• Title/Summary/Keyword: BioInformatics

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Purification and Characterization of $\beta$-Xylosidase from Trichoderma sp. SY

  • Kim, Bong-Gyu;Jung, Bo-Ra;Jung, Jae-Gyu;Hur, Hor-Gil;Ahn, Joong-Hoon
    • Journal of Microbiology and Biotechnology
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    • v.14 no.3
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    • pp.643-645
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    • 2004
  • A $\beta$-xylosidase was purified from the culture of Trichoderma sp. SY. The ten-day-old culture filtrate was concentrated, followed by ion-exchange chromatography and gel filtration chromatography. As a result, $\beta$-xylosidase was finally purified about 53-fold and appeared as a single band by SDS-PAGE. The optimum pH and temperature were 5.0 and $55^{\circ}C$, respectively, and the molecular weight about 80 kDa. The purified $\beta$-xylosidase was found to be inhibited by various metal ions but not inhibited by xylose.

Streptomyces with Antifungal Activity Against Rice Blast Causing Fungus, Magnaporthe grisea

  • Lee, Chul-Hoon;Kim, Bum-Joon;Choi, Gyung-Ja;Cho, Kwang-Yun;Yang, Hee-jung;Shin, Choon-Shik;Min, Shin-Young;Lim, Yoon-Gho
    • Journal of Microbiology and Biotechnology
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    • v.12 no.6
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    • pp.1026-1028
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    • 2002
  • Screening tests against fungus causing rice blast, Magnaporthe grisea, were performed in order to develop biopesticides. More than 400 actinomycetes collected at several sites near Hanla Mountain on Jeju Island, Korea were tested, and strain BG2-53 showed potent antifungal activity. The in vivo screening was performed with fermentation broth, and the strain taxon was identified.

Complete Assignments of the 1H and 13C NMR Data of Flavone Derivatives

  • Moon, Byoung-Ho;Lee, Young-Shim;Shin, Choon-Shik;Lim, Yoong-Ho
    • Bulletin of the Korean Chemical Society
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    • v.26 no.4
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    • pp.603-608
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    • 2005
  • The $^1H\;and\;^{13}C$ chemical shifts of flavone and its five derivatives were determined completely using the basic 1D and 2D NMR experiments and molecular modeling. Of the six compounds used for our experiments, the NMR data of three compounds were published previously, but we found that the data of two compounds included wrong assignments. Therefore, we report the corrected data and the complete assignments of NMR data of the other three compounds.

Molecular Design of New Organic Electroluminescence Materials: DCM Derivatives

  • Seong, See-Yearl;Park, Sung-Soo;Seo, Jeong-In;No, Kyoung-Tai;Hong, Jong-In;Park, Su-Jin;Choi, Seung-Hoon;Lee, Han-Yong
    • 한국정보디스플레이학회:학술대회논문집
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    • 2003.07a
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    • pp.178-180
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    • 2003
  • We performed semiempirical (AMl and ZINDO) and ab initio (HF and DFT) calculations, to investigate molecular structures and optical properties of DCM and its derivatives. DCM and its derivatives are used as a red fluorescent dopant of the organic electroluminescent host materials, $Alq_3$. We have studied the relationship between the molecular structure and the optical properties of these molecules for the improvement of EL efficiencies. Wavelength at the absorption maximum was found to be red-shifted when the molecule is substituted with both strong electron donating and withdrawing functional groups. A new red fluorescent dye was predicted by QSPR study based on calculations and experimental data.

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Inhibition of Overexpressed CDC-25.1 Phosphatase Activity by Flavone in Caenorhabditis elegans

  • Kim, Koo-Seul;Kawasaki, Ichiro;Chong, Youhoon;Shim, Yhong-Hee
    • Molecules and Cells
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    • v.27 no.3
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    • pp.345-350
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    • 2009
  • We previously reported that flavone induces embryonic lethality in Caenorhabditis elegans, which appeared to be the result of cell cycle arrest during early embryogenesis. To test this possibility, here we examined whether flavone inhibits the activity of a key cell cycle regulator, CDC-25.1 in C. elegans. A gain-of-function cdc-25.1 mutant, rr31, which exhibits extra cell divisions in intestinal cells, was used to test the inhibitory effects of flavone on CDC-25 activity. Flavone inhibited the extra cell divisions of intestinal cells in rr31, and modifications of flavone reduced the inhibitory effects. The inhibitory effects of flavone on CDC-25.1 were partly, if not completely, due to transcriptional repression.

Current Status of Microbial Phenylethanoid Biosynthesis

  • Kim, Song-Yi;Song, Min Kyung;Jeon, Ju Hyun;Ahn, Joong-Hoon
    • Journal of Microbiology and Biotechnology
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    • v.28 no.8
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    • pp.1225-1232
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    • 2018
  • Phenylethanoids, including 2-phenylethanol, tyrosol, and salidroside are a group of phenolic compounds with a C6-C2 carbon skeleton synthesized by plants. Phenylethanoids display a variety of biological activities, including antibacterial, anticancer, anti-inflammatory, neuroprotective, and anti-asthmatic activities. Recently, successful microbial synthesis of phenylethanoids through metabolic engineering and synthetic biology approaches has been reported and could allow phenylethanoid production from alternative microbial sources. Here, we review the recent achievements in the synthesis of phenylethanoids by microorganisms. The work done so far will contribute to the production of diverse phenylethanoids using various microbial systems and facilitate exploration of further diverse biological activities of phenylethanoids.

Relationships Between the Larval Growth Inhibition of Caenorhabditis elegans by Apigenin Derivatives and Their Structures

  • Yoon, Young-Ah;Kim, Ho-Jung;Lim, Yoong-Ho;Shim, Yhong-Hee
    • Archives of Pharmacal Research
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    • v.29 no.7
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    • pp.582-586
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    • 2006
  • Due to consumer reluctance to take synthetic drugs for nematode infections and the appearance of resistance to anthelminthic drugs, new drugs from natural products must be developed. Caenorhabditis elegans is one of the freely living nematodes and serves as a good model system for screening anthelminthic drugs. In this study, thirteen flavonoid derivatives were tested for anthelminthic activity and the relationships between their activities and structures were investigated. The structural information combined with the data for the larval growth inhibition of C. elegans provided meaningful structural insights in the search for new anthelminthic drugs.

A review of drug knowledge discovery using BioNLP and tensor or matrix decomposition

  • Gachloo, Mina;Wang, Yuxing;Xia, Jingbo
    • Genomics & Informatics
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    • v.17 no.2
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    • pp.18.1-18.10
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    • 2019
  • Prediction of the relations among drug and other molecular or social entities is the main knowledge discovery pattern for the purpose of drug-related knowledge discovery. Computational approaches have combined the information from different sources and levels for drug-related knowledge discovery, which provides a sophisticated comprehension of the relationship among drugs, targets, diseases, and targeted genes, at the molecular level, or relationships among drugs, usage, side effect, safety, and user preference, at a social level. In this research, previous work from the BioNLP community and matrix or matrix decomposition was reviewed, compared, and concluded, and eventually, the BioNLP open-shared task was introduced as a promising case study representing this area.