• Title/Summary/Keyword: Genetic diversity

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RAPD Analysis for the Evaluation of Genetic Diversity Among the Fusarium Species from Various Sources (각종 작물로부터 분리한 Fusarium속 균의 RAPD 기법을 이용한 유전분석)

  • Choi, Hei-Sun;Kim, Kyong-Soo;Kim, Myong-Jo;Shim, Jae-Ouk;Kim, Byong-Sup;Lee, Min-Woong;Lee, Youn-Su
    • The Korean Journal of Mycology
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    • v.25 no.3 s.82
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    • pp.202-208
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    • 1997
  • In this study, we evaluated the use of RAPD method to discriminate among strains of Fusarium species including F. oxysporum and f. sp. of F. oxysporum. As a result of the amplication, fifteen primers showed total 180 bands ranging from 0.2 to 3 Kb. Among those 180 bands, 126 polymorphic bands were used for bionominal matrix code (0, 1), and UPGMA dendrogram analysis. Fusarium oxysporum isolate 355 showed high similarity with F. oxysporum isolate 358 at 0.9603. Fusarium roseum isolate 87 and F. oxysporum isolate 358, F. o. f. sp. lycopersici isolate 69 and F. o. f. sp. melongena 68 showed low similarity of 0.3809. Fusarium oxysporum isolate 361 and F. o. f. sp. raphani isolate 218 showed similarity of 0.8730, F. oxysoprum isolate 354 and unidentified Fusarium sp. isolate 228 showed similarity matrix of 0.7936, and F. roseum isolate 87 and F. o. f. sp. raphani isolate 57 showed similarity matrix of 0.5873.

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Genetic Diversity of Rana catesbiana Captured on various sites in Korea based on mitochondrial ND1 sequence (미토콘드리아 ND1 유전자 염기서열 비교를 통한 국내 서식 황소개구리의 유전적 다양성 조사)

