• Title/Summary/Keyword: molecular data

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Methodology for Describing Different Phase States of Molecular Nitrogen

  • Cho, Haeng Muk;Kudryavtsev, I.N.;Kramskoy, A.V.
    • Journal of Energy Engineering
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    • v.23 no.4
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    • pp.215-222
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    • 2014
  • A theory-based methodology for describing the thermodynamic properties of molecular nitrogen is presented. The results obtained indicate a successful application of a fully consistent statistical method for the description of a molecular system in different phase states. The method employs a density of states equation for solid nitrogen and a perturbation potential for gaseous and liquid nitrogen. The main characteristics of the calculation method include the need for a minimal number of initial data and the absence of fitting parameters. The adequacy of the physical model that is the basis for the method allows a description of existing experimental data and the peculiarities of the thermodynamic properties.

Consideration of Long and Middle Range Interaction on the Calculation of Activities for Binary Polymer Solutions

  • Lee, Seung-Seok;Bae, Young-Chan;Sun, Yang-Kook;Kim, Jae-Jun
    • Macromolecular Research
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    • v.16 no.4
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    • pp.320-328
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    • 2008
  • We established a thermodynamic framework of group contribution method based on modified double lattice (MDL) model. The proposed model included the long-range interaction contribution caused by the Coulomb electrostatic forces, the middle-range interaction contribution from the indirect effects of the charge interactions and the short-range interaction from modified double lattice model. The group contribution method explained the combinatorial energy contribution responsible for the revised Flory-Huggins entropy of mixing, the van der Waals energy contribution from dispersion, the polar force, and the specific energy contribution from hydrogen bonding. We showed the solvent activities of various polymer solution systems in comparison with theoretical predictions based on experimental data. The proposed model gave a very good agreement with the experimental data.

Molecular Characterization of Nippostrongylus brasiliensis (Nematoda: Heligmosomatidae) from Mus musculus in India

  • Chaudhary, Anshu;Goswami, Urvashi;Singh, Hridaya Shanker
    • Parasites, Hosts and Diseases
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    • v.54 no.6
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    • pp.743-750
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    • 2016
  • Mus musculus (Rodentia: Muridae) has generally been infected with a rodent hookworm Nippostrongylus brasiliensis. In this report, we present morphological and molecular identification of N. brasiliensis by light and scanning electron microscopy and PCR amplification of mitochondrial cytochrome c oxidase subunit 1 (cox1) gene and the protein sequences encoded by cox1 gene, respectively. Despite the use of N. brasiliensis in many biochemistry studies from India, their taxonomic identification was not fully understood, especially at the species level, and no molecular data is available in GenBank from India. Sequence analysis of cox1 gene in this study revealed that the present specimen showed close identity with the same species available in GenBank, confirming that the species is N. brasiliensis. This study represents the first record of molecular identification of N. brasiliensis from India and the protein structure to better understand the comparative phylogenetic characteristics.

PCR-Based Sensitive Detection of Wood-Decaying Fungus Phellinus linteus by Specific Primer from rDNA ITS Regions

  • Park, Dong-Suk;Kang, Hee-Wan;Kim, Ki-Tae;Cho, Soo-Muk;Park, Young-Jin;Shin, Hye-Sun;Lee, Byoung-Moo;Go, Seung-Joo
    • Mycobiology
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    • v.29 no.1
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    • pp.7-10
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    • 2001
  • Based on the rDNA ITS sequences data, specific primer set for PCR detection of wood-decaying fungus Phellinus linteus was designed. The length of PCR products using designed primer set(SHF and SHR) was about 540 bp. Among 11 species, 17 isolates of Phellinus spp. including Phellinus linteus, P. pomaceus, P. spiculosus, P. baumi, P. pini, P. igniarius, P. gilvus, P. biscuspidatus, P. weirii, P. johnsonianus, P. robutus, and P. igniarius, seven isolates of Phellinus linteus showed about 540 bp-sized single band. This molecular technique could offer a useful tool for detecting and identifying Phellinus linteus.

