• 한국균학회소식:학술대회논문집
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• 한국균학회 2016년도 춘계학술대회 및 임시총회
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• pp.41-41
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• 2016

Influenza viruses are RNA viruses that belong to the Orthomyxoviridae family, and those can be divided into three types; A, B, and C, which based on the differences of the inner nucleoproteins and genomic structures. All three genera differ in their genomic structure and nucleoprotein content, they are further classified into various serotypes based on the two surface glycoproteins, hemagglutinin (HA) and neuraminidase (NA). These glycoproteins play crucial roles in viral infection and replication. Hemagglutinin mediates binding of virions to sialic acid receptors on the surfaces of target cells at the initial stage of infection. Neuraminidase cleaves the glycosidic bonds of sialic acids from the viral and cell surfaces to release the mature virions from infected cells, after viral replication. Because NA plays an important role in the viral life cycle, it is considered an attractive therapeutic target for the treatment of influenza. The methanolic extracts of Phellinus baumii and Phellinus igniarius exhibited significant activity in the neuraminidase inhibition assay. Polyphenolic compounds were isolated from the methanolic extracts. The structures of these compounds were determined to be hispidin, hypholomine B, inoscavin A, davallialactone, phelligridin D, phelligridin E, and phelligridin G by spectroscopic methods. Compounds inhibited the H1N1 neuraminidase activity in a dose-dependent manner with $IC_{50}$ values of 50.9, 22.9, 20.0, 14.2, 8.8, 8.1 and $8.0{\mu}M$, respectively. Moreover, these compounds showed anti-influenza activity in the viral cytopathic effect (CPE) reduction assay using MDCK cells. These results suggests that the polyphenols from P. baumii and P. igniarius are promising candidates for prevention and therapeutic strategies against viral infection.

• 한국잠사곤충학회지
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• 제25권2호
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• pp.1-31
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• 1984