  • Lee Ji-Young;Shim Jae-Man;Joung Insil
    • Proceedings of the KAIS Fall Conference
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    • 2005.05a
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    • pp.297-300
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    • 2005
  • 1970년대 식용을 위한 양식을 목적으로 일본에서 수입된 황소개구리가 국내 하천과 호서생태계에 큰 피해를 주었으나, 최근 급속히 그 개체수가 줄어든 것으로 추정되므로 이번 연구에서는 국내에 서식하는 북미산 황소개구리의 유전자 분석을 통하여 개체동태군에 대한 유전적 연관을 조사하였다. 이를 위하여 전라남도 지역에서 서식하는 황소개구리를 채집하여 이미 발표된 북미산 황소개구리와 미토콘드리아 ND1/tRNA 유전자 1215bp의 염기서열을 비교, 분석하였다. 북미산과 비교하였을 때 조사한 국내 서식 개체 모두에게 ND1/tRNA 유전자 1개 위치에서 염기변화가 발견되었으나 이는 도입 개체군의 유전자인지 국내 특이변이가 진행된 것인지 확실하지 않다. 또한 조사한 개체 일부에서 유전자 염기서열의 6위치에서의 변이가 발견되었으나 국내 서식 황소개구리는 미국산 황소개구리와의 유전적 차이가 거의 없으며, Kimura-2-parameter 분석결과 국내 서식 황소개구리 개체 내에서 $98.7\%\~100\%$의 높은 유사성을 보여 종내 유전적 차이가 거의 없는 것으로 보인다. Neighbor-Joining과 Maximum Parsimony 분석 결과, cluster를 이루는 개체군의 차이를 보였으므로 개체들이 분화되어 나온 시점과 위치가 다른 것으로 확인되었지만 장흥, 영암, 고흥의 개체가 국내 도입시기의 개체군에 속하며 광주, 남평 지역의 개체군이 고흥의 한 개체로부터 분화되어 나왔음을 추정할 수 있다. 이러한 결과로부터 국내에 서식하는 황소개구리가 도입 후 지역 특이적 분화가 일어났다고 결정하기는 무리가 있으며, 이와 같이 유전적 유전도가 높은 개체들간의 교배에 따른 유전적유전적 다양성의 감소가 최근에 관찰되는 국내산 황소개구리의 급격한 감소원인들 중의 하나일 가능성을 시사한다.년도) 18,756, 2045(년도) 22,595, 시장점유율 증가로 인한 수출액 증가분 누적(억원) : 2015(년도) 3,411, 2025(년도) 8,847, 2035(년도) 14,433, 2045(년도) 18,005 또한 시나리오 비교평가를 실시하여 본 결과, 본 연구에서 정의한 순편익 누적(Cumulative Net Profit) 변수를 적용하면 현재 연구비 추세 대비 $30\%$ 까지 연구비를 증가 시키는 것이 효율적임을 알 수 있었다.성, 생산 용이성, 제품 디자인의 우수한 정도가 a=0.01 수준 하에서 유의적으로 추정되었다. 이들 변수들 중에서 품질경쟁력에 가장 큰 영향을 미치는 측정변수는 제품의 기본 성능, 수명(내구성), 신뢰성, 제품 디자인의 순서로 추정되었다. 이것은 한국 제조업이 아직 산업 디자인이 품질경쟁력에 크게 영향을 미치는 성숙단계에 이르지 못하였음을 의미한다. (2) 제품 디자인에게 영향을 끼치는 유의적인 변수는 연구개발력, 연구개발투자 수준, 혁신활동 수준(5S, TPM, 6Sigma 운동, QC 등)이며, 제품 디자인은 우선 품질경쟁력을 높여 간접적으로 고객만족과 고객 충성을 유발하는 것으로 추정되었다. 상기의 분석결과로부터, 본 연구는 다음과 같은 정책적 함의를 도출하였다. 첫째, 신상품 개발과 혁신을 위한 포괄적인 연구개발 프로젝트를 품질 경쟁력의 주요 결정요인(제품의 기본성능, 신뢰성, 수명(내구성) 및 제품 디자인)과 연계하여 추진해야 할 것이다. 둘째, 기업은 디자인 경영 마인드 제고와 디자인 전문인력 양성을, 대학은 디자인 현장 업무를 통하여 창의력 증진과 기획 및 마케팅 능력 교육을, 정부는 디자인 기술개발 및 디자인 교육지원의 강화를 통하여 각각 디자인 경쟁력$\rightarrow$품질경쟁력을 제고시켜야 할 것이

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Assessment on Ecological Characteristics of Vegetation in the Trail of Adjacent to Molundae (몰운대 탐방로 주변 식생의 생태적 특성 평가)

  • Nam, Jung-Chil;Seo, Jung-Bum;Oh, Ju-Sung
    • Journal of Environmental Impact Assessment
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    • v.20 no.2
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    • pp.187-198
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    • 2011
  • The objective of this study is to analyze the flora and forest vegetation of trails with high visitor density at Molundae. Nine quadrats of $20{\times}20m$ were selected for the survey. The survey was conducted from April to October 2010. The obtained results are summarized as follows. Plot1, plot2, plot3, plot4, plot6, and plot7 were located at slopes of $5{\sim}20^{\circ}$, 17~40m above sea level, and were formed with the colony of Japanese black pine(Pinus thunbergii Parl) and Japanese black pine(Pinus thunbergii Parl)-white oak(Quercus aliena Blume). Tree layer had the height of 8~20m, and the coverage of 50~70%, while subtree layer had the height of 3-8m, and the coverage 30~80%. On the other hand, shrub layer had the height of 2~4m, and the coverage of 10~30%, and herb had the height of 0.2~1m and coverage 5~20%. Plot5, plot8, and plot9 were located at the summit areas of 57~78m above sea level, and $0^{\circ}$ slope. Japanese black pine(Pinus thunbergii Parl) formed a community there. Tree layer was 8~20m high, and covered 60~70%, of the area, and subtree layer was 6~8m high, and coverage 30~40%. Shrub layer had the height of 2~6m, and the coverage of 30%, while herb layer had the height 0.2~2m, and the coverage 20-80%. Succession does not occur in the surveyed areas which have high visitor density. Artificially planted sawtooth oak(Quercus acutissima) trees were found to disturb succession and formation of multi-layer vegetation, resulting in the ecologically unstable forest. Therefore, the researcher suggested the strategy of managing the vegetation in the conclusion. This study has the limit in that the plots selected for the survey reflected only part of various trails in the Molundae area. It is necessary to suggest the vegetation management plans by selecting more diverse trail areas in consideration of the visitor density and behaviors, and analyzing the changes in vegetation quantitatively in order to manage the vegetation in urban areas damaged by visitors more effectively.

