• 제목/요약/키워드: MICROSATELLITES

검색결과 138건 처리시간 0.018초

Genetic Characteristics of 207 Microsatellite Markers in the Korean Population and in other Asian Populations

  • Choi, Su-Jin;Song, Hye-Kyung;Jeong, Jae-Hwan;Jeon, In-Ho;Yoon, Ho-Sung;Chung, Ki Wha;Won, Yong-Jin;Choi, Je-Yong;Kim, Un-Kyung
    • Molecules and Cells
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    • 제25권2호
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    • pp.301-304
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    • 2008
  • Microsatellites, short tandem repeats, are useful markers for genetic analysis because of their high frequency of occurrence over the genome, high information content due to variable repeat lengths, and ease of typing. To establish a panel of microsatellite markers useful for genetic studies of the Korean population, the allele frequencies and heterozygosities of 207 microsatellite markers in 119 unrelated Korean, Indian and Pakistani individuals were compared. The average heterozygosity of the Korean population was 0.71, similar to that of the Indian and Pakistani populations. More than 80% of the markers showed heterozygosity of over 0.6 and were valuable as genetic markers for genome-wide screening for disease susceptibility loci in these populations. To identify the allelic distributions of the multilocus genetic data from these microsatellite markers, the population structures were assessed by clustering. These markers supported, with the most probability, three clustering groups corresponding to the three geographical populations. When we assumed only two hypothetical clusters (K), the Korean population was separate from the others, suggesting a relatively deep divergence of the Korean population. The present 207 microsatellite markers appear to reflect the historical and geographical origins of the different populations as well as displaying a similar degree of variation to that seen in previously published genetic data. Thus, these markers will be useful as a reference for human genetic studies on Asians.

Quantitative Trait Loci Mapping for Porcine Backfat Thickness

  • Wu, X.L.;Lee, C.;Jiang, J.;Peng, Y.L.;Yan, H.F.;Yang, S.L.;Xiao, B.N.;Liu, X.C.;Shi, Q.S.
    • Asian-Australasian Journal of Animal Sciences
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    • 제15권7호
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    • pp.932-937
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    • 2002
  • A partial genome scan using porcine microsatellites was carried out to detect quantitative trait loci (QTL) for backfat thickness (BFT) in a pig reference population. This population carried QTL on chromosomes 1, 13 and 18. The QTL on chromosome 1 was located between marker loci S0113 and SW1301. The QTL corresponded to very low density lipoprotein receptor gene (VLDLR) in location and in biological effects, suggesting that VLDLR might be a candidate gene. The QTL found on chromosome 13 was found between marker loci SWR1941 and SW864, but significance for the marker-trait association was inconsistent by using data with different generations. The QTL on chromosome 18 was discovered between markers S0062 and S0117, and it was in proximity of the regions where IGFBP3 and GHRHR were located. The porcine obese gene might be also a candidate gene for the QTL on chromosome 18. In order to understand genetic architecture of BFT better, fine mapping and positional comparative candidate gene analyses are necessary.

우리별 1, 2호의 열제어 모델 개발 및 궤도 운용 결과를 바탕으로 한 모델의 검증 (DEVELOPMENT OF THE THERMAL MODEL FOR KITSAT-1/2 MICROSATELLITES AND ITS VERIFICATION USING IN-ORBIT TELEMETRIES)