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A New Method to Measure the Conversion of Radiation Polymerization of Electrolyte Monomer Diallyldimethylammonium Chloride in Dilute Aqueous Solution

  • Zhang, Yalong;Yi, Min;Ren, Jing;Zhai, Maolin;Ha, Hongfei
    • Macromolecular Research
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    • v.11 no.3
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    • pp.146-151
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    • 2003
  • The dependence of electrical conductivity on concentrations of diallyldimethylammonium chloride (DADMAC) monomer, linear poly(DADMAC) and their mixture monomer/poly(DADMAC) in dilute aqueous solution exhibits a linear relationship. It was possible to calculate conversion of DADMAC polymerization by measuring its electric conductivity. Although the electrical conductivity of the poly(DADMAC) solution decreased with increasing its molecular weight, in the process of UV or ionizing radiation polymerization the molecular weight of the polymers could be kept constant in the case of fixed temperature, UV-luminous intensity or dose rate. Based on the method mentioned above, the kinetics of UV induced polymerization of DADMAC in aqueous solution was studied; the overall activation energy of polymerization of DADMAC in the water phase was calculated to be 18.8 kJ mol$^{-1}$ . ${\gamma}$-Radiation-induced polymerization of DADMAC in aqueous solution as a function of absorbed dose was studied as well. The conversion of DADMAC increased quickly with dose before 30 kGy and then increased slowly. The experimental data of both UV- and ${\gamma}$-induced polymerization were verified to be reliable by inverted ultracentrifugation method.

A Lattice Model for Intra-molecular and Inter-molecular Association in Mixture containing Surfactants (계면활성제를 함유한 혼합물에서 내외부 분자회합을 위한 격자모델)

  • Shin, Moon-Sam
    • Journal of the Korea Academia-Industrial cooperation Society
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    • v.11 no.5
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    • pp.1768-1772
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    • 2010
  • Intra-molecular association is an important contribution to the overall hydrogen bonding in surfactant systems, especially in systems of colloidal and biological interest. Amphiphile systems, especially micelle and microemulsion systems, showed highly non-ideal behavior due to the intermolecular association and intra-molecular association. The objective of this research is to present a lattice fluid equation of state that combines the quasi-chemical nonrandom lattice fluid model with modified Veytsman statistics for intra + inter molecular association to calculate phase behavior for mixture containing surfactant systems. The lattice model could describe the literature data well for alkane and surfactant systems.

High-concentration Epigallocatechin Gallate Treatment Causes Endoplasmic Reticulum Stress-mediated Cell Death in HepG2 Cells

  • Ahn, Joon-Ik;Jeong, Kyoung-Ji;Ko, Moon-Jeong;Shin, Hee-Jung;Chung, Hye-Joo;Jeong, Ho-Sang
    • Genomics & Informatics
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    • v.7 no.2
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    • pp.97-106
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    • 2009
  • Epigallocatechin gallate (EGCG), a well-known antioxidant molecule, has been reported to cause hepatotoxicity when used in excess. However, the mechanism underlying EGCG-induced hepatotoxicity is still unclear. To better understand the mode of action of EGCG-induced hepatotoxicity, we examined the effect of EGCG on human hepatic gene expression in HepG2 cells using microarrays. Analyses of microarray data revealed more than 1300 differentially expressed genes with a variety of biological processes. Upregulated genes showed a primary involvement with protein-related biological processes, such as protein synthesis, protein modification, and protein trafficking, while downregulated genes demonstrated a strong association with lipid transport. Genes involved in cellular stress responses were highly upregulated by EGCG treatment, in particular genes involved in endoplasmic reticulum (ER) stress, such as GADD153, GADD34, and ATF3. In addition, changes in genes responsible for cholesterol synthesis and lipid transport were also observed, which explains the high accumulation of EGCG-induced lipids. We also identified other regulatory genes that might aid in clarifying the molecular mechanism underlying EGCG-induced hepatotoxicity.

