used to develop an analytical system for group diagnosis based on two alternative Polymerase Chain Reaction (PCR) approaches. The first includes conventional multiplex PCR in which electrophoretic migration of different sizes of bands allowed identification of the fish species. The second approach, involving real-time PCR, produced a single amplicon from each species that showed different Tm values allowing the fish groups to be directly identified. Real-time PCR allows the quick differential diagnosis of the three groups of species and high-throughput screening of multiple samples. Neither PCR system cross-reacted with DNA samples from 41 common marketed fish species, thus conforming to standards for species validation. The use of these two PCR-based methods makes it now possible to discriminate grouper from substitute fish species.     

Genotoxic Effects of Aluminum on the Neotropical Fish Prochilodus lineatus

Applying an integrated approach using the Comet, micronucleus (MN), and random amplified polymorphic DNA (RAPD) assays, occurrence of erythrocytic nuclear abnormalities (ENAs) and the liver activity of antioxidants enzymes (catalase and glutathione-S-transferase (GST)) was carried out to evaluate the effects of acute (6, 24, and 96 h) and subchronic (15 days) exposures to aluminum on fish Prochilodus lineatus. The Comet assay showed that fish erythrocytes exhibited significantly higher DNA damage after 6 and 96 h of Al exposure. MN frequencies were very low and did not increase significantly after Al exposures, while ENAs frequency increased significantly after all exposure periods. RAPD profiles obtained with DNA from fish fins collected before the toxicity tests were compared to the profiles with DNA from gills and liver of the same fish sampled after Al exposures. Alterations in RAPD profiles, including appearance and disappearance of bands, after 6 h, 24 h, and 15 days of Al exposure were detected. Fish exposed to Al for 6 and 24 h also showed significant increases in GST and catalase activities. These results indicated that Al exposure was genotoxic to P. lineatus, inducing DNA damage in peripheral erythrocytes. The induction of antioxidant enzymes might be an indication that Al causes oxidative damage to DNA, while the very low frequency of MN suggests that Al does not produce clastogenic or aneugenic effects. Genotoxic effects after 15 days of Al exposure was revealed only by RAPD, showing that this assay represents a sensitive method to detect genotoxic damage, occasionally not detected by other genotoxic tests used in toxicological genetics studies.     

Molecular spectroscopic studies of farrerol interaction with calf thymus DNA

The interaction between farrerol and calf thymus DNA in a pH 7.4 Tris-HCl buffer was investigated with the use of neutral red (NR) dye as a spectral probe by UV-vis absorption, fluorescence, and circular dichroism (CD) spectroscopy, as well as viscosity measurements and DNA melting techniques. It was found that farrerol molecules could intercalate into the base pairs of DNA as evidenced by decreases in iodide quenching effect and single-stranded DNA (ssDNA) quenching effect, induced CD spectral changes, and significant increases in relative viscosity and denaturation temperature of DNA. Furthermore, the spectral data matrix of the competitive reaction between farrerol and NR with DNA was resolved with an alternative least-squares (ALS) algorithm, and the concentration profiles in the reaction and the corresponding pure spectra for three species (farrerol, NR, and DNA-NR complex) were obtained. This ALS analysis demonstrated the intercalation of farrerol to the DNA by substituting for NR in the DNA-NR complex. Moreover, the thermodynamic parameters enthalpy change (ΔH°) and entropy change (ΔS°) were calculated to be -16.49 ± 0.51 kJ mol(-1) and 32.47 ± 1.02 J mol(-1) K(-1) via the van't Hoff equation, which suggested that the binding of farrerol to DNA was driven mainly by hydrophobic interactions and hydrogen bonds.     

混合重金属离子诱导的鲫鱼DNA损伤与基因表达

本研究结果表明 ,混合重金属离子诱导了鲫鱼鱼鳃、肝脏组织产生脂质过氧化作用 (LPO) ;鱼鳃、肝脏组织中的LPO产物丙二醛 (MDA)含量与暴露浓度呈指数效应关系 ;鱼鳃、肝脏的指数方程分别为Y =e- 2 87X + 0 6 87和Y =e- 2 19X + 0 115;LPO引发了DNA链的断裂损伤 ;3H TdR在鱼鳃、肝脏细胞DNA中大量掺入 ,并与重金属离子暴露浓度间呈双向效应 ;重金属离子的暴露极大地提高了鲫鱼肝脏DNA的总甲基化水平 ;重金属离子的毒性作用干扰了鲫鱼细胞的正常生理周期和基因的表达 ,是引发水生生物基因毒性作用的主要机制。     

Establishment and application of a fluorescent polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method for identifying porcine,caprine, and bovine meats

