• Journal of Mushroom
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• v.9 no.1
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• pp.27-33
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• 2011

This study was carried to identify a correct species and asses genetic diversity within the same species of Trametes spp. preserved in Division of applied Microbiology The morphological and cultural characteristics of preserved strains were observed through microscope and investigated on PDA, respectively. Contaminated isolates showed different growth rates, morphology and color of hyphae. We have reconstructed the phylogenetic tree of a select group of Trametes spp. using nucleotide sequences of the internal transcribed spacer region(ITS) region. The phylogenetic tree was constructed by using the neighbor-joining method. PELF primers of 20-mer were used to assess genetic diversity of preserved isolates. Sequence analysis showed that five strains were different species and six strains were identified completely different nomenclature. According to the analysis of ITS sequences, the genus Trametes clustered into four distinct group, most of which correlated with species-groups identified by RAPD method. Seven isolates included TM 01 strain showed high similarity with Trametes versicolr, TM 07 and TM 10 high similarity with Trametes gibbosa, and TM 05 high similarity with Trametes elegans. But isolates collected in the United States was identified as T. junipericola. T. gibbosa and T. versicolor by RAPD analysis of genetic polymorphisms showed a very different band patterns and these strains showed different band patterns on areas. As the result of RAPD and ITS region sequences analysis for preserved isolates, it seems likely that 11 isolates of Trametes spp. may be need to reclassify or eliminate from preserved catalogue.

• Journal of Food Hygiene and Safety
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• v.18 no.1
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• pp.6-13
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• 2003

Various kinds of genetically modified organisms (GMO) and processed foods have been developed during recent years. Genetically modified organisms can be classified into several groups as their development methods. Generally, GMO has three foreign DNA regions such as gene expression adjustment region(Promoter), termination region (terminator) and structure gene. Detection of these regions can be done particularly by polymerase chain reaction (PCR). PCR-based detection can virtually be performed for any GMO within short of time. The most important prerequisite for the application of PCR-based detection is to decide abstraction method of efficient nucleic acids. Specially, in the case of processed food, because nucleic acids of foodstuffs are damaged by heat treatment (sterilization), pressure and fermentation, DNA must be extracted ken the samples prior to PCR analysis. Although many DNA extraction protocols are available, they have rarely been compared in a comprehensive method. In this study low widely used commercial and non-commercial DNA extraction methods-DNeasy$^{TM}$, Wizard$^{TM}$, CTAB, phenol/chloroform system-were compared with respect to the quality and yield of nucleic acids and insertion genes.nes.

• The Journal of the Korea Contents Association
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• v.9 no.5
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• pp.332-336
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• 2009

Functional prediction of unannotated proteins is one of the most important tasks in yeast genomics. Analysis of a protein-protein interaction network leads to a better understanding of the functions of unannotated proteins. A number of researches have been performed for the functional prediction of unannotated proteins from a protein-protein interaction network. A chi-square method is one of the existing methods for the functional prediction of unannotated proteins from a protein-protein interaction network. But, the method does not consider the topology of network. In this paper, we propose a novel method that is able to predict specific molecular functions for unannotated proteins from a protein-protein interaction network. To do this, we investigated all protein interaction DBs of yeast in the public sites such as MIPS, DIP, and SGD. For the prediction of unannotated proteins, we employed a modified chi-square measure based on neighborhood counting and we assess the prediction accuracy of protein function from a protein-protein interaction network.

• Proceedings of the Korea Contents Association Conference
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• 2004.11a
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• pp.511-515
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• 2004

In the post-genomic era, researches on proteins as well as genes have been increasingly required. Particularly, work on protein-protein interaction and protein network construction have been recently establishing. Most biologists publish their research results through papers or other media. However, biologists do not use the information effectively, since the published research results are very large. As the growth of internet, it becomes easy to access very large research results. It is significantly important to extract information with a biological meaning from varisous media. Therefore, in this research, we efficiently extract protein-protein interaction information from many open papers or other media and construct the database of the extracted information. We build a protein network from the established database and then design and implement various pathway analysis algorithms which find biological meaning from the protein network.

• Proceedings of the Korea Contents Association Conference
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• 2012.05a
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• pp.271-272
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• 2012

생명 과학 분야에서 대부분의 연구는 생명 현상의 근본적인 기작을 이해하고 활용하는 것으로써, 이를 위해 다양한 실험을 통해 얻어지는 오믹스 정보를 활용하여 생명 현상을 모델링하여 실험적으로 확인하는 것이 필수적이다. 이를 위한 국내외 기반 연구가 진행되고 있으나 많이 활성화되어 있지 못하며, 아직까지 대규모의 생물학적 반응 네트워크에 대한 시뮬레이션이 불가능하다는 한계가 있다. 본 논문에서는 유전체에서부터 유전자 발현 및 신호전달과정에 이르는 대규모의 세포내 반응을 통합적으로 모델링하고 이를 대규모 컴퓨팅 환경에서 시뮬레이션하기 위한 소프트웨어를 설계하고 구현한다. 이를 통해 기존의 단일 컴퓨팅 기반 분석 시스템에서는 불가능했던 대규모의 생물학적 반응 네트워크에 대한 분석이 슈퍼컴퓨팅자원에 기반을 두어 수행이 가능하므로, 높은 수준의 분석 결과를 도출하는 것이 가능하다.

