• Molecules and Cells
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• v.42 no.1
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• pp.87-95
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• 2019

Long interspersed element-1 (LINE-1 or L1) is an autonomous retrotransposon, which is capable of inserting into a new region of genome. Previous studies have reported that these elements lead to genomic variations and altered functions by affecting gene expression and genetic networks. Mounting evidence strongly indicates that genetic diseases or various cancers can occur as a result of retrotransposition events that involve L1s. Therefore, the development of methodologies to study the structural variations and interpersonal insertion polymorphisms by L1 element-associated changes in an individual genome is invaluable. In this study, we applied a systematic approach to identify human-specific L1s (i.e., L1Hs) through the bioinformatics analysis of high-throughput next-generation sequencing data. We identified 525 candidates that could be inferred to carry non-reference L1Hs in a Korean individual genome (KPGP9). Among them, we randomly selected 40 candidates and validated that approximately 92.5% of non-reference L1Hs were inserted into a KPGP9 genome. In addition, unlike conventional methods, our relatively simple and expedited approach was highly reproducible in confirming the L1 insertions. Taken together, our findings strongly support that the identification of non-reference L1Hs by our novel target enrichment method demonstrates its future application to genomic variation studies on the risk of cancer and genetic disorders.

• Molecules and Cells
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• v.28 no.2
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• pp.111-117
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• 2009

The CHRM3 gene is a member of the muscarinic acetylcholine receptor family that plays important roles in the regulation of fundamental physiological functions. The evolutionary mechanism of exon-acquisition and alternative splicing of the CHRM3 gene in relation to transposable elements (TEs) were analyzed using experimental approaches and in silico analysis. Five different transcript variants (T1, T2, T3, T3-1, and T4) derived from three distinct promoter regions (T1: L1HS, T2, T4: original, T3, T3-1: THE1C) were identified. A placenta (T1) and testis (T3 and T3-1)-dominated expression pattern appeared to be controlled by different TEs (L1HS and THE1C) that were integrated into the common ancestor genome during primate evolution. Remarkably, the T1 transcript was formed by the integration event of the human specific L1HS element. Among the 12 different brain regions, the brain stem, olfactory region, and cerebellum showed decreased expression patterns. Evolutionary analysis of splicing sites and alternative splicing suggested that the exon-acquisition event was determined by a selection and conservation mechanism. Furthermore, continuous integration events of transposable elements could produce lineage specific alternative transcripts by providing novel promoters and splicing sites. Taken together, exon-acquisition and alternative splicing events of CHRM3 genes were shown to have occurred through the continuous integration of transposable elements following conservation.

• Journal of the Optical Society of Korea
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• v.19 no.5
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• pp.449-455
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• 2015

In this study we propose a new photonic crystal fiber (PCF) design that simultaneously offers broadband single-mode operation, high birefringence, and large normal dispersion in the optical-communication wavelength regime. The waveguide is based on a hybrid square-lattice PCF (HS-PCF) that has circular air holes of two different diameters alternating in the cladding, plus a pure silica defect at the center. The optical properties of the guided modes are analyzed numerically by the finite-element method (FEM) with a perfectly matched layer as the boundary condition. The optimized HS-PCF has a dispersion coefficient of $-601.67\;ps\;nm^{-1}\;km^{-1}$ and a high birefringence of $1.025{\times}10^{-2}$ at $1.55{\mu}m$. In addition, over the S+C+L+U wavelength bands the proposed HS-PCF with ultraflat birefringence with a slope on the order of $10^{-5}$.

• Analytical Science and Technology
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• v.13 no.1
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• pp.96-100
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• 2000

The adsorption of heavy-elements to zeolite has been investigated at various adsorptional condition for purification of waste water. Four heavy elements, Cd, Cr, Cu and Pb, were examined, because they are concerned to the major heavy-element contamination. The adsorption efficiencies are measured at the different conditions such as adsorption times and pHs. The practical adsorption was achived and reaches to maximum within 30 minute by using of 2-g zeolite for 50 mL of heavy-element solution. The overall adsorption efficiencies for Cr and Cu are high and become better at low pH. Cd and Pb have 95% of adsorption ratio and this is lower than other two elements. Cadmium shows an abnormally low adsorption at low pH.

• Journal of Bio-Environment Control
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• v.27 no.2
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• pp.173-179
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• 2018

Investigation of the optimum levels of pre-plant nitrogen for raising of hot pepper (cv. Nokkwang) plug seedlings was the objective of this research. To achieve this, the pre-plant nitrogen levels were varied to 0, 100, 250, 500, 750, 1,000, and $1,500mg{\cdot}L^{-1}$ and the other essential nutrients were controlled to equal concentrations in all treatments. All the fertilizers were added during the formulation of the mixed medium of coir dust, peatmoss, and perlite with the ratio of 35, 35, and 30% (v/v/v). The root medium containing pre-plant fertilizer was packed into 50-cell plug trays and seeds were sown. The measurement of pH and EC in every week, soil solution analysis for nutrients in week 0, 3, and 7 and growth measurements as well as tissue analysis for nutrient contents in week 7 were conducted. The pHs measured before seed sowing did not show significant differences, but the differences among treatments became significant as seedlings grow bigger. The soil solution ECs were significantly different among treatments in week 0 and these differences were diminished by degrees after week 3, resulting in no significant differences among treatments in week 7. The trends in changes of $NH_4-N$, $NO_3-N$, and other the macro-element concentrations in soil solution of root media were similar to those of ECs. The treatments of 500 and $750mg{\cdot}L^{-1}$ N were more effective than other treatments on seedling growth. The seedling growths in the treatments containing higher N than $1,000mg{\cdot}L^{-1}$ and control were severely suppressed. The elevated pre-plant N concentrations in the root medium resulted in the increase of tissue N contents. The treatments of 500 and $750mg{\cdot}L^{-1}$ N shown the highest seedling growths had 5.13% and 5.31%, respectively, in tissue N contents based on the dry weight of above ground tissue at week 7. The results of this study indicated that the optimum level of pre-plant N is 500 to $750mg{\cdot}L^{-1}$ for the raising of hot pepper plug seedlings.