가잠에 있어서 피해가 많은 전염성 연화병(Flacherie Virus; FV)과 농핵병 바이러스(Densonucleosis virus; DNV)의 증식에 관한 연구를 행하기 위하여 서당밀도 구배 초원심분리법에 의한 양바이러스의 정제 및 전자현미경에 의한 관찰, 바이러스 감염잠의 중장과 체액에서의 핵산과 단백질의 변동 및 감염중장 피막세포의 전자현미경에 의한 병리조직학적 관찰 등, 일연의 조사를 통하여 다음과 같은 연구결과를 얻었다. 1. 서당밀도구배에 의한 초원심분리법을 이용하여 FV 및 DNV를 분획한 결과, base line이 낮고 좌우상칭의 단일 peak를 나타내는 전형적인 바이러스 분획을 얻었으며, 또한 이들 바이러스의 negative 염색에 의한 전자현미경 관찰에서 FV는 27nm, DNV는 21nm의 균일한 구형입자임이 확인되었다. 2. 두 바이러스 감염잠의 체중은 바이러스 접종 6일 후부터, 중장중은 바이러스 접종 3일 후부터 건전잠에 비해 뚜렷한 감소를 나타냈다. 3. DNA의 양적 변화는 FV 및 DNV 감염잠에서 공히 중장에서는 전기간을 통해 건전잠에서 보다 높았고, 체액에서는 바이러스 접종 초ㆍ중기에는 큰 변화가 없고 바이러스 접종 7일 이후에는 건전잠에서 보다 훨씬 낮았다. 4. RNA의 양적 변화는 FV 및 DNV 감염잠에서 다같이 바이러스 접종 초기에 중장에서는 건전잠에 비해 높았고, 체액에서는 건전잠에 비해 매우 낮았으나, 바이러스 접종 말기에는 중장 및 체액의 경우 공히 건전잠에서 보다 현저히 낮았으며 그 정도는 DNV 감염잠에서 더 심했다. 5. FV 및 DNV 감염잠에서 중장과 체액의 단백질은 바이러스 접종 중기까지는 건전잠에 비해 큰 변화가 없었으나, 접종 말기에서는 건전잠에서 보다 월등히 낮았다. 6. 바이러스 접종 8일 후의 FV 및 DNV 감염잠 중장 RNA 전기영동상은 건전잠의 중장 RNA인 26S, 17S, 5S 및 4S의 4종 band와 동일했다. 7. FV 및 DNV 감염잠의 중장 단백질 전기영동상은 바이러스 접종 1일과 5일 후에는 건전잠의 것과 큰 차이가 없고, 접종 8일 후에는 건전잠에 존재하는 이동도가 낮은 L band가 양 바이러스 감염잠에서는 공히 소실되는 반면, 건전잠에서 볼 수 없는 이동도가 중간인 M band가 새로이 나타났으며 비교적 이동도가 높은 건전잠의 N band는 양 바이러스 감염잠에서는 2개로 분리되었다. 8. 체액단백질의 전기영동상은 FV 및 DNV감염잠 공히 건전잠의 것과 유사하나, 바이러스 접종 8일 후에는 양적인 감소를 나타내어 건전잠의 약 40%에 지나지 않았다. 9. FV 감염중장조직을 pyronin-methyl green 2종 염색을 하여 광학현미경으로 관찰한 결과, 바이러스 접종 8일 후의 중장원동세포내에서 A형 및 B형 봉입체가 형성되었음을 확인하였다. 10. FV감염 중장조직세포의 전자현미경 관찰에서는 바이러스 접종 5일 후에 배상세포의 'cytoplasmic wall'이 비대해지고 그 내부에 virus-specific vesicle이 형성되었으며, 바이러스 접종 8일 후에는 virus-specific vesicle, 바이러스 입자, linear structure, tubular structure 및 전자밀도가 높은 matrix 등의 바이러스 감염에 대한 특이적인 구조물이 배상세포의 세포질에서 관찰되었으며, microvilli내에서 바이러스 입자의 존재도 확정되었다. 특히 virus-specific vesicle 주위에서는 전자밀도가 높은 구형의 바이러스 입자 유사체가 관찰되었는데, 이것은 virus-specific vesicle 주위에서 바이러스 조립이 일어나는 것을 추정된다. 한편 원통세포 내에서 봉입체 관찰되고, 변형소구화된 배상세포가 중장강으로 탈락되는 것이 관찰되었다. 11. DNV감염 중장조직을 acridine orange 염색을 하여 형광현미경으로 관찰한 결과, DNV접종 5일 후에 본 바이러스 증식 장소인 원동세포핵의 비대가 뚜렷이 관찰되었다. 12. 전자현미경에 의해 DNV감염 중장조직세포를 관찰한 결과, 바이러스 접종 5일 후에 원동세포 핵내의 인이 소형 과립으로 붕괴되어 산재되었고, 접종 8일후에는 전자밀도가 높은 virogenic stroma가 출현하였으며, 감염 말기로 추정되는 핵내의 전자밀도가 전자보다 낮고 더욱 확대되어 핵의 대부분을 차지하는 virogenic stroma도 관찰되었다. 또한 이들 virogenic stroma내에서 바이러스 입자유사체가 관찰되는 것으로 보아 이 virogenic stroma는 바이러스 전구물질의 합성 및 바이러스 조립장소임을 시사하고 있다.

• 미생물학회지
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• 제45권2호
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• pp.140-147
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• 2009

경기도 김포 지역과 인천 서구 지역공단 주변에 위치한 소하천의 저니(sediment)에서 난분해성 염소화합물인 PCE (tetrachloroethylene)의 혐기성 탈염소화 능력이 있는 군집을 선별하고, 탈염소화에 관여하는 미생물을 탐색하였다. 혐기성 탈염소화 능력을 조사하기 위해 전자공여체로 lactate를 사용하여 혐기성 회분식 실험을 실시하였으며, 탈염소화 능력을 가진 군집을 선별하였다. 선발된 미생물군집은 분자생물학적 기법인 16S rRNA gene의 Polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) 기법과 탈염소화 미생물을 선택적으로 탐색할 수 있는 species-specific primer를 이용하여 분석하였다. 총 16개의 시료 중에서 접종 8주 만에 3개의 시료에서 ethene까지 탈염소화시켰으며, 4개의 시료에서 cis-1,2-dichloroethene (cis-DCE)까지 탈염소화시켰다. 또한, 16S rRNA gene을 이용한 PCR-DGGE와 탈염소화 species-specific primer를 이용하여 분석한 결과, PCE 탈염소화 시료 내에는 Dehalococcoides sp.와 Geobacter sp.가 주로 존재하였으며, Dehalobacter sp.도 일부 시료에서 검출되었다.