  • 박성동;배정석;성단근;최순달
    • Journal of Astronomy and Space Sciences
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    • 제13권2호
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    • pp.105-116
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    • 1996
  • 이 연구는 1992년 8월 11일과 1993년 9월 26일 발사된 우리별 1호 및 우리별 2호의 열제어 모델 및 그 동안의 운용 결과에 대한 해석을 바탕으로 한 것이다. 우리별 1, 2호는 아리안 발사체의 초소형 위성 탑재를 위한 특수 구조물에 장착되어 발사되었기 때문에 크기, 전력, 무게 등의 제한으로 인해 외부로부터의 열 흡수와 방출의 제어 및 내부의 연결 모듈간의 열 흐름을 제어하여 위성체 전반의 열적 환경을 조절하는 수동적인 방식의 열제어를 채택하게 되었다. 우리별 위성의 주 임무는 위성 기술의 개발과 더불어 위성체 바닥면에 탑재된 CCD 카메라를 이용하여 지구 표면을 촬영하는 것이었기 때문에 위성의 바닥면은 항상 지구의 중심을 향하고 있게 된다. 이 연구는 위성의 임무 궤도에 대한 분석으로부터 열 모델링, 시뮬레이션 결과 및 우리별 2호의 실제 운용헤서 얻어진 원격검침 정보를 바탕으로 한 열 모델의 평가를 포함한다. 이 분석 결과를 바탕으로 수동 제어에 의한 우리별 위성의 열 모델 및 해석이 실제 측정된 온도 데이터와 평균 오차 $$10^{\circ}C$ 이내에서 일치되었음을 보여 준다.

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한국 재래돼지 브랜드 돈육 원산지 검증을 위한 유전자 원산지 감식 기법 활용 연구 (Application of DNA Test for Individual Traceability in the Brand Marketing of Korean Native Pig.)

  • 최봉암;이학교;전광주;오재돈;최일신;박미현;공홍식;정일정;김태헌;윤두학;조병욱
    • 한국유기농업학회지
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    • 제12권2호
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    • pp.197-207
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    • 2004
  • Identification of animals has been used with an e ar tag with dummy code and blood typing has been used for paternity and individual identification in live animals. Various genetic markers are different for breeds of pig and hence, it is necessary to identity the discrete genetic marker in korean native pig. A total of 240 pigs were used to find korean native pig population specific markers that expressed in population of korean native pigs. To identify the individual traceability, 20 animals were randomly chosen and tested for a whole process from being live to slaughter stages. The candidate genetic marker used in the study were 18 DNA microsatellites which were identified in pig genome. The number of alleles of those DNA microsatellites ranged form a minimum of 3 to maximum of 6. The heterozygote frequency rang6d from 0.44 to 0.69. Effective number of alleles for each DNA microsatellotes were 2 to 4. By choosing 6 candidate genetic markers among all, the traceability of individual identification was estimated as accurate as 99.99%(p>0.0014), nearly.

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Reverse Random Amplified Microsatellite Polymorphism Reveals Enhanced Polymorphisms in the 3' End of Simple Sequence Repeats in the Pepper Genome

  • Min, Woong-Ki;Han, Jung-Heon;Kang, Won-Hee;Lee, Heung-Ryul;Kim, Byung-Dong
    • Molecules and Cells
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    • 제26권3호
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    • pp.250-257
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    • 2008
  • Microsatellites or simple sequence repeats (SSR) are widely distributed in eukaryotic genomes and are informative genetic markers. Despite many advantages of SSR markers such as a high degree of allelic polymorphisms, co-dominant inheritance, multi-allelism, and genome-wide coverage in various plant species, they also have shortcomings such as low polymorphic rates between genetically close lines, especially in Capsicum annuum. We developed an alternative technique to SSR by normalizing and alternating anchored primers in random amplified microsatellite polymorphisms (RAMP). This technique, designated reverse random amplified microsatellite polymorphism (rRAMP), allows the detection of nucleotide variation in the 3' region flanking an SSR using normalized anchored and random primer combinations. The reproducibility and frequency of polymorphic loci in rRAMP was vigorously enhanced by translocation of the 5' anchor of repeat sequences to the 3' end position and selective use of moderate arbitrary primers. In our study, the PCR banding pattern of rRAMP was highly dependent on the frequency of repeat motifs and primer combinations with random primers. Linkage analysis showed that rRAMP markers were well scattered on an intra-specific pepper map. Based on these results, we suggest that this technique is useful for studying genetic diversity, molecular fingerprinting, and rapidly constructing molecular maps for diverse plant species.

