• 대한의용생체공학회:의공학회지
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• 제30권4호
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• pp.311-317
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• 2009

An automatic control system is proposed and implemented for a miniaturized DNA extraction system using magnetic bead. A host-local system is employed for the accommodation of the graphical user interface and the basic control function. The functional partitioning into the local and the host system is discussed. The control functions are classified and formalized for the flexible control scenario, which is the input of the proposed system. As the proposed scenario is consists of the sequence of the user-centric actions, the user goal can be easily programmed and modified. The DNA extraction performance of the implemented system was compared with the existing silica-membrane-based method, resulting in the comparable concentration and purity of the extracted DNA. The proposed system is currently being utilized for the development of the DNA extraction system only changing scenario, without any alteration of the system.

• Journal of Microbiology and Biotechnology
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• 제32권8호
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• pp.1026-1033
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• 2022

This study presents a novel DNA part characterization technique that increases throughput by combinatorial DNA part assembly, solid plate-based quantitative fluorescence assay for phenotyping, and barcode tagging-based long-read sequencing for genotyping. We confirmed that the fluorescence intensities of colonies on plates were comparable to fluorescence at the single-cell level from a high-end, flow-cytometry device and developed a high-throughput image analysis pipeline. The barcode tagging-based long-read sequencing technique enabled rapid identification of all DNA parts and their combinations with a single sequencing experiment. Using our techniques, forty-four DNA parts (21 promoters and 23 RBSs) were successfully characterized in 72 h without any automated equipment. We anticipate that this high-throughput and easy-to-use part characterization technique will contribute to increasing part diversity and be useful for building genetic circuits and metabolic pathways in synthetic biology.

• 한국동물위생학회지
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• 제28권1호
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• pp.1-21
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• 2005

Pullorum disease and Fowl typhoid are kind of poultry specific disease for poultry. The peculiar character of these poultry specific diseases is that it can be infected by transmitting vertically and horizontally, also it is hard to be discovered by clinical sign, and pathology or immunology. So, to develop the PCR method which distinguishes these two genetically similar diseases of separated the specific DNA fragment from each strain and use it for differential diagnosis by subtraction PCR method. Standard strain of S gallinarum and S pullorum, and field isolation strain were verified by biochemistry, It confirmed existence of plasmid by using the PFGE. Then, Isolated DNA from it and used it as materials for the experiment. After cutting genomic DNA of two strains by using Sau 3Al, It ligated primer to tester DNA for PCR amplification and separated specific DNA fragment bacteria with method of subtraction PCR. And, It confirmed that it is a piece of unique DNA in every bacteria using base sequence of separated DNA fragment. 1. The six specific DNA fragment were separated from the DNA of S gallinarum and S pullorum by the subtraction PCR method. 2. In the result of comparison after setting base sequence of each fragment, each separated base sequence of DNA fragment they did not correspond to each other 3. As the result of each DNA fragment is derived from the each strain of DNA, and there was no homology of genomic DNA level in mutual. 4. The fragment originated in plasmid and includes S pullorum did not separate. 5. In the result of searching base sequence in Genebank, it partially shows homology in Salmonella enterica, S typhimurium, S dublin, Escherichia coli, Shigella flexneri, Yersinia pestis, Klebsiella pneumoniae. 6. Primer design by S gallinarum DNA 2, 3 fragment used PCR, They are positive reaction in only S gallinarum at 276, 367 bp position.

• Korean Chemical Engineering Research
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• 제48권2호
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• pp.147-156
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• 2010

폐가스 처리용 바이오필터의 핵심 요소 기술은 생촉매(미생물), 담체, 설계 운전 기술 및 진단 관리 기술이다. 특히, 바이오필터의 성능은 부하 조건과 바이오필터 내 미생물 군집 구조에 의해 영향을 받는다. 지금까지 바이오필터의 미생물 연구는 대부분 배양법을 기초로 하여 수행되어 왔으나, 최근에 보다 신속하고 정확하게 미생물 군집을 분석할 수 있는 방법들이 제시되고 있다. 본 논문에서는 생리적, 생화학적 및 분자생물학적 미생물 군집 분석 방법과 이를 활용한 바이오필터의 미생물 군집 특성을 조사한 연구사례를 소개하고, 미생물 군집 분석법의 바이오필터에 적용 가능성에 대해 고찰하였다. Community-level physiological profile 방법은 시료 중에 포함된 종속영양미생물의 탄소기질 이용능력을 기반으로 군집 특성을 조사하는 것이며, Phospholipid fatty acid analysis는 미생물 세포막 지방산을 분석하여 군집 특성을 조사하는 방법이다. 환경시료로부터 직접 추출한 DNA를 활용하는 분자생물학적 분석법에는 "partial community DNA analysis"와 "whole community DNA analysis"가 있다. 전자의 방법은 PCR 과정에 의해 증폭시킨 염기서열을 분석하는 것으로 ribosomal operon 유전자가 가장 많이 활용되었다. 이 방법은 다시 PCR fragment cloning 및 genetic fingerprinting으로 구분되며, genetic fingerprinting 방법으로는 denaturing gradient gel electrophoresis, terminal-restriction fragment length polymorphism, ribosomal intergenic spacer analysis 및 random amplified polymorphic DNA 방법으로 세분화된다. 추출된 전체 군집의 DNA를 분석하는 방법에는 total genomic cross-DNA hybridization, 총 추출 DNA의 열 변성/재결합 방법 및 밀도구배를 이용하여 추출한 DNA를 분획화하는 방법 등이 있다.

