• Proceedings of the Korean Society of Near Infrared Spectroscopy Conference
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• 2001.06a
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• pp.1286-1286
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• 2001

Despite extensive theoretical and experimental studies the structure of the protein-solvent interface is subject of many controversy. Understanding the processes that occur in aqueous solution requires understanding of the solvent influence on the structure of protein. The aim of this study is to investigate the applicability of NIR methods in the study of hydration phenomena in protein solutions. Temperature-induced changes in NIR spectra of -lactoglobulin (BLG) in aqueous solutions have been investigated by means of two-dimensional correlation spectroscopy (2DCOS) and principal component analysis (PCA). With the temperature increase the balance of forces between the BLG's interaction with itself and the BLGs interaction with its environment is disrupted leading to BLG unfolding. Significant differences of 2D signals and distinct discrepancies of loading on PC1 and PC2 were observed as a result of temperature increase. In the native folded conformation of BLC, most of the nonpolar amino acids are hidden in the centre of the structure, out of contact with water molecules, while charged groups are outside, in the contact with water. The polar groups promote low density Ih-type structure in the water outside this first hydration shell. When BLG unfolds it assumes a more extended configuration on which the previously buried nonpolar groups are exposed to water and promote the higher density II-type structure outside its first shell. Detailed assignments of bands attributed to the bulk water, different states of the hydrated water and the changed conformation of BLG are proposed.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.212-212
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• 2022

Soluble starch synthase (SS) IV-2 is one of the starch synthase gene family members and responsible for starch chain elongation interacting with other rice eating and cooking quality controlling genes (e.g., AGPlar and PUL). SSIV-2 is mainly expressed in leaves, especially at grain-filling stage and its alleles can significantly affect rice quality. Here, we investigated the genetic diversity and population structure analyses of SSIV-2 gene by using 374 rice accessions. This rice set was grouped into 320 cultivated bred (subsequently classified into temperate japonica, indica, tropical japonica, aus, aromatic and admixture) and 54 wild rice. Haplotyping of cultivated rice accessions provided a total of 7 haplotypes, and only three haplotypes are functional indicating four substituted SNPs in two exons of chromosome 5: T/A and G/T in exon 4, and C/G and G/A in exon 13. Including the wild, a highest diverse group (0.0041), nucleotide diversity analysis showed temperate japonica (0.0001) had a lowest diversity value indicating the origin information of this gene evolution. Higher and positive Tajima5s D value of indica (1.9755) indicate a selective signature under balancing selection while temperate japonica (-0.9018) was in lowest Tajima's D value due to a recent selective sweep by positive selection. We found the most diverse genetic components of the wild in PCA but shared in some portion with other cultivated groups. Fixation index (F_ST-values) and phylogenetic analysis indicate a closer relationship of the wild with indica (F_ST=0.256) than to its association to both of temperate japonica (F_ST=0.589). Structure analysis shows a clear separation of cultivated subpopulations at every K value, but genetic components were admixed within the wild illustrating the same genetic background with japonica and indica in some proportion.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.215-215
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• 2022

Starch synthase proteins (SSI, SSII and SSIII) in rice are mainly involved in amylopectin synthesis mediating its chain elongation, and the functional loss of SSII can increase amylose accumulation through decreasing of amylopectin chain proportions. For purposes of identifying functional haplotypes and evolutionary analyses of this gene, SSII-1, we investigated 374 rice accessions belonging to different subgroups of origins. We subsequently performed bioinformatic analyses on their variations through haplotyping, resequencing and structuring based on different classified populations. Haplotyping of cultivated rice accessions using genetic variations within SSII-1 genomic region of chromosome 10 revealed a total of 8 haplotypes, representing 6 functional haplotypes by 4 non-synonymous SNPs of three different exons (1, 4 and 10), which effect on protein structure. Higher nucleotide diversity value was found in wild group (0.0055) compared to any of cultivated subpopulations, of which aus showed the most reduction of diversity value (0.0003). Tajima's D analysis exhibits the most Tajima's D value only in admixture group (0.3600) which appears to be the cause of a sudden population contraction by rare alleles scarcity. A clear separation of some wild accessions from the admixed cultivated subpopulations was observed in PCA and phylogenetic analysis. Similar admixed pattern of population structure was estimated with an increased K values of 2 to 8 where genetic components of almost all cultivated subpopulations were shared with the wild which can also be subsequently estimated by very low F_ST-values by -0.011 (wild-aromatic) and -0.003 (wild-admixture).

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.217-217
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• 2022

Pullulanase (PUL), a debranching enzyme, has been utilized in hydrolyzing the a-1,6 glucosidic linkages in starch, amylopectin, pullulan, as well as related oligosaccharides. It has also been indicated that PUL is a novel indicator of inherent RS (Resistant Starch) formation in rice. In this study, we performed haplotype analysis on 320 bred rice accessions, and additional 54 wild accessions were added to study genetic diversity along with other population-based analyses of the PUL gene. Through these investigations, we summarized a total of 10 functional (non-synonymous) SNPs from 7 different exons on chromosome 4. There were 10 haplotypes, of which only six haplotypes were functional, implicating different subpopulations. Diversity reduction was noticed in temperate japonica (0.0005) compared to the highest one (aus, 0.0154), illustrating their higher genetic differentiation by F_ST-value (0.926). The highest Tajima^ D value was observed in indica (3.6613), indicating PUL gene domestication signature under balancing selection, while the lowest Tajima's D value was found in temperate japonica (-2.2191) which might have undergone under positive selection and purified due to the excess of rare alleles. PCA, population structure, and phylogenetic analyses provide information on the genetic relatedness between and or among the cultivated subpopulations and the wild based on PUL genomic region.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.218-218
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• 2022