• International Journal of Industrial Entomology and Biomaterials
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• 제31권1호
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• pp.14-19
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• 2015

In a previous report, we identified several candidate antimicrobial peptides through de novo RNA sequencing of the centipede Scolopendra subspinipes mutilans. Here, we identify and characterize one of these peptides, Scolopendrasin I. We identified the centipede antimicrobial peptide Cecropin from the centipede transcriptome using an SVM algorithm, and subsequently analyzed the amino acid sequence for predicted secondary structure using a GOR algorithm. We identified an alpha helical region of Cecropin and named it Scolopendrasin I. We then assessed antimicrobial and hemolytic activity of Scolopendrasin I. Scolopendrasin I showed antimicrobial activity against various microbes, including antibiotic-resistant Gram-negative bacteria, in a radial diffusion assay. Scolopendrasin I had potent antibacterial activity against acne-associated microbes in a colony count assay and showed no hemolytic activity in a hemolysis assay. In addition, we confirmed that Scolopendrasin I bound to the surface of bacteria via a specific interaction with lipoteichoic acid and lipopolysaccharide, two components of bacterial cell membranes. In conclusion, the results presented here provide evidence that this is an efficient strategy for antimicrobial peptide candidate identification and that Scolopendrasin I has potential for successful antibiotic development.

• Toxicological Research
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• 제17권
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• pp.109-115
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• 2001

Abrus agglutinin was purified from the kernels of Abrus precatorius by Sepharose 4B affinity column chromatography followed by Sephadex G-100 gel filtration column chromatography. About 1.25 g of abrus agglutinin was obtained from 1 kg of the kernels. The LD$_{50}$ of abrus agglutinin is 5 mg/kg of body weight, which is less toxic than that of abrin, 20$\mu\textrm{g}$/kg body weight. The amino acid sequence of abrus agglutinin was determined by protein sequencing techniques and deduced from the nucleotide sequence of a cDNA clone encoding full length of abrus agglutinin. There are 258 residues, 2 residues and 267 residues in the A-chain, the linker peptide and the B-chain of abrus agglutinin, respectively. Abrus agglutinin had high homology to abrin-a (77.8%). The 13 amino acid residues involved in catalytic function, which are highly conserved among abrin and ricin, were also conserved within abrus agglutinin. The protein synthesis inhibitory activity of abrus agglutinin ($IC_{50}$/ = 3.5 nM) was weaker than that of abrin-a (0.05 nM). By molecular modeling followed by site-directed mutagenesis showed that Pro199 of abrus agglutinin A-chain located in amphipathic helix H and corresponding to Asn200 of abrin A-chain, can induce bending of helix H. This bending would presumably affect the binding of abrus agglutinin A-chain to its target sequence GpApGpAp, in the tetraloop structure of 285 r-RNA subunit and this could be one of major factors contributing to the relatively weak protein synthesis inhibitory activity and toxicity of abrus agglutinin.n.

