• Journal of Life Science
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• v.20 no.4
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• pp.632-638
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• 2010

The genetic diversity among 48 persimmon (Diospyros kaki Thunb.) accessions, indigenous in Korea and introduced from Japan and China, was evaluated by using simple sequence repeat (SSR) markers. From 20 SSR primer sets, a total of 114 polymorphic markers were detected among 12 pollination-constant non-astringent (PCNA), 13 pollination-variant non-astringent (PVNA), 15 pollination-variant astringent (PVA), and 8 pollination-constant astringent (PCA) cultivars. Analysis of pair-wise genetic similarity coefficient (Nei-Li) and unweighted pair-group method with arithmetic averaging (UPGMA) clustering revealed two main clusters and four subclusters for cluster I. The subclustering pattern was in accordance with the classification of persimmon cultivars based on the nature of astringency loss. Phenetic relationships among the subclusters showed a closer relatedness of the PCNA group with the PVNA group, and the PVA with the PCA group. Genetic similarity co-efficiency was 0.499 on average and the highest (0.954) similarity was observed between 'Cheongdo-Bansi' and 'Haman-Bansi'. The similarity was lowest (0.192) between 'Damopan'and 'Atago'. Identification of each cultivar with the execption of 'Cheongdo-Bansi' and 'Gyeongsan-Bansi' was possible based on the SSR fingerprints, suggesting that these SSR markers are a useful tool for protecting intellectual property on newly developed cultivars.

• Asian-Australasian Journal of Animal Sciences
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• v.31 no.3
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• pp.327-334
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• 2018

Objective: The objective of the present study was to validate genes and genomic regions associated with carcass weight using a low-density single nucleotide polymorphism (SNP) Chip in Hanwoo cattle breed. Methods: Commercial Hanwoo steers (n = 220) were genotyped with 20K GeneSeek genomic profiler BeadChip. After applying the quality control of criteria of a call rate ${\geq}90%$ and minor allele frequency (MAF) ${\geq}0.01$, a total of 15,235 autosomal SNPs were left for genome-wide association (GWA) analysis. The GWA tests were performed using single-locus mixed linear model. Age at slaughter was fitted as fixed effect and sire included as a covariate. The level of genome-wide significance was set at $3.28{\times}10^{-6}$ (0.05/15,235), corresponding to Bonferroni correction for 15,235 multiple independent tests. Results: By employing EMMAX approach which is based on a mixed linear model and accounts for population stratification and relatedness, we identified 17 and 16 loci significantly (p<0.001) associated with carcass weight for the additive and dominant models, respectively. The second most significant (p = 0.000049) SNP (ARS-BFGL-NGS-28234) on bovine chromosome 4 (BTA4) at 21 Mb had an allele substitution effect of 43.45 kg. Some of the identified regions on BTA2, 6, 14, 22, and 24 were previously reported to be associated with quantitative trait loci for carcass weight in several beef cattle breeds. Conclusion: This is the first genome-wide association study using SNP chips on commercial Hanwoo steers, and some of the loci newly identified in this study may help to better DNA markers that determine increased beef production in commercial Hanwoo cattle. Further studies using a larger sample size will allow confirmation of the candidates identified in this study.

• The Journal of Society for e-Business Studies
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• v.19 no.3
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• pp.107-123
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• 2014

Current text mining techniques suffer from the problem that the conventional text representation models cannot express the semantic or conceptual information for the textual documents written with natural languages. The conventional text models represent the textual documents as bag of words, which include vector space model, Boolean model, statistical model, and tensor space model. These models express documents only with the term literals for indexing and the frequency-based weights for their corresponding terms; that is, they ignore semantical information, sequential order information, and structural information of terms. Most of the text mining techniques have been developed assuming that the given documents are represented as 'bag-of-words' based text models. However, currently, confronting the big data era, a new paradigm of text representation model is required which can analyse huge amounts of textual documents more precisely. Our text model regards the 'concept' as an independent space equated with the 'term' and 'document' spaces used in the vector space model, and it expresses the relatedness among the three spaces. To develop the concept space, we use Wikipedia data, each of which defines a single concept. Consequently, a document collection is represented as a 3-order tensor with semantic information, and then the proposed model is called text cuboid model in our paper. Through experiments using the popular 20NewsGroup document corpus, we prove the superiority of the proposed text model in terms of document clustering and concept clustering.