Characterization of a Low Molecular Weight Heat-Shock Protein cDNA Clone from Nicotiana tabacum

  • Park, Soo-Min;Joe, Myung-Kuk;Hong, Choo-Bong
    • Proceedings of the Botanical Society of Korea Conference
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    • 1999.04a
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    • pp.18-18
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    • 1999
  • We characterized a cDNA clone for a low molecular weight heat-shock protein (LMW HSP) from tobacco named TLHS-l. Nucleotide sequence determination of TLHS-1 identified an open reading frame for 159 amino acids. To the upstream of the open reading frame, a sequence of 124 nucleotides was determined. To the 3' downstream of the open reading frame, 212 nucleotides were identified which carried poly(A)-tail. Comparison of the open reading frame and hydropathy plot of TLHS-1 with the previously reported class I LMW HSPs showed high identity which classified TLHS-1 as a class I LMW HSP cDNA clone. We proposed that there are six consensus regions in class I LMW HSPs. RNA blot hybridization for TLHS-1 showed a typical expression pattern of heat-shock-inducible gene from three common tobacco cultivars. The open reading frame of TLHS-1 was overexpressed in Escherichia coli. TLHS-1 protein confers thermal protection of other proteins in vitro and in vivo. Thermal induced aggregation of citrate synthase was reduced by purified TLHS-1 protein, and thermal death rate at $50^{\circ}C$ was reduced in E. coli expressing TLHS-l. From these data, we can expect that TLHS-1 acts as a molecular chaperone.perone.

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Numerical Identification of a Streptomyces Strain Producing $eta$-Sactamase Inhibitor ($eta$-Lactamase 저해 물질을 생산하는 Streptomyces속 분리균주의 수리동정)

  • Kim, Myung-Kuk;Kim, Hyoung-Tae;Kim, Tae;Yang, Doo-Suck;Alan C. Ward;Michael Goodfellow;Hah, Yung-Chil;Lee, Kye-Joon
    • Korean Journal of Microbiology
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    • v.30 no.5
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    • pp.415-420
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    • 1992
  • Numerical identification was carried out for an isolate of Streptomyces strain producing the extracellular .betha.-lactamase inhibitor. Fifty taxonbomic unit characters were tested and the data were analyzed numerically using the TAXON program. The isoalte was identified to the majro cluster 5 of Streptomyces and it was best matched to Strepstomyces omiyaensis which is a synonym of Streptomyces exfoliatus. Therefore, it was concluded that the isolate was identified to be a strain (SMF19) of Streptomyces exfoliatus.

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Integrative taxonomic description of two new species of the Cocconeis placentula group (Bacillariophyceae) from Korea based on unialgal strains

  • Jahn, Regine;Abarca, Nelida;Kusber, Wolf-Henning;Skibbe, Oliver;Zimmermann, Jonas;Mora, Demetrio
    • ALGAE
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    • v.35 no.4
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    • pp.303-324
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    • 2020
  • Cocconeis coreana and C. sijunghoensis are described as new based on micromorphological and molecular data. C. coreana is represented by five unialgal cultures from four different freshwater bodies, two from North Korea and three from South Korea. C. sijunghoensis is represented by two unialgal cultures from a brackish water body in North Korea. Except for one, all of the strains auxosporulated and showed an almost quadrupling of size in length and width. Morphologically, these species with their two different elliptical valves belong to the Cocconeis placentula group. The raphe valve has striae with uniseriate areolae continuing across a pronounced submarginal hyaline rim to the edge of the valve. The sternum valve has uniseriate dash-like areolae continuously from the valve face until the valve edge. Micromorphologically, these species possess two different open valvocopulae: only the raphe valvocopula has fimbriae; the sternum valvocopula has none. Based on p-distances of currently available DNA sequence data, i.e., rbcL and 18SV4, both species are pronouncedly different from the epitype strain of C. placentula, with C. coreana closest to the published molecular data of the strain UTEX FD23 named C. placentula from Iowa, USA, while C. sijunghoensis is closest but not the same as the published molecular data of strain D36_012, the epitype strain of C. placentula from Berlin, Germany. Based on scanning electron microscope observations, differentiating features are discussed concerning valvocopula fimbriae, central area, areolation of the sternum valve and on the raphe valve especially between the submarginal hyaline rim and edge.