Individual Identification using The Multiplex PCR with Microsatellite Markers in Swine

  • Kim, Lee-Kung;Park, Chang-Min;Park, Sun-Ae;Kim, Seung-Chang;Chung, Hoyoung;Chai, Han-Ha;Jeong, Gyeong-Yong;Choi, Bong-Hwan
    • Reproductive and Developmental Biology
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    • 제37권4호
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    • pp.205-211
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    • 2013
  • The swine is one of the most widespread mammalian throughout the whole world. Presently, many studies concerning microsatellites in swine, especially domestic pigs, have been carried out in order to investigate general diversity patterns among either populations or breeds. Until now, a lot of time and effort spend into a single PCR method. But simple and more rapid multiplex PCR methods have been developed. The purpose of this study is to develop a robust set of microsatellites markers (MS marker) for traceability and individual identification. Using multiplex-PCR method with 23 MS marker divided 2 set, various alleles occurring to 5 swine breed (Berkshire, Landrace, Yorkshire, Duroc and Korea native pig) used markers to determine allele frequency and heterozygosity. MS marker found 4 alleles at SW403, S0227, SWR414, SW1041 and SW1377. The most were found 10 alleles at SW1920. Heterozygosity represented the lowest value of 0.102 at SWR414 and highest value of 0.861 at SW1920. So, it was recognized appropriate allele frequency for individual identification in swine. Using multiplex-PCR method, MS markers used to determine individual identification biomarker and breed-specific marker for faster, more accurate and lower analysis cost. Based on this result, a scientific basis was established to the existing pedigree data by applying genetics additionally. Swine traceability is expected to be very useful system and be conducted nationwide in future.

Development of a High-Resolution Multi-Locus Microsatellite Typing Method for Colletotrichum gloeosporioides

  • Mehta, Nikita;Hagen, Ferry;Aamir, Sadaf;Singh, Sanjay K.;Baghela, Abhishek
    • Mycobiology
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    • 제45권4호
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    • pp.401-408
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    • 2017
  • Colletotrichum gloeosporioides is an economically important fungal pathogen causing substantial yield losses indifferent host plants. To understand the genetic diversity and molecular epidemiology of this fungus, we have developed a novel, high-resolution multi-locus microsatellite typing (MLMT) method. Bioinformatic analysis of C. gloeosporioides unannotated genome sequence yielded eight potential microsatellite loci, of which five, CG1 $(GT)_n$, CG2 $(GT1)_n$, CG3 $(TC)_n$, CG4 $(CT)_n$, and CG5 $(CT1)_n$ were selected for further study based on their universal amplification potential, reproducibility, and repeat number polymorphism. The selected microsatellites were used to analyze 31 strains of C. gloeosporioides isolated from 20 different host plants from India. All microsatellite loci were found to be polymorphic, and the approximate fragment sizes of microsatellite loci CG1, CG2, CG3, CG4, and CG5 were in ranges of 213-241, 197-227, 231-265, 209-275, and 132-188, respectively. Among the 31 isolates, 55 different genotypes were identified. The Simpson's index of diversity (D) values for the individual locus ranged from 0.79 to 0.92, with the D value of all combined five microsatellite loci being 0.99. Microsatellite data analysis revealed that isolates from Ocimum sanctum, Capsicum annuum (chili pepper), and Mangifera indica (mango) formed distinct clusters, therefore exhibited some level of correlation between certain genotypes and host. The developed MLMT method would be a powerful tool for studying the genetic diversity and any possible genotype-host correlation in C. gloeosporioides.

