• Title, Summary, Keyword: SSCP

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Detection method of Genetic Variation of Mulberry Dwarf Phytoplasma by PCR-SSCP Analysis (PCR-SSCP 분석법에 의한 뽕나무 오갈병 파이토플라스마의 유전변이 검출기법)

  • Han, Sangseop;Cha, Byeongjin;Seong, Gyoobyoung
    • Journal of Korean Society of Forest Science
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    • v.95 no.6
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    • pp.631-635
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    • 2006
  • Single-strand conformation polymorphism (SSCP) analysis of MD and JWB phytopalsma isolates which amplified PCR products using the R16F2n/R2 phytoplamsa universal primer pair were compared for variations of their nucleotide sequence. The MD and JWB phytoplasmas were clearly distinct each of the band patterns from about 1.2 kb PCR products. To clearly distinct of close SSCP band patterns, the MD and JWB phytoplasma PCR products were mixed and performed to detect their polymorphism. The SSCP band patterns show all of bands of MD and JWB on single lane and easily distinct their each band patterns. The PCR-SSCP analysis was possible to detect of 1.2 kb nucleotide sequence and near close band patterns were easily distinct by mixing two samples.

Molecular Characteristics of Phytophthora katsurae Using PCR-SSCP Analysis (PCR-SSCP 분석에 의한 Phytophthora katsurae의 분자생물학적 특성)

  • Lee, Sun-Keun;Jang, Ha-Na;Lee, Dong-Hyeon;Lee, Sang-Hyun;Lee, Sang-Yong;Lee, Jong-Kyu
    • Research in Plant Disease
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    • v.17 no.2
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    • pp.169-176
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    • 2011
  • Phytophthora katsurae is the fungus responsible for chestnut ink disease. The objectives of this study were to determine if a single-strand conformation polymorphism (SSCP) analysis of rDNA-ITS region, elongation factor 1 alpha gene and ${\beta}$-tubulin gene could be used for rapid identification and genetic diversity of P. katsurae, and to assess the potential use of the SSCP technique as a diagnostic tool for P. katsurae. Each regions amplified by PCR using primers designed to overlap the genus Phytophthora were characterized for the Phytophthora species. PCR products were denatured and electrophoresed for SSCP analysis. P. katsurae isolates showed an unique pattern in SSCP analysis and were easily distinguished from other Phytophthora species used as the control. This indicates that SSCP analysis is an useful technique for distinguishing Phytophthora species from genetically close relatives, and show that the SSCP analysis of each region is an efficient detection tool for P. katsurae. But PCR-SSCP analysis of single-gene may have difficulty in distinguishing P. katsurae from other Phytophthora species. Therefore, PCR-SSCP analysis of multi-genes can be useful for rapid and effective identification of P. katsurae.

Mutation Analysis in β2-Adrenergic Receptor Gene by Single Strand Conformation Polymorphism (SSCP) and Denaturing High Performance Liquid Chromatography (DHPLC) (SSCP와 DHPLC에 의한 β2-교감신경수용체 유전자의 돌연변이 분석)

  • Park, Sang-Bum;Han, Sang-Man;Nam, Youn-Hyoung;Jang, Won-Cheoul
    • Analytical Science and Technology
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    • v.17 no.1
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    • pp.53-59
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    • 2004
  • Up to now, methods for the detection of genetic alterations as single strand conformation polymorphism (SSCP) or denaturing gradient gel electrophoresis (DGGE) have been used. It is too labor-intensive and expensive to serve for routine analysis. Moreover, lower in its sensitivity and specificity being also strongly dependent on the experience of the investigater. To improve these problems, we analysed mutation of ${\beta}_2$-adrenergic receptor gene that controls bronchial asthma by denaturing high performance liquid chromatography (DHPLC) according to ion-pair reversed phase chromatography (IP-RPC). We extracted genomic DNA from 80 asthma patients and then amplified DNA using PCR and analysed PCR product by SSCP and DHPLC. As a result, we analysed mutation frequency is 19 (23.75%) on SSCP and 25 (31.25%) on DHPLC in ${\beta}_2$-adrenergic receptor gene. We conclude that DHPLC is a fast and simple screening method rather than SSCP analysis.

