• Title, Summary, Keyword: Microsatellites

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Characteristics of Microsatellites in the Transcript Sequences of the Laccaria bicolor Genome

  • Li, Shuxian;Zhang, Xinye;Yin, Tongming
    • Journal of Microbiology and Biotechnology
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    • v.20 no.3
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    • pp.474-479
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    • 2010
  • In this paper, we analyzed the microsatellites in the transcript sequences of the whole Laccaria bicolor genome. Our results revealed that, apart from the triplet repeats, length diversification and richness of the detected microsatellites positively correlated with their repeat motif lengths, which were distinct from the variation trends observed for the transcriptional microsatellites in the genome of higher plants. We also compared the microsatellites detected in the genic regions and in the nongenic regions of the L. bicolor genome. Subsequently, SSR primers were designed for the transcriptional microsatellites in the L. bicolor genome. These SSR primers provide desirable genetic resources to the ectomycorrhizae community, and this study provides deep insight into the characteristics of the micro satellite sequences in the L. bicolor genome.

Microsatellite Sequences of Mammals and Their Applications in Genome Analysis in Pigs - A Review

  • Behl, Rahul;Sheoran, Neelam;Behl, Jyotsna;Tantia, M.S.;Vijh, R.K.
    • Asian-Australasian Journal of Animal Sciences
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    • v.15 no.12
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    • pp.1822-1830
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    • 2002
  • The microsatellites are the short tandem repeats of 1 to 6 bp long monomer sequences that are repeated several times. These short tandem repeats are considered to be generated by the slipped strand mispairing. Based on the unique capability of alternating purine-pyrimidine residues to form Z-DNA, the possible role of the microsatellites in gene regulation has been proposed. The microsatellites are highly polymorphic, follow Mendelian inheritance and are evenly distributed throughout the genomes of eukaryotes. They are easy to isolate and the polymerase chain reaction based typing of the alleles can be readily automated. These properties make them the preferred markers for comparison of the genetic structure of the closely related breeds/populations; very high-resolution genetic mapping and parentage testing etc. The microsatellites have rapidly replaced the restriction fragment length polymorphism (RFLP) and the random amplified polymorphic DNA (RAPD) in most applications in the population genetics studies in most species, including the various farm animals viz. cattle, buffalo, goat, sheep and pigs etc. More and more reports are now available describing the use of microsatellites in pigs ranging from measurement of genetic variation between breeds/populations, developing high resolution genetic maps to identifying and mapping genes of biological and economic importance.

Distributions of HLA Microsatellite Markers and the Linkage Disequilibria between HLA and Microsatellites in Koreans (한국인에서 HLA 유전자 부위 내 Microsatellite 표지자의 분포와 HLA 대립유전자의 유전적 연관성)

  • Jang, Jung-Pil;Choi, Eun-Jeong;Yoon, Ho-Yeul;Choi, Hee-Baeg;Kim, Hee-Je;Cho, Byung-Sik;Min, Woo-Sung;Lee, Jong-Wook;Kim, Chun-Choo;Kim, Tai-Gyu
    • IMMUNE NETWORK
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    • v.7 no.3
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    • pp.149-157
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    • 2007
  • Background: The microsatellites within human leukocyte antigen (HLA) region show considerable polymorphism and strong linkage disequilibrium (LD) with HLA alleles. These microsatellites have been used for genetic analysis including disease mapping to understand susceptibility to autoimmune and infectious diseases. Also, use of microsatellites has recently been proposed as an approach for identifying non-HLA markers within the HLA region that could function as transplantation determinants and for the selection of potential donors for transplantation. Methods: To analyse the frequency of five microsatellites in the Korean population, genotyping for polymorphisms at five microsatellites markers (BAT2, MIB, DQCAR, D6S105 and TNFd) within HLA region was performed on 143 healthy Korean controls. Results: The most frequent genotype shown in healthy Korean controls were BAT2 8 (153 bp, 42.7%), MIB 1 (326 bp, 40.6%), DQCAR 3 (188 bp, 38.5%), D6S105 7 (126 bp, 58.0%) and TNFd 3 (128 bp, 58.0%). And common two-loci haplotypes were found as MIB 1-HLA-B*62 (HF: 10.6%), MIB 6-HLA-B*44 (HF: 7.8%), DQCAR 3-HLA-DRB1*13 (HF: 8.5%), TNFd 5-HLA-B*62 (HF: 7.8%) and D6S105 7-HLA-A*02 (HF: 16.2%). Conclusion: These data might provide useful information on the microsatellites markers with HLA region in Korean population and be helpful in further defining the clinical impact of these microsatellites.