Molecular analysis of genetic diversity, population structure, and phylogeny of wild and cultivated tulips (Tulipa L.) by genic microsatellites

  • Pourkhaloee, Ali;Khosh-Khui, Morteza;Arens, Paul;Salehi, Hassan;Razi, Hooman;Niazi, Ali;Afsharifar, Alireza;Tuyl, Jaap van
    • Horticulture, Environment, and Biotechnology : HEB
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    • 제59권6호
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    • pp.875-888
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    • 2018
  • Tulip (Tulipa L.) is one of the most important ornamental geophytes in the world. Analysis of molecular variability of tulips is of great importance in conservation and parental lines selection in breeding programs. Of the 70 genic microsatellites, 15 highly polymorphic and reproducible markers were used to assess the genetic diversity, structure, and relationships among 280 individuals of 36 wild and cultivated tulip accessions from two countries: Iran and the Netherlands. The mean values of gene diversity and polymorphism information content were 0.69 and 0.66, respectively, which indicated the high discriminatory power of markers. The calculated genetic diversity parameters were found to be the highest in wild T. systola Stapf (Derak region). Bayesian model-based STRU CTU RE analysis detected five gene pools for 36 germplasms which corresponded with morphological observations and traditional classifications. Based on analysis of molecular variance, to conserve wild genetic resources in some geographical locations, sampling should be performed from distant locations to achieve high diversity. The unweighted pair group method with arithmetic mean dendrogram and principal component analysis plot indicated that among wild tulips, T. systola and T. micheliana Hoog exhibited the closest relationships with cultivated tulips. Thus, it can be assumed that wild tulips from Iran and perhaps other Middle East countries played a role in the origin of T. gesneriana, which is likely a tulip species hybrid of unclear origin. In conclusion, due to the high genetic variability of wild tulips, they can be used in tulip breeding programs as a source of useful alleles related to resistance against stresses.

Development of microsatellite markers to assess the genetic diversity of the red-tongue viper, Gloydius ussuriensis (Reptilia: Viperidae) on the Korean Peninsula

  • Jung A Kim;Mu-Yeong Lee;Hye Sook Jeon;Min Seock Do;Kyo Soung Koo;Sang-Cheol Lee;Ji-Hwa Jung;Yoon-Jee Hong;Junghwa An
    • Journal of Species Research
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    • 제12권4호
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    • pp.281-285
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    • 2023
  • The red-tongue viper(Gloydius ussuriensis) is one of only three species of the genus Gloydius found in South Korea. Gloydius ussuriensis has a narrow activity radius and is distributed nationwide, and this species was reported to have the largest population among the Korean species in genus Gloydius. Preliminary results of a phylogenetic analysis using part of the mitochondrial DNA indicated that domestic G. ussuriensis is not comprised of monophyletic groups, and morphological analysis showed differences between domestic populations. In this study, we developed 17 microsatellites for the analysis of G. ussuriensis genetic diversity based on these characteristics. These microsatellites were developed using six multiplex panels, which could be employed to validate 80 G. ussuriensis specimens from different geographical regions in South Korea. The average number of alleles per locus was 12.2 and ranged from 4 to 25 alleles; the observed heterozygosity ranged from 0.238 to 0.950 and the expected heterozygosity ranged from 0.213 to 0.933. As a result of assessing four inland populations, a high level of genetic diversity was confirmed. These newly developed markers will be useful for further studies on the population structure and evolutionary history of the G. ussuriensis.

Newly Developed Microsatellite Markers of Mystus nemurus Tested for Cross-Species Amplification in Two Distantly Related Aquacultured Catfish Species

  • Chan, S.C.;Tan, S.G.;Siraj, S.S.;Yusoff, K.
    • Asian-Australasian Journal of Animal Sciences
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    • 제18권11호
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    • pp.1513-1518
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    • 2005
  • The work reported here is an attempt to explore the possibility of DNA microsatellite loci transfer (cross-species amplification) to other economically important aquacultured catfish species other than its source species. A total of 25 new microsatellite loci developed for riverine catfish, Mystus nemurus were successfully cross-amplified in two distantly related catfish species within the suborder Siluroidei. Five out of the 19 loci that successfully cross-amplified in Pangasius micronemus were polymorphic, while for Clarias batrachus, cross-amplification was successful using 17 polymorphic loci. The observed heterozygosities were high for all the three catfishes. The results indicated that microsatellite loci could be as polymorphic in non-source species as in the source species.