A method of fluorescent Polymerase Chain Reaction-restriction fragment length polymorphism (PCR-RFLP) was applied as an analytical and quantitative tool for meat identification. Following alignments of the nucleotide sequences, an oligonucleotide primer pair was designed to amplify the partial sequences within the 12S ribosomal RNA (12S rRNA) gene of mitochondrial DNA from porcine, caprine, and bovine meats. No fragment can be amplified from dog, cat, fish, duck, goose, turkey, and chicken DNA with the primer pair. Using fluorescence sensor capillary electrophoresis, the species-specific DNA fingerprints of pork, goat, and beef were generated by restriction enzyme digestion following a fluorescence-labeling PCR amplification. Species identification was conducted on the meat mixtures. The reliably semiquantitative levels were below 1% for binary mixtures of pork, goat, and beef. Cooking and autoclaving of meats did not influence the generation of the PCR-RFLP profiles or the analytical accuracy.     

Identification of the clam species Ruditapes decussatus (Grooved carpet shell), Venerupis pullastra (Pullet carpet shell), and Ruditapes philippinarum (Japanese carpet shell)by PCR-RFLP

PCR-RFLP analysis has been applied to the identification of three clam species: Ruditapes decussatus (grooved carpet shell), Venerupis pullastra (pullet carpet shell), and Ruditapes philippinarum (Japanese carpet shell). PCR amplification was carried out using a set of primers designed from the DNA nucleotide sequences reported for alpha-actins from humans and various animals. Restriction endonuclease analysis based on sequence data of the PCR products of each clam species revealed the presence of species-specific polymorphic sites for MaeIII and RsaI endonucleases. Electrophoretic analysis of the amplicons digested with MaeIII and RsaI produced species-specific profiles that allowed the genetic identification of the three clam species.     

Experimental study on the removal of dioxins and coplanar polychlorinated biphenyls (PCBS) from fish oil

Recently, it has been found that fish oils contain a high proportion of contaminants, namely, polychlorinated dibenzo-p-dioxins (PCDDs), polychlorinated dibenzofurans (PCDFs), and coplanar polychlorinated biphenyls (cPCBs). In this study, the removal of contaminants from fish oil by supercritical CO2 extraction (SCE) and by using adsorbents (0.13 wt % of oil) was investigated. Dioxins and cPCBs were extracted from fish oil by SCE at a temperature of 60 degrees C and a pressure of 28 MPa, and the removal efficiencies for PCDDs and PCDFs were in the range of 15-90% and those for cPCBs were in the range of 70-90%. However, 40% of the oil was extracted simultaneously with contaminants. On the adsorbent treatment, activated carbon showed high efficiency, and the removal efficiencies were >90% for PCDDs and PCDFs, but below 30% for cPCBs. A combination of both of these methods is more effective, and almost 100% of the total toxicity equivalence quantity value could be reduced.     

Evaluation of CYP1A Protein Induction, Biotransformation Capacity and DNA Adduct Formation in a Rat Hepatoma Cell Line (Fao), as Biomarkers of Organic Contamination in Environmental Soil Samples

Induction of cytochrome P4501A (CYP1A) immunopositive protein was evaluated in the rat hepatoma cell line Fao, as a biomarker of organic pollution in extract of environmental soil samples, exposed to different sources and degrees of chemical contamination. Soil samples were collected in one area in Russia (Monchegorsk) and two areas in Southern Norway (Fiskaa and Birkenes). In addition, one reference soil sample was collected in Central Norway (Høoylandet). Contents of selected polycyclic aromatic hydrocarbons (PAHs) in the samples were also evaluated. To further evaluate the inducibility of the most potent soil extract (Fiskaa), S9 fraction of Fao cells, pretreated with this extract, was used as an activation system in the Ames Salmonella assay. The DNA adduct forming capacity of the soil extracts, analyzed by the ³²P-postlabeling technique, was also investigated in Fao cells. The Fao cell line has previously been found to be a very sensitive biomonitoring system, that responds to environmentally relevant concentrations of planar model contaminants with increased level of CYP1A immunopositive protein and DNA adducts. In the present study the Fao cell line also showed its potential for use in evaluating the CYP1A inducing potency of environmental samples. All soil extracts induced CYP1A protein in the Fao cells, although the level of induction varied between the soil samples. The Fiskaa soil extract was the most potent CYP1A inducer and this extract also contained the highest level of PAHs. No significant correlation was observed between the level of the total of 16 PAHs and CYP1A protein level. However, a significant correlation was observed between CYP1A protein level and the level of Benzo[a]pyrene (B[a]P), which is a very potent CYP1A inducer. The S9 fraction of pretreated Fao cells activated B[a]P to mutagens in a concentration-dependent relationship, although the response was weak. No DNA adducts were detected in cells exposed to the soil extracts. This demonstrates the necessity of determining several biomarker parameters simultaneously as one single biomarker may fail to respond to potentially harmful compounds.