• Journal of Forest and Environmental Science
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• 제28권4호
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• pp.278-281
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• 2012

Comparative sequence analyses were conducted on complete mtDNA sequences from four small mammal species in Korea and revealed the presence of 30 well conserved sequences in various regions of the complete mtDNA sequences. The conserved sequences were found in 9 regions in protein coding genes, 10 regions in tRNA genes, 10 in rRNA genes, one region in replication origin and 2 regions in D loop. They could be used to design primers for amplifying complete mtDNA sequences of small mammals.

• 한국융합학회논문지
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• 제7권4호
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• pp.181-190
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• 2016

The objective of this study is to find the effective stiffness and compressive strengths of a unit-cell pinwheel truss and double pinwheel truss model designed following a double helical geometry similar to that of the DNA (deoxyribonucleic acid) structure in biology. The ideal solution for their derived relative density is correlated with a ratio of the truss thickness and length. To validate the relative stiffness or relative strength, ABAQUS software is used for the computational model analysis on five models having a different size of truss diameter from 1mm to 5mm. Applied material properties are stainless steel type 304. The boundary conditions applied were fixed bottom and 5 mm downward displacement. It was assumed that the width, length, and height are all equal. Consequently, it is found that the truss model has a lower effective stiffness and a lower effective yielding strength.

• 한국생물공학회:학술대회논문집
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• 한국생물공학회 2005년도 생물공학의 동향(XVI)
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• pp.82-85
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• 2005

Doxorubicin is a highly-valuable anthracycline-family polyketide drug with a very potent anticancer activity, typically produced by a Gram-positive soil bacterium called Streptomyces peucetius. Thanks to the recent development of Streptomyces genomics-based technologies, the random mutagenesis approach for Streptomyces strain improvement has been switched toward the genomics-based technologies including the application of DNA microarray systems. In order to identify and characterize the genomics-driven potential target genes critical for doxorubincin overproduction, three different types of doxorubicin overproducing strains, a dnrI(doxorubicin-specific positive regulatory gene)-overexpressor, a doxA (gene involved in the conversion from daunorubicin to doxorubicin)-overexpressor, and a recursively-mutated industrial strain, were generated and examined their genomic transcription profiles using Streptomyces DNA microarray systems. The DNA microarray results revealed several potential target genes in S. peucetius genome, whose expressions were significantly either up- or down-regulated comparing with the wild-type strain. A systematic understanding of doxorubicin overproduction at the genomic level presented in this research should lead us a rational design of molecular genetic strain improvement strategy.

• Journal of the Korean Data and Information Science Society
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• 제17권4호
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• pp.1161-1167
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• 2006

Since microarray data structures are various and complicative, the data are generally stored in databases for approaching to and controlling the data effectively. But we have some difficulties to analyze and control the data when the data are stored in the several database management systems. The existing analysis tools for DNA microarray data have many difficult problems by complicated instructions, and dependency on data types and operating system, and high cost, etc. In this paper, we design and implement the web-based analysis tool for obtaining to useful information from DNA microarray data. When we use this tool, we can analyze effectively DNA microarray data without special knowledge and education for data types and analytical methods.

• Mycobiology
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• 제43권1호
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• pp.1-8
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• 2015

Mushroom transformation requires a series of experimental steps, including generation of host strains with a desirable selective marker, design of vector DNA, removal of host cell wall, introduction of foreign DNA across the cell membrane, and integration into host genomic DNA or maintenance of an autonomous vector DNA inside the host cell. This review introduces limitations and obstacles related to transformation technologies along with possible solutions. Current methods for cell wall removal and cell membrane permeabilization are summarized together with details of two popular technologies, Agrobacterium tumefaciens-mediated transformation and restriction enzyme-mediated integration.

• Nutrition Research and Practice
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• 제5권6호
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• pp.540-547
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• 2011

High consumption of fruits and vegetables has been suggested to provide some protection to smokers who are exposed to an increased risk of numerous cancers and other degenerative diseases. Carrot is the most important source of dietary ${\beta}$-carotene. Therefore, the objective of this study was to investigate whether carrot juice supplementation to smokers can protect against lymphocyte DNA damage and to compare the effect of supplementationof capsules containing purified ${\beta}$-carotene or a placebo (simple lactose). The study was conducted in a randomized and placebo-controlled design. After a depletion period of 14 days, 48 smokers were supplemented with either carrot juice (n = 18), purified ${\beta}$-carotene (n = 16) or placebo (n = 14). Each group was supplemented for 8 weeks with approximately 20.49 mg of ${\beta}$-carotene/day and 1.2 mg of vitamin C/day, as carrot juice (300 ml/day) or purified ${\beta}$-carotene (20.49 mg of ${\beta}$-carotene, 1 capsule/day). Lymphocyte DNA damage was determined using the COMET assay under alkaline conditions and damage was quantified by measuring tail moment (TM), tail length (TL), and% DNA in the tail. Lymphocyte DNA damage was significantly decreased in the carrot juice group in all three measurements. The group that received purified ${\beta}$-carotene also showed a significant decrease in lymphocyte DNA damage in all three measurements. However, no significant changes in DNA damage was observed for the placebo group except TM (P = 0.016). Erythrocyte antioxidant enzyme was not significantly changed after supplementation. Similarly plasma lipid profiles were not different after carrot juice, ${\beta}$-carotene and placebo supplementation. These results suggest that while the placebo group failed to show any protective effect, carrot juice containing beta-carotene or purified ${\beta}$-carotene itself had great antioxidative potential in preventing damage to lymphocyte DNA in smokers.