Clinical Laboratory Aspect of Carbapenem-Resistant Enterobacteriaceae (카바페넴내성장내세균속균종의 임상검사 측면)

  • Park, Chang-Eun
    • Korean Journal of Clinical Laboratory Science
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    • v.52 no.1
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    • pp.18-27
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    • 2020
  • The correct distinction of carbapenem-resistant Enterobacteriaceae (CRE) and ccarbapenemase producing Enterobacteriaceae (CPE) and the rapid detection of CPE are important for instituting the correct treatment and management of clinical infections. Screening protocols are mainly based on cultures of rectal swab specimens on selective media followed by phenotypic tests to confirm a carbapenem-hydrolyzing activity, the rapid carbapenem inactivation method, lateral flow immunoassay, the matrix-assisted laser desorption ionization-time-of-flight test and molecular methods. The CPE is accurate for detection, and is essential for the clinical treatment and prevention of infections. A variety of phenotypic methods and gene-based methods are available for the rapid detection of carbapenemases, and these are expected to be routinely used in clinical microbiology laboratories. Therefore, to control the spread of carbapenemase, many laboratories around the world will need to use reliable, fast, high efficiency, simple and low cost methods. Optimal effects in patient applications would require rapid testing of CRE to provide reproducible support for antimicrobial management interventions or the treatment by various types of clinicians. For the optimal test method, it is necessary to combine complementary test methods to discriminate between various resistant bacterial species and to discover the genetic diversity of various types of carbapenemase for arriving at the best infection control strategy.

Spatial and temporal variation on fruit set in Epipactis thunbergii (Orchidaceae) from southern Korea (한국남부 자생 닭의난초 (난초과)의 시 공간에 따른 결실률 변이)

  • Chung, Mi Yoon;Chung, Myong Gi
    • Korean Journal of Plant Taxonomy
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    • v.45 no.4
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    • pp.353-361
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    • 2015
  • Spatio-temporal variation in fruit set in orchids would affect long-term population viability and will influence genetic diversity over many generations. The aim of this study was to examine the breeding system of the nectariferous terrestrial orchid Epipactis thunbergii, to specifically determine levels of fruit set in terms of time and space under natural conditions. We examined pollination under natural conditions and conducted hand pollination experiments during a 2-year survey in four populations located along 1.5 km of coastal line in Jinguiri (rual village) [Jeollanam-do (province), southern Korea]. We found that, over a 2-year period, levels of percentage of fruit set were similar within patches of the four populations. By contrast, we detected significant differences in the percentage of fruit set among patches. We also found that plants with larger inflorescence size produced significantly more fruits than plants with fewer flowers. Over a 2-year period, the percentage of fruit set for E. thunbergii was similar but low (14.1%) compared to that averaged for eighty-four rewarding species (37.1%). However, an increase in fruit set was achieved by hand-pollinations: artificial self-pollination (90.5-95.2%), artificial geitonogamy (94.7-95.0%), and cross-pollination (artificial xenogamy, 91.3-91.4%). No emasculated flowers produced fruits and no automatic pollination was found in E. thunbergii. Our findings suggest that E. thunbergii is a self-compatible terrestrial orchid that depends on pollinators (insects) to achieve fruit set in natural habitats, and that local environmental conditions were similar over a period of 2 years in the study area. Our results also highlight the cryptic variation of fruit production in time, but more pronounced variability in space.