venture portfolio-SSCP 오주언 대표

  • Kim, Yun-Hui
    • Venture DIGEST
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    • pp.12-15
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    • 2007
  • 색감이 고급스러운 휴대폰, 백색을 탈피한 냉장고, 세계인이 쓴다는 MP3플레이어, 눈이 피곤하지 않은 PDP TV, 머리 아픈 냄새가 나지 않는 자동차. 이 제품들의 공통점은 무엇일까. 바로 기술과 디자인, 친환경 제품으로 보이지 않는 곳에서 우리의 삶을 풍요롭게 만드는 SSCP의 제품이다. 30여 년이 넘는 시간동안 특수 도료라는 분야에 뿌리를 내리고 성장해 온 SSCP. 그리고 그 뿌리 깊은 나무를 가꿔온 SSCP 오주언 회장. 그에게서 진정한 벤처정신을 들어본다.

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Detection of p53 Mutation in Colorectal Cancer Using PCR-SSCP and DHPLC (대장암에서 PCR-SSCP와 DHPLC를 이용한 p53 돌연변이의 검출)

  • Sang-Bum Park;Sang-Man Han;Youn-Hyoung Nam;Won-Cheoul Jang
    • Journal of the Korean Chemical Society
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    • v.47 no.5
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    • pp.460-465
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    • 2003
  • Structural alteration of p53 and overexpression of p53 protein are the most common genetic abnormalities in various kinds of human cancer. Mutations in the p53 tumor-suppressor gene are usually associated with an advanced development of colorectal cancer characterized by the transition from the adenoma to carcinoma stage. Mutations in exons 5-8 of the p53 gene were analyzed by the polymerase chain reaction-single strand conformation polymorphism(PCR-SSCP) and denaturing high performance liquid chromatography(DHPLC). SSCP analysis detected 7 mutations(C13109>T) in 50 colorectal cancer samples(14%) at exon 5, and DHPLC analysis detected 7 mutations (C13109>T) and 2 mutation(C13202>A, C13204>G) in 50 colorectal cancer samples(18%) at exon 5. All of 9 mutations were proved by sequencing analysis. We conclude that DHPLC is a highly sensitive and specific method for p53 gene mutations.

Comparison of viral population of pathologically and geographically different areas of Southern provinces and Jeju, Korea

  • Kim, Daehyun;Hyekyung Shim;Jaewook Hyeon;Kim, Kwangsik;Lee, Sukchan
    • Proceedings of the Korean Society of Plant Pathology Conference
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    • pp.123.1-123
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    • 2003
  • The objective of this work was to analyze the population of sequence variants of citrus tristeza virus (CTV) isolates in Korea and to make the phylogeny trees of CTV in Korea. We also tried to analyze and find the mild strain of CTV to apply for the cross protection. The CTV isolates from yuzu (C. Junos) collected from different geographic areas of Southern provinces such as Namhae-Do, Kerche-Do, Bosung, Wan-Do and Koheung and Jeju-Bo, Korea were used for SSCP analysis. The SSCP profiles of the cDNAS obtained by RT-PCR with primers specifically designed for the p20 of the CTV population. The SSCP profiles obtained from 150 PCR products in yuzu contained two or three DNA bands, whereas, in some case, others contained four or more bands of similar intensity. The pathologically mild isolates of CTV usually yielded two DNA bands by SSCP profiles, whereas the SSCP profiles of the most virulent isolates contained more than two DNA bands. Plants shown severe stem pitting were corresponded to those plants with typical SSCP profiles of severe strains, and vice versa. This results indicate that the primers designed for SSCP analysis can be used for distinguishing the mild strains from severe strains of CTV.

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Profit-based Segment Caching for Wireless Streaming QoS (무선 스트리밍 QoS를 위한 이득 기반 세그먼트 캐싱)

  • Lee, Chong-Deuk
    • The Journal of Advanced Navigation Technology
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    • v.16 no.3
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    • pp.463-470
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    • 2012
  • This paper proposes a new profit popularity-based segment caching control mechanism for assuring a consecutive streaming QoS (Quality of Service) in the wireless channel. Then, the proposed mechanism operates SSCP (Single Segment Caching Profit) and MSCP (Multiple Segment Caching Profit) for assuring a QoS. SSCP and MSCP is to optimize the cache performance when is performed the streaming in the proxy. The proposed mechanism simulated to evaluate such mechanisms as fixed-partition mechanism, weight-based mechanism, SSCP, and MSCP. Simulation results show that the proposed mechanism has superior performance compared to other mechanisms.

