• Journal of Microbiology and Biotechnology
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• 제23권8호
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• pp.1055-1059
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• 2013

The ectomycorrhizal fungus Tricholoma matsutake grows symbiotically with Pinus densiflora. Phenylalanine ammonia-lyase (E.C. 4.3.1.24) catalyzes the conversion of L-phenylalanine to trans-cinnamic acid. The role of fungal phenylalanine ammonia-lyase, however, has not been clear until now. In this study, the gene encoding phenylalanine ammonia-lyase (PAL), which was isolated from T. matsutake, was cloned and characterized. The PAL gene (tmpal) consists of 2,160 nucleotides, coding for a polypeptide containing 719 amino acid residues. The deduced amino acid sequence of tmpal from T. matsutake shows high identity (70%) with that from Laccaria bicolor. Comparative analysis of the PAL genes among T. matsutake and other species of the class Agaricomycetes showed that both active sites and binding sites were significantly conserved among these genes. The transcriptional analysis of the PAL gene revealed a differential gene expression pattern depending on the developmental stages (mycelium, primordium, stipe, pileus, and gills) of T. matsutake. These results suggest that the PAL gene in T. matsutake plays an important role in multiple physiological functions.

• Molecules and Cells
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• 제26권6호
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• pp.554-557
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• 2008

Double-stranded RNA (dsRNA) induces gene silencing in a sequence-specific manner by a process known as RNA interference (RNAi). The RNA-induced silencing complex (RISC) is a multi-subunit ribonucleoprotein complex that plays a key role in RNAi. VIG (Vasa intronic gene) has been identified as a component of Drosophila RISC; however, the role VIG plays in regulating RNAi is poorly understood. Here, we examined the spatial and temporal expression patterns of VIG-1, the C. elegans ortholog of Drosophila VIG, using a vig-1::gfp fusion construct. This construct contains the 908-bp region immediately upstream of vig-1 gene translation initiation site. Analysis by confocal microscopy demonstrated GFP-VIG-1 expression in a number of tissues including the pharynx, body wall muscle, hypodermis, intestine, reproductive system, and nervous system at the larval and adult stages. Furthermore, western blot analysis showed that VIG-1 is present in each developmental stage examined. To investigate regulatory sequences for vig-1 gene expression, we generated constructs containing deletions in the upstream region. It was determined that the GFP expression pattern of a deletion construct (${\Delta}-908$ to -597) was generally similar to that of the non-deletion construct. In contrast, removal of a larger segment (${\Delta}-908$ to -191) resulted in the loss of GFP expression in most cell types. Collectively, these results indicate that the 406-bp upstream region (-596 to -191) contains essential regulatory sequences required for VIG-1 expression.

• 천문학회보
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• 제35권2호
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• pp.27.2-27.2
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• 2010

We report the HST pixel analysis results of the interacting face-on spiral galaxy, NGC 5194 (M51), which is the first step of a new observational research project, PANCluG (Pixel Analysis of Nearby Cluster Galaxies). We derive several quantities describing the pixel color-magnitude diagram (pCMD) of NGC 5194, suitable for future comparisons with the pCMDs of other galaxies. We investigate the spatial distribution of pixel stellar populations, finding that the spiral arm pattern and the tidal interaction with NGC 5195 significantly affect the stellar populations in NGC 5194. We find that the pixels corresponding to the central active galactic nucleus (AGN) of NGC 5194 show a very tight sequence in the bright-end of the pCMD, of which spatial distribution seems to agree with the AGN torus region.

• The Plant Pathology Journal
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• 제20권2호
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• pp.131-134
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• 2004

A strain of Cucumber mosaic virus (CMV) was isolated from a weed, water chickweed (Stellaria aquatica), growing in the pepper field in Chunchon, Korea. This isolate, CMV-Sa, was differentiated from other CMVs based on biological properties and nucleotide sequence analysis of the coat protein (CP) gene. CMV-Sa showed different reactions to all the tested plants, except Capsicum annuum and Cucumis sativus, when compar-ed with those of CMV-Mf (subgroup I) and CMV-PaFM (subgroup II). Remarkably, in Nicotiana tabacum cvs. Samsun, Xanthi-nc and Ky-57, CMV-Sa induced local necrotic ring spots on the inoculated leaves and venal wave pattern and mosaic on the upper leaves. RNA analysis, serology, and RT-PCR of CP gene showed that CMV-Sa belonged to subgroup I of CMV. However, restriction enzyme analysis of the cDNA using AluI, HhaI, HincII, HindIII, HinfI and MspI showed that CMV-Sa was distinct from that of CMV-Mf. Based on comparison of the nucleotide of CP gene and deduced amino acid sequences between other CMV strains, CMV-Sa was closely related to CMV-Mf with 93.7% and 97.2 % identity, respectively.

