• Korean Journal of Fisheries and Aquatic Sciences
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• v.49 no.2
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• pp.224-233
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• 2016

The objective of this study was to develop an artificial neural network (ANN) model for the acoustic identification of commercially important fish species in Korea. A broadband echo acquisition and processing system operating over the frequency range of 85-225 kHz was used to collect and process species-specific, time-frequency feature images from six fish species: black rockfish Sebastes schlegeli, black scraper Thamnaconus modesutus [K], chub mackerel Scomber japonicus, goldeye rockfish Sebastes thompsoni, konoshiro gizzard shad Konosirus punctatus and large yellow croaker Larimichthys crocea. An ANN classifier was developed to identify fish species acoustically on the basis of only 100 dimension time-frequency features extracted by the principal components analysis (PCA). The overall mean identification rate for the six fish species was 88.5%, with individual identification rates of 76.6% for black rockfish, 82.8% for black scraper, 93.8% for chub mackerel, 90.6% for goldeye rockfish, 96.9% for konoshiro gizzard shad and 90.6% for large yellow croaker, respectively. These results demonstrate that individual live fish in well-controlled environments can be identified accurately by the proposed ANN model.

• Korean Journal of Fisheries and Aquatic Sciences
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• v.50 no.2
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• pp.195-206
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• 2017

Joint time-frequency images of the broadband echo signals of six fish species were obtained using the smoothed pseudo-Wigner-Ville distribution in controlled environments. Affine transformation and principal component analysis were used to obtain eigenimages that provided species-specific acoustic features for each of the six fish species. The echo images of an unknown fish species, acquired in real time and in a fully automated fashion, were identified by finding the smallest Euclidean or Mahalanobis distance between each combination of weight matrices of the test image of the fish species to be identified and of the eigenimage classes of each of six fish species in the training set. The experimental results showed that the Mahalanobis classifier performed better than the Euclidean classifier in identifying both single- and mixed-species groups of all species assessed.

• Journal of fish pathology
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• v.22 no.3
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• pp.391-400
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• 2009

Genetic identification of 17 fish-derived Aeromonas strains was attempted using 5 housekeeping genes. 16S rRNA, gyrB, rpoD, dnaJ and recA genes from the 17 strains were amplified, and total of 85 amplicons were sequenced. DNA sequences of the strains and type strains of the 17 Aeromonas homology groups were used for genetic identification and phylogenetic analyses. None of the strains was identified as a single species using the 16S rRNA gene, showing the same identities (average = 99.7%) with several Aeromonas species. According to gyrB, rpoD, dnaJ, and recA, 9 strains and RFAS-1 used in this study were identified as A. hydrophila and A. salmonicida, respectively. However, the other strains were closely related to 2 or more Aeromonas species (i.e., A. salmonicida, A. veronii, A. jandaei, A. media and A. troda) depending on the genetic marker used. In this study, gyrB, rpoD, dnaJ and recA gene sequences proved to be advantageous over 16S rRNA for the identification of field Aeromonas isolates obtained from fish. However, there are discrepancies between analyses of different phylogenetic markers, indicating there are still difficulties in genetic identification of the genus Aeromonas using the housekeeping genes used in this study. Advantages and disadvantages of each housekeeping gene should be taken into account when the gene is used for identification of Aeromonas species.

• Korean Journal of Food Science and Technology
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• v.2 no.2
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• pp.30-33
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• 1970

This studies' objective methods of identifying fish species are based on the species-specific protein-separation patterns obtained on electrophoresis of watersoluble sarcoplasmic proteins of fish muscle. As the proteins must be in their native undenatured state, electrophoretic identification of fish species has, so far, been restricted to raw fish. An extention of the electrophoretic method to the identification of cooked fish is discribed. The protein fragments extractable in 10M urea from the denatured proteins of cooked muscle can also be separated by electrophoresis into species' characteristic patterns that could be used for species identification. The separation patterns obtained on polyacrylamide gel for the urea extracts of cooked Mugil cephalus, Gadus macrocephalus, Scomberomorus niphonius, Scomber japonicus, Pseudosciaena manchurica, Seriola quinqueradiata, Trichius lepturus, Duderleinia berycoides, Lophimus setigerus, Pampus argenteus are presented. In its present form the method does not apply to canned fish.

• Genomics & Informatics
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• v.10 no.3
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• pp.206-211
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• 2012

DNA barcoding has been widely used in species identification and biodiversity research. A short fragment of the mitochondrial cytochrome c oxidase subunit I (COI) sequence serves as a DNA bio-barcode. We collected DNA barcodes, based on COI sequences from 156 species (529 sequences) of fish, insects, and shellfish. We present results on phylogenetic relationships to assess biodiversity the in the Korean peninsula. Average GC% contents of the 68 fish species (46.9%), the 59 shellfish species (38.0%), and the 29 insect species (33.2%) are reported. Using the Kimura 2 parameter in all possible pairwise comparisons, the average interspecific distances were compared with the average intraspecific distances in fish (3.22 vs. 0.41), insects (2.06 vs. 0.25), and shellfish (3.58 vs. 0.14). Our results confirm that distance-based DNA barcoding provides sufficient information to identify and delineate fish, insect, and shellfish species by means of all possible pairwise comparisons. These results also confirm that the development of an effective molecular barcode identification system is possible. All DNA barcode sequences collected from our study will be useful for the interpretation of species-level identification and community-level patterns in fish, insects, and shellfish in Korea, although at the species level, the rate of correct identification in a diversified environment might be low.