• Journal of Bio-Environment Control
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• v.28 no.2
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• pp.110-116
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• 2019

This study was conducted to determine the effects of a pre-planting fertilizers with various $NH_4{^+}:NO_3{^-}$ ratios in a coir dust:peatmoss:perlite (3.5:3.5:3.0, v/v/v) medium on the growth of hot pepper (Capsicum annuum L. cv. Nokkwang) plug seedling. Nitrogen levels were fixed to $300mg{\cdot}L^{-1}$ and the $NH_4{^+}:NO_3{^-}$ ratios were varied to 0:100, 27:73, 50:50, 73:27, and 100:0. The 50-cell trays were filled with treatment media containing pre-plant fertilizers, then seeds were sown. After seeds were germinated, the trays were moved to greenhouse and seedlings were feed with 13-2-13 and 20-9-20 fertilizers, alternatively. The changes in pH and EC were measured every week and soil solution for nutrient concentrations were analyzed in week 0, 3, and 7. The measurements of seedling growths as well as analysis of tissue nutrient contents were also conducted in week 7. The varied $NH_4{^+}:NO_3{^-}$ ratios did not influence on the pHs of root media after incorporation of pre-planting fertilizers, but the ECs were heightened as proportion of $NH_4{^+}$ to $NO_3{^-}$ were elevated. During the raising of seedlings, the pHs rose over time in the treatments of 0:100 and 27:73 ($NH_4{^+}:NO_3{^-}$). The concentrations of all macro-elements in root media decreased gradually as seedlings grew in all treatments. The seedling growths 7 weeks after seed sowing were the highest in the treatments of 27:73 and 50:50 ($NH_4{^+}:NO_3{^-}$) and those became worse in the treatments of higher $NH_4{^+}$ ratios than 73%. In terms of inorganic element contents based on the dry weight of above ground tissue, the treatment of 0:100 showed the lowest content of Ca, Mg, Na, Cu, Mn, and Zn. Based on the results, it is desired that $NH_4{^+}$ ratio in pre-planting fertilization is maintained to be 50% or less for the raising of hot pepper plug seedlings.

• Economic and Environmental Geology
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• v.36 no.6
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• pp.469-480
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• 2003

Laboratory leaching experiment study carried out to estimate a extent of heavy metals that could be leached out when acid rain(pH 5.0-3.0) and strong acidic solution(pH 2.5-1.0) reacted with tailings and contaminated soils from abandoned metal mines. In slightly to moderately acid conditions(pH 5.0-3.0), As, Pb and Zn dissolutions became significantly increased with decreased pH in tailing, while dissolution of these elements was very limited in contaminated soil. These results suggested that moderately acid rainwater leaches Pb, As and Zn from the tailings, while these elements would remain fixed in contaminated soil. In the pH range of 2.5-1.0(strongly acid condition), Zn, Cd and Cu concentrations of leachate rapidly increased with decreased pH in contaminated soil, while Pb, As and Co dissolutions became importantly increased in tailings. The experimental solubility of Zn. Cd and Cu was very low even at very low pH values(up to pH 1), except for CY4(Cheongyang mine). These can result from an incomplete dissolution or the presence of less soluble mineral phases. So, the solubility of heavy metals depends not only on the pH values of leachate but also on the speciation of metals associated with contaminated soils and tailings. The relative mobility of each element within failings at the pH 5.0-3.0 of the reaction solution was in the order of Pb>Zn>Cd>Co=Cu>As. In case of pH 2.5-1.0 of the reaction solution, the relative mobility of each element within contaminated soils and tailings were in the order of Zn＞Cd>Cu>Co>Pb=As for contaminated soils, and Pb>Zn>Cd>hs>Co>Cu for tailings. The obtained results could be useful for assessing the environmental effects and setting up the restoration plan in the areas.

• Journal of Bio-Environment Control
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• v.26 no.4
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• pp.361-367
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• 2017

Production cost as well as environmental contamination can be reduced by reuse of drained nutrient solution in hydroponic. This research was conducted to obtain the information in changes in inorganic elements concentration of supplied and drained nutrient solution as well as of plant leaves. To achieve the objective, the samples of supplied and drained solution and cherry tomato leaf tissues were periodically collected and analyzed during the hydroponic cultivation. The electrical conductivity (EC) of supplied and drained nutrient solution in early growth stage of cherry tomato were measured as around $2.0dS{\cdot}m^{-1}$, but those values move up with the passage of time reaching to $2.0dS{\cdot}m^{-1}$ at flowering stage of 9th fruiting node. The pHs of drained solution in early growth stage were 6.4 to 6.7, however those showed a tendency to get lowered to 5.9 to 6.1 as time passed during the crop cultivation. The concentration differences of $NO_3-N$, P, K, Ca, and Mg between supplied and drained solution were not distinctive until flowering stages of 4th fruiting nodes, while those in drained solution moved up after the stage. The tissue N contents of leaves decrease gradually and those of K and Ca increased as crops grew. However, Tissue P and Mg contents were maintained similarly from transplant to end-crop. The above results would be used in correction of drained nutrient solution when element compositions are varied compared to supplied solution in hydroponic cultivation of tomatoes.