Genetic Diversity of Mulberry Dwarf Phytoplasma(MD) by SSCP Technique (SSCP기법에 의한 뽕나무오갈병 파이토플라스의 유전적 다형성 분석)

  • Han, Sangsub
    • Journal of Korean Society of Forest Science
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    • v.102 no.2
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    • pp.223-228
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    • 2013
  • Phytoplasmas were detected consistently in 42 mulberry cultivars showing dwarf disease using DNA analysis by amplification with phytoplasma universal primer pairs P1/P7 (about 1.8 kb and R16F2n/R2 (about 1.2 kb). The point mutation from 42 cultivars of mulberry tree was detected by single-strand conformation polymorphism (SSCP) analysis. The SSCP profiles were clearly observed from all of cultivars in 8% polyacrylamide gel, electrophoresizing for and running 8-15 hrs. at 150V, $10^{\circ}C$. The MD and JWB phytoplasma PCR products was mixed and electrophoresis was performed to detect their polymorphism. In this results, the SSCP profiles of all bands of MD and JWB were analyzed on single lane and were distinct in their each of band patterns. The SSCP analysis was possible to detect of 1.8 kb and 1.2 kb nucleotide size and near close band patterns were distinct by mix of two samples. Previously, it was only possible to detect of point mutation under 600 bp nucleotide sequence by SSCP analysis but this modification of SSCP technique was possible to detect clearly SSCP band patterns of about 1.8 kb and 1.2 kb nucleotides.

PCR Detection and Sequence Analysis of the rDNA ITS Regions of Rhizina undulata (Rhizina undulata rDNA ITS 영역의 PCR 검정 및 염기배열 분석)

  • Lee, Sun Keun;Lee, Jong Kyu;Kim, Kyung Hee;Lee, Seung Kyu;Lee, Sang Yong
    • Journal of Korean Society of Forest Science
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    • v.96 no.4
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    • pp.425-431
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    • 2007
  • To investigate genetic diversity and PCR detection of Rhizina undulata, PCR detection and sequence analysis of rDNA ITS region of R. undulata in soil were analyzed and developed. The length of partial 18S rDNA from four R. undulata isolates were 1,375 nt. The sequence similarity of R. undulata isolates was 100%. The rDNA ITS regions of R. undulata isolates were 585 nt long. Nucleotide sequencing of the ITS regions showed that PDK-1, PTT-1 and PDJ-9 isolates had 100% sequence identity. But, PDS-5 isolate differed from the three isolates by two nucleotide substitution. R. undulata-specific primers designed by the sequence of ITS region were used in PCR detection of R. undulata. PCR products about 525 bp size, which is specific to R. undulata, were amplified from total DNAs of R. undulata isolates. To assay the sensitivity of PCR detection by R. undulata ITS-specific primer, purely cultured mycelial suspension of R. undulata was serially diluted and mixed with 100g of sterile sandy loam soil, respectively. And then, PCR products of total DNAs extracted from each mycelium-soil mixtures were analysed. The PCR protocol could detected up to 1ng mycelium of R. undulata within 100g of soil.

Phylogenetic relationships of Lyophyllum decastes on the based of ITS region sequences and RAPD (잿빛만가닥버섯(Lyophyllum decastes)의 ITS 영역염기서열 및 RAPD에 의한 계통학적 유연관계 분석)

  • Woo, Sung-Mi;Park, Yong-Hwan;Yoo, Young-Bok;Shin, Pyung-Gyun;Jang, Kab Yeul;Jin, Yong-Ju;Sung, Jae-Mo
    • Journal of Mushroom
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    • v.7 no.3
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    • pp.98-104
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    • 2009
  • Phylogenetic relationships of Hypsizygus mamoreus and Lyophyllum decastes artificial cultivated using ITS sequences and RAPD polymorphism have been analyzed. Based on ITS region sequences of 14 strains, we could divide into 2 group as group1 to Hypsizygus mamoreus and the control isolated group2 to Lyophyllum decastes were identified as the same species. Restrict analysis of rDNA ITS region which was amplified by PCR, 14 collected strains could be classified into 4 clusters. There was approximately 58% genetic similarity between cluster I(SPA 100, 101, 102) and cluster II(SPA 200, 208 and SPA 201, 202), 41% between cluster III(SPA 104, 103, 203) and cluster IV(SPA 204, 206, 207, 205) by BLAST analysis. RAPD polymorphisms were used to analyze the species diversity of artificially cultivated Lyophyllum decastes SPA 202. As a result, similarity between SPA 202 and SPA 203 was 75%, at the same time, similarity between SPA 202 and Pleurotus eryngii SPA 103 and SPA 104 was 65%.