• The Korean Journal of Malacology
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• v.31 no.4
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• pp.279-283
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• 2015

This study investigated spectroscopic characteristics of shell crystals of eight marine bivalve species using X-ray diffraction (XRD) analysis; moreover, the Family level relatedness of shellfish was investigated. In XRD analysis, the shells of Ruditapes philippinarum, Meretrix lusoria, Anadara granosa, and Fulvia mutica were found to have orthorhombic aragonite $CaCO_3$ crystals, while shells of Patinopecten yessoensis and Crassostrea gigas had trigonal-rhombohedral calcite crystals. The shells of Mytilus coruscus and Atrina pectinata were determined to have a mixture of aragonite and calcite crystals. XRD information revealed the Family level-specific characteristics of shellfish; the results agreed with the current taxonomic system. In conclusion, spectroscopic characteristics of shell crystals indicated Family-level characteristics of shellfish and suggested a more intense species-level investigation; this technology may be useful in identifying shellfish species using small quantities of shells.

• Journal of the HCI Society of Korea
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• v.10 no.1
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• pp.29-41
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• 2015

Technologies for video reality (e.g., 3D displays, vibration, surround sound, etc.) utilize various sensory input and many of them are now commercialized. However, when it comes to the use of olfaction for video reality, there has not been much progress in both practical and academic respects. Because olfactory sense is tightly associated with human emotion, proper use of this sense is expected to help to achieve a high degree of video reality. This research tested the effects of a video's color-temperature related scent on reality improvement when the video does not have apparent object (e.g., coffee, flower, etc.) which suggest specific smell. To this end, we had participants to rate 48 scents based on a color-temperature scale of 1,500K (warm)-15,000K (cold) and chose 8 scents (4 warm scents, 4 cold scents) which showed clear correspondence with warm or cold color-temperatures (Expt. 1). And then after applying warm (3,000K), neutral (6,500K), or cold (14,000K) color-temperatures to images or videos, we presented warm or cold scents to participants while they rate reality improvement on a 7-point scale depending on relatedness of scent vs. color-temperature (related, unrelated, neutral) (Expts. 2-3). The results showed that participants experienced greater reality when scent and color-temperature was related than when they were unrelated or neutral. This research has important practical implications in demonstrating the possibility that provision of color-temperature related scent improves video reality even when there are no concrete objects that suggest specific olfactory information.

• The Korean Journal of Ecology
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• v.27 no.5
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• pp.283-289
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• 2004

This study was conducted to evaluate the annual population variation and identification of antibiotic-resistant bacteria in the lower artificial Lake Geumgang from January to December, 2002. Samples were taken from the surface waters at 3 stations near the estuarine barrage. The results were as follows; the population densities of heterotrophic bacteria varied from 4.1±1.0×10² to 6.7±1.1×10³ cfu ml/sup -1/ during the investigation periods. The population densities of antibiotic-resistant bacteria ranged from 1.5±0.7×10 to 4.3±0.3×10³ cfu ml/sup -1/ for ampicillin; from 0 to 6.4±0.4× 10² cfu ml/sup -1/ for chloramphenicol; from 0 to 2.8±0.3×10³ cfu ml/sup -1/ for gentamicin; from 0 to 4.5±1.0×10³ cfu ml/sup -1/ for kanamycin; and from 1.0±0.4 × 10 to 2.3±0.5×10³ cfu ml/sup -1/ for streptomycin, respectively. Of the sixty isolates, 90% were Gram negative. Dominant genera by 16S rDNA analysis were identified Aeromonas spp. (14 strains), Bacillus spp. (6 strains), Enterobacter spp. (4 strains), and Stenotrophomonas spp. (6 strains). These strains were clustered into 12 groups based on relatedness by average linkage method. Of the 60 isolates, 85% had the resistance to ampicilin and 32% were shown resistance to more than 2 kinds of antibiotics.