• Journal of Microbiology and Biotechnology
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• 제9권1호
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• pp.113-118
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• 1999

The insulin-like growth factor (IGF) is found in all vertebrates and its type-II molecule is regarded as a fundamental embryonic growth factor during development. We have firstly identified, in this study, a cDNA clone corresponding to IGF-II (flIGF-II) from the adult brain of the teleost, Paralichthys olivaceus. We also examined the tissue expression of flIGF-II in several adult tissues by RT-PCR. The flIGF-II cDNA contained a complete ORF consisting of 215 amino acids and one stop codon. Its molecular characteristics appear to be similar to the previously identified IGF-II molecules, in which a common primary structure exhibiting B, C, A, D, and E domains is evidently observed. This cDNA clone seems to be cleaved at $Ala_{52}$ for the $NH_2$-end signal peptide and appears to produce a 98 amino acid-long E-peptide from the $Arg^{118}$. The functional B-D domain regions, therefore, include 65 amino acids and is able to encode a 7.4-kDa protein. The most prominent structural difference between IGF-I and IGF-II was that the D domain of IGF-II exhibits a two-codon-deleted pattern compared to the 8 amino acid-containing IGF-I. The insulin family signature in the A domain and six cysteins forming three disulfide bridges between the B and A domains were evolutionary-conserved from teleosts to mammalian IGF-II. Interestingly, the E-peptide region appears to provide a distinct hallmark between teleosts in amino acid composition. The flIGF-II shows 85.1% of sequence identity to salmon and trout, 90.6% to tilapia, and 98.4% to perch in amino acid level. In tissue expressions of IGF-II, it is very likely that flIGF-II has a significant expression in the adult brain. However, liver seems to be the main source for IGF-II production, and relatively low signals were observed in the adult muscle and kidney. Taken together, it would be concluded that the functional region for IGF-II mRNA is highly similar in phylogeny and is evolutionary, conserved as a mediator for the growth of vertebrates.

• Fisheries and Aquatic Sciences
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• 제17권4호
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• pp.471-478
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• 2014

Genomic organization, including the structural characteristics of 5'-flanking regions of two 65-kDa protein (WAP65) isoform genes associated with warm temperature acclimation, were characterized and their transcriptional responses to immune challenges were examined in the intestine, kidney and spleen of the mud loach (Misgurnus mizolepis; Cypriniformes). Both mud loach Wap65 isoform genes displayed a 10-exon structure that is common to most teleostean Wap65 genes. The two mud loach Wap65 isoforms were predicted to possess various stress- and immune-related transcription factor binding sites in their regulatory regions; however, the predicted motif profiles differed between the two isoforms, and the inflammation-related transcription factor binding motifs, such as NF-${\kappa}B$ and CREBP sites, were more highlighted in the Wap65-2 isoform than the Wap65-1 isoform. The results of qRT-PCR indicated that experimental immune challenges using Edwardsiella tarda, lipopolysaccharide or polyI:C induced the Wap65-2 isoform more than Wap65-1 isoform, although modulation patterns in response to these challenges were tissue- and stimulant-dependent. This study confirms that functional diversification between the two mud loach Wap65 isoforms (i.e., closer involvement of Wap65-2 in the acute phase of inflammation and innate immunity) occurs at the mRNA level in multiple tissues, and suggests that such differential modulation patterns between the two isoforms are related to the different transcription factor binding profiles in their regulatory regions.

• 한국진공학회:학술대회논문집
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• 한국진공학회 2011년도 제40회 동계학술대회 초록집
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• pp.21-21
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• 2011

A series of Quasi-Elastic Neutron Scattering (QENS) experiments helps us to understand the single-particle (hydrogen atom) dynamics of a globular protein and its hydration water and strong coupling between them. We also performed Molecular Dynamics (MD) simulations on a realistic model of the hydrated hen-egg Lysozyme powder having two proteins in the periodic box. We found the existence of a Fragile-to-Strong dynamic Crossover (FSC) phenomenon in hydration water around a protein occurring at TL=$225{\pm}5K$ by analyzing Intermediate Scattering Function (ISF). On lowering of the temperature toward FSC, the structure of hydration water makes a transition from predominantly the High Density Liquid (HDL) form, a more fluid state, to predominantly the Low Density Liquid (LDL) form, a less fluid state, derived from the existence of a liquid?liquid critical point at an elevated pressure. We showed experimentally and confirmed theoretically that this sudden switch in the mobility of the hydration water around a protein triggers the dynamic transition (so-called glass transition) of the protein, at a temperature TD=220 K. Mean Square Displacement (MSD) is the important factor to show that the FSC is the key to the strong coupling between a protein and its hydration water by suggesting TL${\fallingdotseq}$TD. MD simulations with TIP4P force field for water were performed to understand hydration level dependency of the FSC temperature. We added water molecules to increase hydration level of the protein hydration water, from 0.30, 0.45, 0.60 and 1.00 (1.00 is the bulk water). These confirm the existence of the FSC and the hydration level dependence of the FSC temperature: FSC temperature is decreased upon increasing hydration level. We compared the hydration water around Lysozyme, B-DNA and RNA. Similarity among those suggests that the FSC and this coupling be universal for globular proteins, biopolymers.