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Comprehensive comparative analysis of chloroplast genomes from seven Panax species and development of an authentication system based on species-unique single nucleotide polymorphism markers

  • Nguyen, Van Binh;Giang, Vo Ngoc Linh;Waminal, Nomar Espinosa;Park, Hyun-Seung;Kim, Nam-Hoon;Jang, Woojong;Lee, Junki;Yang, Tae-Jin
    • Journal of Ginseng Research
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    • v.44 no.1
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    • pp.135-144
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    • 2020
  • Background: Panax species are important herbal medicinal plants in the Araliaceae family. Recently, we reported the complete chloroplast genomes and 45S nuclear ribosomal DNA sequences from seven Panax species, two (P. quinquefolius and P. trifolius) from North America and five (P. ginseng, P. notoginseng, P. japonicus, P. vietnamensis, and P. stipuleanatus) from Asia. Methods: We conducted phylogenetic analysis of these chloroplast sequences with 12 other Araliaceae species and comprehensive comparative analysis among the seven Panax whole chloroplast genomes. Results: We identified 1,128 single nucleotide polymorphisms (SNP) in coding gene sequences, distributed among 72 of the 79 protein-coding genes in the chloroplast genomes of the seven Panax species. The other seven genes (including psaJ, psbN, rpl23, psbF, psbL, rps18, and rps7) were identical among the Panax species. We also discovered that 12 large chloroplast genome fragments were transferred into the mitochondrial genome based on sharing of more than 90% sequence similarity. The total size of transferred fragments was 60,331 bp, corresponding to approximately 38.6% of chloroplast genome. We developed 18 SNP markers from the chloroplast genic coding sequence regions that were not similar to regions in the mitochondrial genome. These markers included two or three species-specific markers for each species and can be used to authenticate all the seven Panax species from the others. Conclusion: The comparative analysis of chloroplast genomes from seven Panax species elucidated their genetic diversity and evolutionary relationships, and 18 species-specific markers were able to discriminate among these species, thereby furthering efforts to protect the ginseng industry from economically motivated adulteration.

Molecular Typing of Salmonella enterica serovar Typhi Strains Isolated in Busan by Pulsed-Field Gel Electrophoresis (부산지역에서 분리된 Salmonella enterica serovar Typhi균에 대한 PFGE를 이용한 Molecular typing)

  • Min, Sang-Kee;Lee, Ju-Hyun;Park, Eun-Hee;Kim, Jung-Ah;Kim, Kyu-Won
    • Journal of Life Science
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    • v.16 no.4
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    • pp.664-671
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    • 2006
  • We obtained 424 Salmonella enterica serovar Typhi isolates from sporadic cases of infection in Busan during 1996 to 2005. We investigated the trend of antimicrobial resistance and molecular typing by pulsed-field gel electrophoresis (PFGE). Of the total 424 isolates, 6 strains (1.4%) were multidrug-resistant (MDR) S. enterica serovar Typhi isolates, 2 strains (0.5%) were resistant to only nalidixic acid, and the remaining 416 strains (98.1%) were fully susceptible to the 18 antimicrobial agent. PFGE of XbaI-digested chromosomal DNA was performed on 50 sporadic S. enterica serovar Typhi isolates with the objective of investigating the extent of genetic diversity of these isolates in our region. We could find that these isolates were much more heterogeneous and at least 32 different PFGE patterns were generated according by dice coefficient, between 0.69 and 1.0. Restriction fragment patterns consisted of 13 to 18 fragments ranged in size from 20 to 630 kb. The results confirmed that PFGE would be an useful tool for investigating surveillance of sporadic or outbreak case and assessing clonality for S. enterica serovar Typhi in Busan area. Our finding will be valuable in developing rational strategies to control this pathogen and setting the basis of an effective PulseNet system in Korea.