• Korean Journal of Microbiology
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• v.45 no.4
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• pp.312-317
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• 2009

Genome analysis of a model filamentous fungus, Aspergillus nidulans, revealed that there are six putative forkhead genes. Among them, fkhF (AN8949.2) showed A. nidulans-specific. fkhF gene is located in chromosome VII and composed of 2,337 bp coding region for 778 amino acid. Since little is known about the involvement of the forkhead proteins in the developmental process of the filamentous fungi, including A. nidulans, we generated a deletion mutant of fkhF gene and analyzed. Deletion of fkhF resulted in less-dense conidiophore formation in a solid culture. However, the sexual developmental process or cleistothecia formation was normal. Furthermore, fkhF deletion mutant produced conidiophores and conidia under the submerged culture, suggesting that the fkhF gene is involved in repression of inappropriated induction and maturation of asexual developmental process but not in sexual development.

• Korean Journal of Microbiology
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• v.55 no.1
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• pp.80-82
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• 2019

Pseudomonas syringae pv. syringae strain WSPS007 was isolated from infected twigs (Malus pumila) in 2013 in Yeongju, Gyeongbuk Province, Republic of Korea. Here, we report the draft genome sequence of WSPS007 with a chromosome size of 6,238,498 bp (59.04% G+C content). The genome comprises 5,379 CDS, 16 rRNA genes, and 65 tRNA genes. The P. syringae pv. syringae strain WSPS007 genome possesses an ice-nucleating activation (INA) gene and an antifreeze operon that may be related to frost damage by this pathogen. Thus, the genome sequence determined in this study will be useful in understanding the relationship between the outbreak of bacterial shoot blight disease and frost damage in northern Gyeongbuk Province.

• Journal of the Korean Institute of Electrical and Electronic Material Engineers
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• v.35 no.5
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• pp.431-438
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• 2022

In functional materials, in situ experimental techniques as a function of external stimulus (e.g., electric field, magnetic field, light, etc.) or changes in ambient environments (e.g., temperature, humidity, pressure, etc.) are highly essential for analyzing how the physical properties of target materials are activated/evolved by the given stimulation. In particular, in situ electric-field-dependent X-ray diffraction (XRD) measurements have been extensively utilized for understanding the underlying mechanisms of the emerging electromechanical responses to external electric field in various ferroelectric, piezoelectric, and electrostrictive materials. This tutorial article briefly introduces basic principles/key concepts of in situ electric-field-dependent XRD analysis using a lab-scale XRD machine. We anticipate that the in situ XRD method provides a practical tool to systematically identify/monitor a structural modification of various electromechanical materials driven by applying an external electric field.

• Korean Journal of Plant Resources
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• v.36 no.4
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• pp.369-380
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• 2023

Developing and breeding improved legume-based food resources require collecting useful genetic traits with heritability even though requiring some time-consuming, costly, and labor intensive. We attempted to infer heritability of nine genetic traits-days to flowering, days to maturity, period from flowering to maturity, the number of seeds per pod, 100-seeds weight, and four contents such as crude protein, crude oil, crude fiber, and dietary fiber-using 455 homologous chloroplast gene sets of six species of legumes. Correlation analysis between genetic trait differences and phylogenetic distance of homologous gene sets revealed that days to flowering, the number of seeds per pod, and crude oil content were influenced by genetic factors rather than environmental factors by 62.86%, 69.45%, 57.14% of correlated genes (P-value ≤ 0.05) and days to maturity showed intermediate genetic effects by 62.42% (P-value ≤ 0.1). The period from flowering to maturity and 100-seeds weight showed different results compared to those of some previous studies, which may be attributed to highly complicated internal (epistatic or additive gene effects) and external effects (cultural environment and human behaviors). Despite being slightly unexpected, our results and method can widely contribute to analyze heritability by including genetic information on mitochondria, nuclear genome, and single nucleotide polymorphisms.

• Journal of Embryo Transfer
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• v.22 no.3
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• pp.143-147
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• 2007

Records on 546 Korea native pigs for average daily gain (ADG), age at 70 kg (D70 kg) and backfat thickness (BF) made between 2001 and 2006 in herds on National Institutes of Animal Science in Korea were used to estimate genetic parameters. The data was analyzed by the DF-REML (Derivative-Free Restricted Maximum Likelihood) program of Boldman using a single-trait animal model. Heritabilities were 0.26, 0.09, and 0.29 for ADG, D70 kg and BF, respectively. The phenotypic correlations of ADG with D70 kg and BF were -0.71 and 0.30. The phenotypic correlation of D70 kg with BF was -0.15. The genetic correlations of ADG with D70 kg and BF were -0.11, 0.41, respectively. The genetic correlation of D70 kg with BF was -0.16. The data of weights and measurements on body length, body height and chest width after age at 11 months (days to 330) were shown scarcely less differences compare to data of age at 11 months.