• BMB Reports
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• v.37 no.2
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• pp.213-222
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• 2004

A randomly amplified polymorphic DNA (RAPD) analysis was used to identify the species- and population-specific markers of abalone; Haliotis asinina, H. ovina, and H. varia in Thai waters. Fifteen species-specific and six population-specific RAPD markers were identified. In addition, an 1650 bp band (UBC195) that was restricted to H. ovina from the Gulf of Thailand (east) was also found. All of the specific RAPD markers were cloned and sequenced. Twenty pairs of primers were designed and specificity-tested (N = 12 and 4 for target and non-target species, respectively). Seven primer pairs (CUHA1, 2, 4, 11, 12, 13, and 14) were specifically amplified by H. asinina DNA, whereas a single pair of primers showed specificity with H. ovina (CUHO3) and H. varia (CUHV1), respectively. Four primer pairs, including CUHA2, CUHA12, CUHO3, and CUHV1, were further examined against 216 individuals of abalone (N = 111, 73, and 32, respectively). Results indicated the species-specific nature of all of them, except CUHO3, with the sensitivity of detection of 100 pg and 20 pg of the target DNA template for CUHA2 and CUHA12 and CUHV1, respectively. The species-origin of the frozen, ethanol-preserved, dried, and boiled H. asinina specimens could also be successfully identified by CUHA2.

• Journal of the Korean Society of Fisheries and Ocean Technology
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• v.46 no.2
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• pp.157-163
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• 2010

The indirect target strength (TS) estimation method which uses the Kirchhoff ray mode model (KRM model) was discussed to apply for a biomass estimation in the water of mixed species. TS of 25 live scorpion fishes for 120kHz were measured by a tethered method and of others dominant 5 species in the marine ranching ground of Jeju coastal water including a scorpion fish were also estimated by KRM model. The measurement TS of scorpion fish well agreed with the theoretical values and the standard formula of scorpion fish was estimated as $TS_{120kHz}=20Log\;(L)-72.9$ ($r^2=0.67$). TScm values estimated on trial to each sample of dominant 5 species were from -69.3dB to -75.1dB at 120kHz and they were in the general range of swimbladdered fish. It was clarified that TS by KRM model can be used to estimate fish biomass estimation by increasing a sample number and is more effective under the condition that there is rare TS information for inhabiting species in mixed-species area.

• Genomics & Informatics
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• v.3 no.3
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• pp.53-62
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• 2005

MicroRNAs play an important role in regulating gene expression, but their target identification is a difficult task due to their short length and imperfect complementarity. Burge and coworkers developed a program called TargetScan that allowed imperfect complementarity and established a procedure favoring targets with multiple binding sites conserved in multiple organisms. We improved their algorithm in two major aspects - (i) using well-defined UTR (untranslated region) database, (ii) examining the extent of conservation inside the 3' UTR specifically. Average length in our UTR database, based on the ECgene annotation, is more than twice longer than the Ensembl. Then, TargetScan was used to identify putative binding sites. The extent of conservation varies significantly inside the 3' UTR. We used the 'tight' tracks in the UCSC genome browser to select the conserved binding sites in multiple species. By combining the longer 3' UTR data, TargetScan, and tightly conserved blocks of genomic DNA, we identified 107 putative target genes with multiple binding sites conserved in multiple species, of which 85 putative targets are novel.

• Journal of the Korean Society of Fisheries and Ocean Technology
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• v.51 no.4
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• pp.493-503
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• 2015

Species composition and bycatch rate of the catches by dredge with bycatch reduction device to reduce bycatch were estimated around Yeongil Bay, Korea at June, 2015. Total catches were collected 31 species as Chordata 10 species, mollusca 8 species, arthropoda 6 species, echinodermata 5 species, sipunculida 1 species, annelida 1 species during the experiment at the Yeongil Bay. The dominant species were Scapharca broughtonii, Callithaca adamsi, and Atrina pectinata and they reached 79.9% of the total catch. The catch rate of Scapharca broughtonii and Callithaca adamsi was 69.6% and 10.4% respectively. The rate of bycatch was 20.1%, consisted with Echinodemata 13.0%, Chordata 3.6%. The catch of ordinary dredge was 27 species 1,307 number 85,052g and that of dredge with escapement device was 21 species 1,690 number 91,648g. In conclusion, the dredge gear with bycatch reduction device has higher catch rate of target species and lower bycatch rate to non-target species than ordinary one.

• Fisheries and Aquatic Sciences
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• v.16 no.4
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• pp.273-277
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• 2013

Vibriosis caused by Vibrio anguillarum and edwardsiellosis caused by Edwardsiella tarda are septicemic diseases of many commercially important freshwater and marine fishes, and threaten the aquaculture industry in Korea. Early diagnosis and accurate identification of these two bacterial species could help to prevent these diseases and minimize the damage to cultured marine species. This study designed a duplex polymerase chain reaction (PCR) method for the simultaneous detection of two major fish pathogens: V. anguillarum and E. tarda. Each pair of oligonucleotide primers exclusively amplified the target groEL gene of the specific microorganism. Twenty-two Vibrio and ten non-Vibrio enteric species were used to check the specificity of the primers, which were found to be highly specific for the target species, even among closely related species. The detection limit was 400 pg for V. anguillarum and 4 ng for E. tarda when mixed purified DNA was used as the template. This assay showed high specificity and sensitivity in the simultaneous detection of V. anguillarum and E. tarda from artificially inoculated seawater and fish.