• 한국자원식물학회지
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• 제21권3호
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• pp.210-215
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• 2008

Gene-expression analysis is increasingly important in biological research, with real-time reverse PCR (RTPCR) becoming the method of choice for high-throughput and accurate expression profiling of selected genes. However, this technique requires important preliminary work for standardizing and optimizing the many parameters involved in the analysis. Plant stress studies are more and more based on gene expression. The analysis of gene expression requires sensitive and reproducible measurements for specific mRNA sequence. Several genes are regulated in response to abitoic stresses, such as salinity, and their gene products function in stress response and tolerance. The design of the primers and TaqMan probes for real-time PCR assays were carried out using the Primer $Express^{TM}$ software 3.0. The PCR efficiency was estimated through the linear regression of the dilution curve. To understand the expression pattern of various genes under salt stressed condition, we have developed a unique public resource of 9 stress-related genes in poplar. In this study, real-time RT-PCR was used to quantify the transcript level of 10 genes (9 stress-related genes and 1 house keeping gene) that could play a role in adaptation of Populus davidiana. Real-time RT-PCR analyses exhibited different expression ratios of related genes. The data obtained showed that determination of mRNA levels could constitute a new approach to study the stress response of P. davidiana after adaptation during growth in salinity condition.

• Journal of Microbiology and Biotechnology
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• 제33권11호
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• pp.1412-1419
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• 2023

Retroviral integration into ancient vertebrate genomes left traces that can shed light on the early history of viruses. In this study, we explored the early evolution of retroviruses by isolating nine Spuma endogenous retroviruses (ERVs) and one Epsilon ERV from the genomes of Agnatha and Chondrichthyes. Phylogenetic analysis of protein sequences revealed a striking pattern of co-evolution between jawless fish ERV and their host, while shark ERV underwent ancient cross-class viral transmission with jawless fish, ray-finned fish, and amphibians. Nucleotide sequence analysis showed that jawless fish ERV emerged in the Palaeozoic period, relatively later than ray-finned fish ERV. Moreover, codon analysis suggested that the jawless fish ERV employed an infection strategy that mimics the host codon. The genealogical diversity of ERVs in the jawless fish genome highlights the importance of studying different viral species. Overall, our findings provide valuable insights into the evolution of retroviruses and their interactions with their hosts.

• 인터넷정보학회논문지
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• 제10권2호
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• pp.1-13
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• 2009

침입탐지란 컴퓨터와 네트워크 자원에 대한 유해한 침입 행동을 식별하고 대응하는 과정이다. 최근 인터넷의 급속한 발달과 함께 침입의 유형들이 복잡해지고 새로운 침입유형의 발생빈도가 높아져 이에 대한 빠르고 정확한 대응이 필요하다. 따라서 이 논문에서는 침입탐지 시스템의 이러한 문제점을 해결하기 위한 한 방안으로 지능적이고 자동화된 탐지를 지원하기 위한 경보데이터 순차 패턴 마이닝 기법을 제안한다. 제안된 순차 패턴 마이닝 기법은 기존의 마이닝 기법 중 prefixSpan 알고리즘을 경보데이터의 특성에 맞게 확장 설계하였다. 이 확장 설계된 순차패턴 마이너는 보안정책 실행시스템의 경보데이터 분석기의 일부분으로 구성된다. 구현된 순차패턴 마이너는 탐사된 패턴 내에서 적용 가능한 침입패턴들을 찾아내어 효율적으로 침입을 탐지하여 보안정책 실행 시스템에서 이를 기반으로 새로운 보안규칙을 생성하고 침입에 대응할 수 있다. 제안된 경보데이터 순차 패턴 마이너를 이용하여 침입의 시퀀스의 행동을 예측하거나 기술하는 규칙들을 생성하므로 침입을 효율적으로 예측하고 대응할 수 있다.