Determination of Repeat Numbers of (CA)n in Mitochondrial D-loop using Polymerase Chain Reaction-single Strand Conformational Polymorphism (PCR-SSCP) (중합효소연쇄반응-단일가닥입체형태다형태 방법을 이용한 미토콘드리아 D-고리에서의 CA 디뉴클레오티드 반복수의 결정)

  • Kim, Joo-Young;Kim, Dae-Kwang
    • Anatomy & Biological Anthropology
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    • v.31 no.3
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    • pp.77-82
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    • 2018
  • Polymerase chain reaction-single strand conformational polymorphism (PCR-SSCP) analysis is a kind of sensitive mutation detection method that has been usually used in field of medical genetics. A single DNA strand with a mutation or nucleotide polymorphism has a different conformation from its wild-type counterpart, and these conformational differences result in different electrophoretic mobility. In previous study of mitochondrial microsatellite instability in 50 uterine leiomyomas, PCR-SSCP showed 4 types of band mobility at (CA)n of the mitochondrial D-loop. In type 1 and 4, positions of the lower single stand of both were same but those of upper strand were different. In sequencing analysis, repeat number of (CA)n in type 1 was 4, 5 in type 2, 6 in type 3, and 4 in type 4, respectively. Without using expensive sequencing analysis, PCR-SSCP method can be used to detect the repeat number of(CA)n in mitochondrial D-loop.

Analysis of p53 Somatic Mutation in Head and Neck Cancer Using Denaturing High Performance Liquid Chromatography(DHPLC) (두경부 종양에서 DHPLC를 이용한 p53체세포 돌연변이 검출 연구)

  • Kim, Kwang-Youl;Park, Sang-Bum;Han, Sang-Man;Nam, Youn-Hyoung;Jang, Won-Cheoul
    • Journal of the Korean Chemical Society
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    • v.48 no.1
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    • pp.33-38
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    • 2004
  • Mutation of p53 tumor suppressor gene in HNSCC (head and neck squamous cell carcinoma) has been proposed high rate. We extracted genomic DNA from 50 head and neck cancer. The DNA was amplified by PCR at exon 5-8 in p53 tumor suppressor gene. We have compared single strand conformation polymorphism (SSCP) and denaturing high performance liquid chromatography (DHPLC) method for analysis of p53 somatic mutation. As a result, 16 deleted mutations (32%) were detected by SSCP analysis and 17 deleted mutations (34%) were detected by DHPLC analysis at exon 8. All of 17 mutations were proved by sequencing. We conclude that DHPLC is a fast and simple screening method rather than SSCP analysis.

Genetic Differentiation of Phytoplasma Isolates by DNA Heteroduplex Mobility Assay and Single-Strand Conformation Polymorphism Analysis

  • Cha, Byeongjin;Han, Sangsub
    • The Plant Pathology Journal
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    • v.18 no.6
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    • pp.308-312
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    • 2002
  • Heteroduplex mobility assay (HMA) and single-strand conformation polymorphism (SSCP) analyses combined with PCR were developed for genetic differentiation of various phytoplasma isolates. In the HMA and SSCP analyses, differences in the mobility shifts and the SSCP band patterns identified three distinct types of phyto-plasmas: Type Ⅰ, jujube witches'-broom (JWB) and ligustrum witches'-broom (LiWB); Type Ⅱ, mulberry dwarf(MD) and sumac witches'-broom (SuWB); and Type Ⅲ, paulownia witches'-broom (PaWB). Results of the sequence analyses revealed that phytoplasmas of JWB and MD had 100% homology with LiWB and SuWB, respectively. On the other hand, PaWB phyto-plasma had 97.8% homology with MD phytoplasma. The PCR-HMA and SSCP techniques were very useful in determining variations in sequence among several isolates of phytoplasmas. Furthermore, the methods were rapid, economical, highly sensitive, and easy to handle with the gels.