• Journal of the Korean Society of Environmental Restoration Technology
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• v.14 no.6
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• pp.111-117
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• 2011

This study attempts to facilitate climate change adaptation in conservation area by spatial planning of climate adaptation zone for endangered species. Spatial area is South Korea and select leopard cat (Prionailurus bengalensis) as a target species of this study. In order to specify the climate adaptation zone, firstly, Maximum entropy method (Maxent) was used to identify suitable habitat, and then core habitat was selected for leopard cat. Secondly, land use resistance index was evaluated and least cost distance was analyzed for target species. In this step we choose dispersal capacity of leopard cat to reflect species ecological characteristic. Finally, climate adaptation zone is described and adaptation measures are suggested. The presented approach could be generalized for application into conservation planning and restoration process. Furthermore, spatial planning of climate adaptation zone could increase heterogeneity of habitat and improve adaptive capacity of species and habitat itself.

• Journal of Korea Water Resources Association
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• v.54 no.1
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• pp.15-25
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• 2021

The purpose of this study was to present the necessity and effect of culvert fishway, based on the absence of design criteria for it which fishes can pass. As an attempt for this purpose, circular culvert fishway were designed hydraulically to meet the passage condition for selected target fish species, and post-monitoring was performed to confirm its effectiveness. In the case of general circular culvert without weir baffles, the target fish species cannot pass because of the constant depth and velocity in the entire reach of the circular culvert, so it was confirmed that resting pools must be installed to help fish passage. In the case of circular culvert with weir baffles, the depth and the mean velocity in resting pool increased by about 240% and decreased by about 70% respectively, which not only satisfied the passage conditions of Zacco platypus that can swim at more than 10 times the speed of body length for 1 to 5 seconds, but also confirmed that various river fish could pass. Post-monitoring results of the restoration reach and fish capture monitoring surveys of circular culvert fishway demonstrated that the target fish species, Zacco platypus, can pass through it.

• Biomolecules & Therapeutics
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• v.23 no.6
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• pp.510-516
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• 2015

In this review, lipid A, from its discovery to recent findings, is presented as a drug target and therapeutic molecule. First, the biosynthetic pathway for lipid A, the Raetz pathway, serves as a good drug target for antibiotic development. Several assay methods used to screen for inhibitors of lipid A synthesis will be presented, and some of the promising lead compounds will be described. Second, utilization of lipid A biosynthetic pathways by various bacterial species can generate modified lipid A molecules with therapeutic value.

• Korean Journal of Agricultural Science
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• v.44 no.1
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• pp.1-15
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• 2017

In major field crops, synthetic herbicides have been used to control weeds worldwide. Globally, herbicide resistance in weeds should be minimized because it is a major limiting factor for food security. Cross resistance can occur with herbicides within the same or in different herbicide families and with the same or different sites of action. Multiple resistance refers to evolved mechanisms of resistance to more than one herbicide (e.g., resistance to both ALS-inhibitors and ACCase-inhibitors) and this resistance was brought about by separate selection processes. Target site resistance could occur from changes at the biochemical site of action of one herbicide. Non target site resistance occurs through mechanisms which reduce the number of herbicide molecules that reach the herbicide target site. There are currently 480 unique cases (species ${\times}$ site of action) of herbicide resistance globally in 252 plant species (145 dicots and 105 monocots). To date, resistance in weeds has been reported to 161 different herbicides, involving 23 of the 26 known herbicide sites of action. Finally, it can be concluded that we can protect crops associated to herbicide resistant weeds by applications of biochemical, genetic and crop control strategies.

• Genomics & Informatics
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• v.15 no.3
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• pp.98-107
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• 2017

MicroRNAs (miRNAs) act as regulators of gene expression by binding to the 3' untranslated region (UTR) of target genes. They perform important biological functions in the various species. Among many miRNAs, miR-21-3p is known to serve vital functions in development and apoptosis in olive flounder. Using genomic and bioinformatic tools, evolutionary conservation of miR-21-3p was examined in various species, and expression pattern was analyzed in olive flounder. Conserved sequences (5'-CAGUCG-3') in numerous species were detected through the stem-loop structure of miR-21-3p. Thus, we analyzed target genes of miR-21-3p. Among them, 3' UTR region of PPIL2 gene indicated the highest binding affinity with miR-21-3p based on the minimum free energy value. The PPIL2 gene showed high expression levels in testis tissue of the olive flounder, whereas miR-21-3p showed rather ubiquitous expression patterns except in testis tissue, indicating that miR-21-3p seems to control the PPIL2 gene expression in a complementary repression manner in various tissues of olive flounder. Taken together, this current study contributes to infer the target gene candidates for the miR-21-3p using bioinformatics tools. Furthermore, our data offers important information on the relationship between miR-21-3p and target gene for further functional study.