• 한국정보과학회논문지:시스템및이론
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• 제37권6호
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• pp.354-367
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• 2010

시계열 데이터에서 패턴을 분석하는 기법은 많은 발전이 이루어져 오고 있다. 그러나 주식시장의 경우 시계열 데이터임에도 불구하고 패턴 분석 및 예측은 많은 연구가 이루어지지 않고 있으며 예측도가 매우 낮다. 그 이유는 주가의 등락 자체가 본질적으로 무작위하다고 하면 어떠한 과학적 방법으로도 그 예측은 불가능하다. 본 연구에서는 주가의 등락이 보여주는 무작위성의 정도를 Kolmogorov 복잡도를 이용해 측정하여 그 무작위의 정도와 본 논문에서 제시한 반 전역정렬(semi-global alignment)로 예측할 수 있는 주가의 예측의 정확간의 깊은 상관관계가 있음을 보인다. 이를 위해서 주가지수의 등락을 양자화된 문자열로 변환하고 그 문자열의 Kolmogorov 복잡도를 이용해 주가 변동의 무작위성을 측정하였다. 우리는 KOSPI 주식 데이터 28년 690개의 데이터를 수집하여 이를 실험용 데이터로 사용하여 본 논문에서 제시한 방법의 의미를 평가하였다. 그 결과 Kolmogorov 복잡도가 높은 경우에는 변동 예측이 어려우며, Kolmogorov 복잡도가 낮은 경우에는 주식 변동 예측은 가능하나 3종류의 예측율에 대해서 투자자들이 관심이 많은 등락 예측율은 단기 예측은 12% 이상의 예측율을 보일 수 없으며, 장기 예측의 경우 54%의 예측율로 수렴함을 확인하였다.

• 수면정신생리
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• 제17권2호
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• pp.75-84
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• 2010

The cyclic alternating pattern (CAP) is a periodic EEG activity in NREM sleep, characterized by sequences of transient electrocortical events that are distinct from background EEG activities. A CAP cycle consists of two periodic EEG features, phase A and subsequent phase B whose durations are 2-60 s. At least two consecutive CAP cycles are required to define a CAP sequence. The CAP phase A is a phasic EEG event, such as delta bursts, vertex sharp transients, K-complex sequences, polyphasic bursts, K-alpha, intermittent alpha, and arousals. Phase B is repetitive periods of background EEG activity. The absence of CAP more than 60 seconds or an isolated phase A is classified as non-CAP. Phase A activities can be classified into three subtypes (A1, A2, and A3), based on the amounts of high-voltage slow waves (EEG synchrony) and low-amplitude fast rhythms (EEG desynchrony). CAP rate, the percentage of CAP durations in NREM sleep is considered to be a physiologic marker of the NREM sleep instability. In insomnia, the frequent discrepancy between self-reports and polysomnographic findings could be attributed to subtle abnormalities in the sleep tracing, which are overlooked by the conventional scoring methods. The conventional scoring scheme has superiority in analysis of macrostructure of sleep but shows limited power in finding arousals and transient EEG events that are major component of microstructure of sleep. But, it has recently been found that a significant correlation exists between CAP rate and the subjective estimates of the sleep quality in insomniacs and sleep-improving treatments often reduce the amount of CAP. Thus, the extension of conventional sleep measures with the new CAP variables, which appear to be the more sensitive to sleep disturbance, may improve our knowledge on the diagnosis and management of insomnia.

• The Plant Pathology Journal
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• 제24권4호
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• pp.423-432
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• 2008

The difference of carbon source utilization and fatty acid composition between the pathotypes of Xanthomonas strains, which causing citrus bacterial canker was compared, and the physiochemical characteristics were used to analyze relationship of the strains for the first time. The pattern of several carbon sources utilization and fatty acids composition reliably discriminated the pathotypes of Xanthomonas strains. The dendrogram which was constructed by 95 carbon source utilization profiles differentiated X. axonopodis pv. citri A, $A^*$ and $A^w$ from the other pathotypes. When the dendrogram was drawn by combined analysis of carbon source utilization pattern and fatty acid composition, X. axonopodis pv. aurantifolii B, C and X. axonopodis pv. citrumelo formed a distinct cluster. The difference of carbon source utilization and fatty acid composition could be used effectively for the identification of pathotypes of citrus bacterial canker. The physiochemical characteristics strongly indicated that the strains isolated in Korea belong to X. axonopodis pv. citri A type. The cluster analysis by the band patterns of ERIC-, BOX- and REP-PCR allowed the discrimination of the pathotypes isolated from Korea. However, the rep-PCRs could not differentiate X. axonopodis pv. citri A types from $A^*$ and $A^w$ types. The overall results of metabolic profiles and rep-PCRs strongly indicated that the Korean isolates are X. axonopodis pv. citri A type.