Current trends in forest science research using microsatellite markers in Korean national journals

  • Lee, Byeong-Ju;Eo, Soo Hyung
    • Korean Journal of Agricultural Science
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    • v.43 no.2
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    • pp.221-231
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    • 2016
  • Microsatellites, which are sequences of repetitive short nucleotides, are abundant in the genome and have relatively many alleles at a locus. Hence, microsatellite markers are used in various research areas such as medicine, agriculture, and biology. Thanks to recent advanced techniques and databases associated with microsatellite marker development, foreign research relying on microsatellite markers is increasing in various study areas. In this study, by analyzing microsatellites-related articles published during 2000-2014 from eight Korean national journals representing zoology, botany, genetics, ecology and environmental science, breeding science, and forest science ('Animal Cells and Systems', 'Journal of Plant Biology', 'Genes and Genomics', 'Korean Society of Environment and Ecology', 'Korean Journal of Breeding Science', 'Journal of Agricultural Science, Chungnam National University', 'Journal of Korean Forest Society' and 'Forest Science and Technology'), we found that the number of articles and diversity of study subjects and objects have increased considerably. However, there are fewer applications of microsatellites in the national forest science area. During 2000-2014 in 'Journal of Korean Forest Society', the percentage of articles dealing with microsatellite markers was found to be the lowest with 4.2% among articles focusing on PCR-based markers including RAPD, AFLP, and ISSR. However, in 'Canadian Journal of Forest Research' and 'Forest Ecology and Management', microsatellite marker articles were represented at their highest with 69.2% and 76.2%, respectively. Given the advantages of microsatellite markers, the publication of research papers using microsatellites should be increased in Korean forest science journals to the level of studies published in prominent international journals.

Individual-breed Assignment Analysis in Swine Populations by Using Microsatellite Markers

  • Fan, B.;Chen, Y.Z.;Moran, C.;Zhao, S.H;Liu, B.;Yu, M.;Zhu, M.J.;Xiong, T.A.;Li, K.
    • Asian-Australasian Journal of Animal Sciences
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    • v.18 no.11
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    • pp.1529-1534
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    • 2005
  • Individual-breed assignments were implemented in six swine populations using twenty six microsatellites recommended by the Food and Agriculture Organization and the International Society for Animal Genetics (FAO-ISAG). Most microsatellites exhibited high polymorphisms as shown by the number of alleles and the polymorphism information content. The assignment accuracy per locus obtained by using the Bayesian method ranged from 33.33% (CGA) to 68.47% (S0068), and the accumulated assignment accuracy of the top ten loci combination added up to 96.40%. The assignment power of microsatellites based on the Bayesian method had positive correlations with the number of alleles and the gene differential coefficient ($G_{st}$) per locus, while it has no relationship to genetic heterozygosity, polymorphism information content per locus and the exclusion probabilities under case II and case III. The percentage of corrected assignment was highest for the Bayesian method, followed by the gene frequency and distancebased methods. The assignment efficiency of microsatellites rose with increase in the number of loci used, and it can reach 98% when using a ten-locus combination. This indicated that such a set of ten microsatellites is sufficient for breed verification purposes.

STORED-AND-FORWARD PACKET COMMUNICATION PAYLOAD OF KITSAT 1/2 MICROSATELLITES (우리별 1/2호 위성의 축적 및 전송 탑재물)

  • 이영로;정태진;이서림;성단근
    • Journal of Astronomy and Space Sciences
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    • v.13 no.2
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    • pp.117-133
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    • 1996
  • In this paper, we describe the architecture and protoccl of stored-and-forward packet communication payload of KITSAT 1/2 microsatellites and then analyze this payload in terms of the probabilities of login success and login refusal, and maximum throughput as quality of service parmaeters.