• Korean Journal of Fisheries and Aquatic Sciences
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• v.49 no.2
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• pp.214-223
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• 2016

Joint time-frequency images of the broadband acoustic echoes of six fish species were obtained using the smoothed pseudo-Wigner-Ville distribution (SPWVD). The acoustic features were extracted by changing the sliced window widths and dividing the time window by a 0.02-ms interval and the frequency window by a 20-kHz bandwidth. The 22 spectrum amplitudes obtained in the time and frequency domains of the SPWVD images were fed as input parameters into an artificial neural network (ANN) to verify the effectiveness for species-dependent features related to fish species identification. The results showed that the time-frequency approach improves the extraction of species-specific features for species identification from broadband echoes, compare with time-only or frequency-only features. The ANN classifier based on these acoustic feature components was correct in approximately 74.5% of the test cases. In the future, the identification rate will be improved using time-frequency images with reduced dimensions of the broadband acoustic echoes as input for the ANN classifier.

• Parasites, Hosts and Diseases
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• v.52 no.4
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• pp.383-389
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• 2014

Anisakiasis, a human infection of Anisakis L3 larvae, is one of the common foodborne parasitic diseases in Korea. Studies on the identification of anisakid larvae have been performed in the country, but most of them have been focused on morphological identification of the larvae. In this study, we analyzed the molecular characteristics of 174 Anisakis type I larvae collected from 10 species of fish caught in 3 different sea areas in Korea. PCR-RFLP and sequence analyses of rDNA ITS and mtDNA cox1 revealed that the larvae showed interesting distribution patterns depending on fish species and geographical locations. Anisakis pegreffii was predominant in fish from the Yellow Sea and the South Sea. Meanwhile, both A. pegreffii and A. simplex sensu stricto (A. simplex s.str.) larvae were identified in fish from the East Sea, depending on fish species infected. These results suggested that A. pegreffii was primarily distributed in a diverse species of fish in 3 sea areas around Korea, but A. simplex s.str. was dominantly identified in Oncorhynchus spp. in the East Sea.

• Fisheries and Aquatic Sciences
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• v.26 no.9
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• pp.548-557
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• 2023

The purposes of this research were to identify fish species using DNA barcodes or partial sequences of cytochrome b (Cytb) and to assess the diversity of fish in the Mae Tam reservoir, Phayao province, Thailand. Fish samples were collected 3 times, during the winter, summer, and rainy seasons, from 2 sampling sites using gillnets with 3 mesh sizes (30, 50, and 70 mm). A total of 34 representative samples were classified into 12 species, 7 families and 6 orders by morphological- and DNA barcoding-based identifications. However, one cichlid species, Cichlasoma trimaculatum, could only be identified using DNA barcoding. Family Cyprinidae had the greatest diversity, 50.00%. The diversity, richness and evenness indices ranged from 0.43-0.65, 0.64-1.46, and 0.27-0.40, respectively, indicating that fish diversity at both sampling sites was relatively low. A comparison of the catch per unit effort (CPUE) with 3 different mesh sizes found that the 50 mm mesh size was the best (474.80 ± 171.56 g/100 m²/night), followed by the 70 mm (417.41 ± 176.24 g/100 m²/night) and 30 mm mesh sizes (327.88 ± 115.60 g/100 m²/night). These results indicate that DNA barcoding is a powerful tool for species identification. Our data can be used for planning the sustainable management of fisheries resources in the Mae Tam reservoir.

• Korean Journal of Fisheries and Aquatic Sciences
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• v.50 no.6
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• pp.829-836
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• 2017

This study investigated the species composition and abundance of floating fish eggs to determine the timing and location of spawning of fish inhabiting the coastal waters of Sagye, Jejudo Island. Eggs were collected with a Bongo net bimonthly from May 2009 to February 2010. Identifications were based on nucleotide sequences of the mitochondrial cytochrome c oxidase subunit I (COI) gene. Eggs were determined to belong to 43 distinct taxa, 35 of which were identified to the species level. The assemblage spanned eight orders, 23 families, and 32 genera. The number of taxa collected varied from month to month, with 14 taxa (12 species) found in June 2009, 11 taxa (10 species) in October 2009, 10 taxa (nine species) each in August 2009 and February 2010, eight taxa (six species) in April 2009, and five taxa (four species) in December 2009. Five abundant species (Branchiostegus japonicus, Engraulis japonicus, Pseudolabrus sieboldi, Goniistius zonatus, and Halichoeres tenuispinis) together represented 52.8% of the total number of eggs collected during the study.

• Journal of Environmental Impact Assessment
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• v.30 no.1
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• pp.1-12
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• 2021

This study focused on verifying the identification of freshwater fish species in Korea using Environmental DNA (eDNA) technique. The research of DNA is increasing in the field of ecology, since this is more sensitive of identify rather than traditional investigation method. Which is difficult to detect species hidden in water and be easily influenced by diverse factors (sites, bad weather, researchers and so on). We applied the pilot test in aquarium (Freshwater Fish Ecological Learning Center in Yangpyeong, Gyeonggi Do), where freshwater fish species are inhabits. We conducted to sampling and analyzing the sixteen water samples (50 species from 7 orders and 13 families) using MiFish primer set. The results showed that 45 species (90%) was investigated by eDNA. It highlight that eDNA with universal primer is possible to detect freshwater fish species of Korean. However, the errors on species identification seems to be caused by the primer that be not suited perfectly and the pollution such as aquarium, sampling collectors.