• Genomics & Informatics
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• 제14권3호
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• pp.104-111
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• 2016

Zika virus (ZIKV) is a mosquito borne pathogen, belongs to Flaviviridae family having a positive-sense single-stranded RNA genome, currently known for causing large epidemics in Brazil. Its infection can cause microcephaly, a serious birth defect during pregnancy. The recent outbreak of ZIKV in February 2016 in Brazil realized it as a major health risk, demands an enhanced surveillance and a need to develop novel drugs against ZIKV. Amodiaquine, prochlorperazine, quinacrine, and berberine are few promising drugs approved by Food and Drug Administration against dengue virus which also belong to Flaviviridae family. In this study, we performed molecular docking analysis of these drugs against nonstructural 3 (NS3) protein of ZIKV. The protease activity of NS3 is necessary for viral replication and its prohibition could be considered as a strategy for treatment of ZIKV infection. Amongst these four drugs, berberine has shown highest binding affinity of -5.8 kcal/mol and it is binding around the active site region of the receptor. Based on the properties of berberine, more similar compounds were retrieved from ZINC database and a structure-based virtual screening was carried out by AutoDock Vina in PyRx 0.8. Best 10 novel drug-like compounds were identified and amongst them ZINC53047591 (2-(benzylsulfanyl)-3-cyclohexyl-3H-spiro[benzo[h]quinazoline-5,1'-cyclopentan]-4(6H)-one) was found to interact with NS3 protein with binding energy of -7.1 kcal/mol and formed H-bonds with Ser135 and Asn152 amino acid residues. Observations made in this study may extend an assuring platform for developing anti-viral competitive inhibitors against ZIKV infection.

• Molecules and Cells
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• 제37권5호
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• pp.372-382
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• 2014

In this study, the chloroplast (cp) genome sequences from three early diverged leptosporangiate ferns were completed and analyzed in order to understand the evolution of the genome of the fern lineages. The complete cp genome sequence of Osmunda cinnamomea (Osmundales) was 142,812 base pairs (bp). The cp genome structure was similar to that of eusporangiate ferns. The gene/intron losses that frequently occurred in the cp genome of leptosporangiate ferns were not found in the cp genome of O. cinnamomea. In addition, putative RNA editing sites in the cp genome were rare in O. cinnamomea, even though the sites were frequently predicted to be present in leptosporangiate ferns. The complete cp genome sequence of Diplopterygium glaucum (Gleicheniales) was 151,007 bp and has a 9.7 kb inversion between the trnL-CAA and trnV-GCA genes when compared to O. cinnamomea. Several repeated sequences were detected around the inversion break points. The complete cp genome sequence of Lygodium japonicum (Schizaeales) was 157,142 bp and a deletion of the rpoC1 intron was detected. This intron loss was shared by all of the studied species of the genus Lygodium. The GC contents and the effective numbers of codons (ENCs) in ferns varied significantly when compared to seed plants. The ENC values of the early diverged leptosporangiate ferns showed intermediate levels between eusporangiate and core leptosporangiate ferns. However, our phylogenetic tree based on all of the cp gene sequences clearly indicated that the cp genome similarity between O. cinnamomea (Osmundales) and eusporangiate ferns are symplesiomorphies, rather than synapomorphies. Therefore, our data is in agreement with the view that Osmundales is a distinct early diverged lineage in the leptosporangiate ferns.