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Solar Thermal Propulsion System for Microsatellites

  • Sahara, Hironori;Shimisu, Morio;Osa, Keitaro;Matsui, Yasuhiro;Fukuda, Miho;Daisuke, Maeyama;Nakamura, Yoshihiro
    • Proceedings of the Korean Society of Propulsion Engineers Conference
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    • pp.318-319
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    • 2004
  • This paper shows an application of single crystal metals and Single Shell Polymer Concentrator (SSPC) to Solar Thermal Propulsion (STP). Based on it, we fabricated a breadboard model of STP system (STP-BBM) for microsatellites. We also proposed Eco-Friendly End-of-Life De-Orbiting (EFELDO) by using such a high performance STP system.

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The Genetic Diversity of Seven Pig Breeds in China, Estimated by Means of Microsatellites

  • Li, X.;Li, K.;Fan, B.;Gong, Y.;Zhao, S.;Peng, Z.;Liu, B.
    • Asian-Australasian Journal of Animal Sciences
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    • v.13 no.9
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    • pp.1193-1195
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    • 2000
  • The polymorphisms of six microsatellites were investigated in four indigenous pig breeds (Erhualian, Tongcheng, Qingping and Wannanhua) and three introduced breeds (Large White, Landrace and Duroc) in China, and the genetic variations within and among populations were analyzed. The results showed that genetic diversity of Chinese indigenous pig breeds is higher than that of the introduced pig breeds. The clustering of seven breeds is consistent with their geographical distribution approximately. Estimated time of breed divergence ranged from 653 to 1856 years.

Molecular Characterisation of Nilagiri Sheep (Ovis aries) of South India Based on Microsatellites

  • Girish, Haris;Sivaselvam, S.N.;Karthickeyan, S.M.K.;Saravanan, R.
    • Asian-Australasian Journal of Animal Sciences
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    • v.20 no.5
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    • pp.633-637
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    • 2007
  • Genetic variation in Nilagiri sheep, the only apparel wool breed in South India was studied using 25 FAO recommended ovine-specific microsatellite markers. The number of observed alleles ranged from 3 to 8 with a mean of 5 across all loci. The size of alleles ranged from 72 to 228 bp. The frequency of alleles ranged from 0.0104 to 0.5781. In total, 125 alleles were observed at the 25 loci studied. The effective number of alleles ranged from 2.18 to 6.49. The mean number of effective alleles was 3.84 across all loci. All the 25 loci were found to be highly polymorphic. The PIC values ranged from 0.4587 to 0.8277 with a mean of 0.6485. Of 25 microsatellites studied, 17 were in Hardy-Weinberg Equilibrium proportions. The observed heterozygosity ranged from 0.4222 to 1.000 with a mean value of 0.7610 whereas the expected heterozygosity ranged from 0.5415 to 0.8459 with a mean value of 0.7213. Except six loci, the other loci revealed negative within-population inbreeding estimates (FIS) indicating excess of heterozygotes in the population of Nilagiri sheep.

Genetic diversity analysis of Glycyrrhiza uralensis using 8 novel polymorphic microsatellite markers

  • Um, Yurry;Jin, Mei-Lan;Lee, Yi;Hur, Mok;Cha, Seon Woo;Jung, Chan Sik;Kim, Seong Min;Lee, Jeong-Hoon
    • Journal of Plant Biotechnology
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    • v.43 no.2
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    • pp.174-180
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    • 2016
  • Licorice plant (Glycyrrhiza spp.) is an important herb, but the major portion of the national demand is imported to Korea because the domestic production base is vulnerable. We performed basic molecular breeding research for domestic cultivation and production. All publicly available G. uralensis EST sequences, which totaled 56,089, were assembled into 4,821 unigenes and examined for microsatellites. Eight polymorphic microsatellite loci were identified and 16 G. uralensis and 6 G. glabra accessions, which were collected from different locations, were genotyped using the microsatellites. Genetic diversity within the accessions was estimated by construction of a dendrogram. The dendrogram was clustered into two groups. The results showed that there is a correlative genetic relationship between species. The microsatellite markers were found to be useful for diversity analysis as they are able to successfully distinguish the Glycyrrhiza accessions.