Granules-bound starch synthase II (GBSSII), one of the isoforms of granule-bound starch synthase (GBSS), is responsible for amylose synthesis by expressing in non-storage tissues such as leaf, stem, root, and pericarp. Up to date, little is known about this gene functions and basic knowledge of heritable characteristics of this gene, GBSSII. We identified functional haplotypes and performed evolutionary analyses on the GBSSII using 374 rice accessions (320 Korean bred and 54 wild) based on the classified groups. A total of 14 haplotypes were found, and almost all haplotypes (13) were functional, carrying 19 non-synonymous SNPs in two exons (exons 1 and 2). The lowest nucleotide diversity was detected in Tropical japonica (0.00145), while the highest pi-value was in Aus (0.01081), illustrating the signal of this gene evolution. The highest Tajima's D value in Aus (1.6380) indicates GBSSII gene domestication signature under balancing selection, while the lowest Tajima's D value in Temperate japonica (-0.8243) highlights that they were under positive selection, which may be purified due to the excess of rare alleles. The highest genetic differentiation was observed between Tropical japonica and aroma (F_ST = 0.921928). In contrast, the highest interbreed level was detected in Aus-admixture (F_ST = -0.20157). The genetic relatedness between and or among the wild and cultivated subpopulations was revealed through PCA, population structure, and phylogenetic analyses.

• The Korean Journal of Quaternary Research
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• v.17 no.2
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• pp.157-159
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• 2003

Much of northern Asia is lacking in high-resolution palaeoclimatic data coverage. This vast region thus represents a sizeable gap in data sets used to reconstruct hemispheric-scale temperature trends for the past millennium. To improve coverage, we present a regional-scale composite of four tree-ring width records of Siberian pine and Siberian larch from temperature-sensitive alpine timber-line sites in Mongolia. The chronologies load closely in principal components analysis (PCA) with the first eigenvector accounting for over 53% of the variance from ad 1450 to 1998. The 20-year interval from 1974 to 1993 is the highest such growth period in this composite record, and 17 of the 20 highest growth years have occurred since 1946. Thus these trees, unlike those recently described at some northern sites, do not appear to have lost their temperature sensitivity, and suggest that recent decades have been some of the warmest in the past 500 years for this region. There are, however, comparable periods of inferred, local warmth for individual sites, e.g., in 1520-1580 and 1760-1790. The percent common variance between chronologies has increased through time and is highest (66.1%) in the present century. Although there are obvious differences among the individual chronologies, this result suggests a coherent signal which we consider to be related to temperature. The PCA scores show trends which strongly resemble those seen in recent temperature reconstructions for the Northern Hemisphere, very few of which included representation from Eurasia east of the Ural Mountains. The Mongolia series therefore provides independent corroboration for these reconstructions and their indications of unusual wanning during the twentieth century.

• Korean Journal of Optics and Photonics
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• v.19 no.4
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• pp.270-275
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• 2008

This paper addresses occluded object reconstruction and recognition with computational integral imaging (II). Integral imaging acquires and reconstructs target information in the three-dimensional (3D) space. The reconstruction is performed by averaging the intensities of the corresponding pixels. The distance to the object is estimated by minimizing the sum of the standard deviation of the pixels. We adopt principal component analysis (PCA) to classify occluded objects in the reconstruction space. The Euclidean distance is employed as a metric for decision making. Experimental and simulation results show that occluded targets are successfully classified by the proposed method.

• Journal of Life Science
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• v.22 no.5
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• pp.595-599
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• 2012

Allergic response is associated with mast cells, through the release of arachidonic acid, proinflammatory cytokines, and histamine. We investigated the effect of Platycodon grandiflorum including platycodin D (PG-Platycodin D) on allergic responses in an animal model and on mast cell degranulation. PG-Platycodin D suppressed the release of ${\beta}$-hexosaminidase, a type of marker associated with degranulation. PG-Platycodin D efficiently inhibited the passive cutaneous anaphylaxis (PCA) reaction in ICR mice. In addition, molecular analysis demonstrated that PG-Platycodin D inhibited mRNA expression of both IL-3. These results suggest that PG-Platycodin D can inhibit mast cell degranulation through the inhibition of IL-3 mRNA expression, and that PG-Platycodin D may potentially serve as an anti-allergic agent.

• The KIPS Transactions:PartD
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• v.13D no.2 s.105
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• pp.287-292
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• 2006

There are two problems associated with the existing principal component analysis, which is regarded as the most effective in object recognition technology. First, it brings about an increase in the volume of calculations in proportion to the square of image size. Second, it gives rise to a decrease in accuracy according to illumination changes. In order to solve these problems, this paper proposes wavelet transformation and histogram equalization. Wavelet transformation solves the first problem by using the images of low resolution. To solve the second problem the histogram equalization enlarges the contrast of images and widens the distribution of brightness values. The proposed technology improves recognition rate by minimizing the effect of illumination change. It also speeds up the processing and reduces its area by wavelet transformation.

• Journal of Life Science
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• v.21 no.10
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• pp.1364-1369
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• 2011

Mast cells, the central effector cells involved in the allergic response, release histamine, arachidonic acid, and proinflammatory cytokines. We investigated the effect of the ethyl acetate fraction (EA), derived from Korean rice wine lees, on RBL-2H3 cell degranulation and passive cutaneous anaphylaxis in an animal model. The EA fraction suppressed the release of beta-hexosaminidase, a marker of degranulation, and the mRNA expression of interleukin-3 (IL-3) and IL-13. EA also successfully suppressed the passive cutaneous anaphylaxis (PCA) reaction in mice in a dose-dependent manner. These results suggest that EA can inhibit mast cell degranulation through the inhibition of IL-3 and IL-13 mRNA expression, and that EA may potentially serve as an anti-allergic agent.