• Asian-Australasian Journal of Animal Sciences
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• v.33 no.5
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• pp.836-847
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• 2020

Objective: We investigated the temporal expression profiles of long noncoding RNA (lncRNA) and mRNA in the peripheral blood of pigs during development and identified the lncRNAs that are related to the blood-based immune system. Methods: Peripheral blood samples were obtained from the pigs at 0, 7, 28, and 180 days and 2 years of age. RNA sequencing was performed to survey the lncRNA and mRNA transcriptomes in the samples. Short time-series expression miner (STEM) was used to show temporal expression patterns in the mRNAs and lncRNAs. Gene ontology and Kyoto encyclopedia of genes and genomes analyses were performed to assess the genes' biological relevance. To predict the functions of the identified lncRNAs, we extracted mRNAs that were nearby loci and highly correlated with the lncRNAs. Results: In total of 5,946 lncRNA and 12,354 mRNA transcripts were identified among the samples. STEM showed that most lncRNAs and mRNAs had similar temporal expression patterns during development, indicating the expressional correlation and functional relatedness between them. The five stages were divided into two classes: the suckling period and the late developmental stage. Most genes were expressed at low level during the suckling period, but at higher level during the late stages. Expression of several T-cell-related genes increased continuously during the suckling period, indicating that these genes are crucial for establishing the adaptive immune system in piglets at this stage. Notably, lncRNA TCONS-00086451 may promote blood-based immune system development by upregulating nuclear factor of activated T-cells cytoplasmic 2 expression. Conclusion: This study provides a catalog of porcine peripheral blood-related lncRNAs and mRNAs and reveals the characteristics and temporal expression profiles of these lncRNAs and mRNAs during peripheral blood development from the newborn to adult stages in pigs.

• Journal of Mushroom
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• v.7 no.4
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• pp.150-155
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• 2009

Because the import of Inonotus obliquus have been rapidly increased in Korea, we developed the Inonotus species-specific marker by using various sequences including ITS sequences, PCR-RFLP and STS primers and used this marker to determine both genetic relatedness and strains discrimination of Inonotus spp. Total 17 different Inonotus spp. were examined by using ITS sequences and classified into 2 different groups. One strain, ASI74008 isolated from Kamchaka island of Siberia, showed the high sequence identity (98%) at the nucleotide level to the other I. obliquus DSM strain, indicating the ASI74008 belong to I. obliquus species. Comparison of banding patterns after restriction enzyme digestions with PCR amplicons of ITS region revealed some variations depending on the species and strains. However, PCR products amplified with STS primer showed species specific patterns.Therefore, use of both STS primers and PCR-RFLP could help for better strain identification.

• Journal of Plant Biotechnology
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• v.42 no.4
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• pp.401-408
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• 2015

Horticultural traits and genetic relationship were evaluated for 83 melon (Cucumis melo L.) cultivars. Survey of a total of 36 characteristics for seedling, leaf, stem, flower, fruit, and seed and subsequent multiple analysis of variance (MANOVA) were conducted. Principal component analysis (PCA) showed that 8 principle components including fruit weight, fruit length, fruit diameter, cotyledon length, seed diameter, and seed length accounted for 76.3% of the total variance. Cluster analysis of the 83 melon cultivars using average linkage method resulted in 5 clusters at coefficient of 0.7. Cluster I consisted of cultivars with high values for fruit-related traits, Cluster II for soluble solid content, and Cluster V for high ripening rate. Genotyping of the 83 cultivars was conducted using 15 expressed-sequence tagged-simple sequence repeat (EST-SSR) from the Cucurbit Genomics Initiative (ICuGI) database. Analysis of genetic relatedness by UPGMA resulted in 6 clusters. Mantel test indicated that correlation between morphological and genetic distance was very low (r = -0.11).

• Korean Journal of Microbiology
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• v.43 no.1
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• pp.31-39
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• 2007

This study has been carried out for investigating the relatedness of representative 135 Shigella sonnei strains isolated from 2000 to 2004 by using biotyping and antimicrobial resistance. All strains showed typical biochemical characterisics of Shigella strain. Among 135 strains,79 (58.5%) strains were biotype "g",54 (40.0%) strains were biotype "a" and 2 (1.5%) strains were biotype "e". The results of susceptibility test against 16 antimicrobial agents were like this. Most of strains were susceptible to AN, CIP, C and GM. 129 (95.6%) strains were resistant to SXT, 126 (93.3%) strains were resistant to TE and 122 (90.4%) strains were resistant to SM. One hundred thirty two (97.8%) strains were resistant to more than two antimicrobial agents. R28 type (antimicrobial resistance patterns 28: resistant to AM, SAM, TE, TIC, SXT, K, SM and AmC) were 42 strains (31.1%). The other strains were showed 33 kinds of R patterns. The results of $bla_{TEM}$, sulII, tetA and strA gene detection were coincided with phenotype of antimicrobial resistance by disk diffusion method. But some strains which had sulII and strA genes were not showed the resistance against SXT and SM.