• Title, Summary, Keyword: Marker Loci

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A Major DNA Marker Mining of microsatellite loci in Hanwoo Chromosome 17

  • Lee, Yong-Won;Lee, Je-Yeong
    • 한국데이터정보과학회:학술대회논문집
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    • pp.54-58
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    • 2005
  • 한우 17번 염색체 유전자 지도에서 QTL (quantitative trait loci) 분석을 실시하여 선별된 Loci 값들을 순열검정(Permutation Test)을 이용하여 유의성 검정을 실시하였다. 한편, 우수 경제형질 DNA marker들을 K-평균 군집법을 실시 파악하였다. 또한, 부스트랩 방법을 이용하여 선별된 Locus의 DNA Marker들의 신뢰구간을 구하였다. 이들 QTL과 K-평균법, 부스트랩 방법에 의해 한우의 염색체 17번 BMS941의 우수 DNA Marker 85, 105번을 선별하였다.

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A Biochemical Study for the Development of Genetic Marker on Salmonids in Korea (한국산 연어류에서 Genetic Marker 개발을 위한 생화학적 연구)

  • HONG Kyung-Pyo;MYOUNG Jung-Goo;SON Jin-Ki;PARK Chul-Won
    • Korean Journal of Fisheries and Aquatic Sciences
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    • v.27 no.1
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    • pp.83-88
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    • 1994
  • For the purpose of genetic stock indentification of three species of salmonid fishs and their hybrid, lactate dehydrogenase(LDH), malate dehydrogenase(MDH), isocitrate dehydrogenase(IDH), a-gylycerophosphate dehydrogenase(a-GPDH), malic enzyme(ME), 6-phospho-gluconate dehydrogenase(6-PGD), phosphoglucose isomerase(PGI) and phospho-glucomutase(PGM) from skeletal muscle, liver, heart and gill tissues in all three species were analyzed. Chum and masu salmon showed no polymorphic patterns in all isozyme loci, however rainbow trout were found to have polymorphic patterns at MDH-B, LDH and IDH loci. Especially, significant differences were found at MDH-B loci between the three species and the IDH patterns of rainbow trout were also different from the other two species. These loci therefore can be utilized as efficient genetic markers for the identification of hybrids and improve the efficiency of fish breeding. There was no difference except PGI between diploid and triploid isozyme patterns but PGI showed some potential as a marker for triploid in masu salmon.

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Association of Marker Loci and QTL from Crosses of Inbred Parental Lines

  • Lee, Gi-Woong
    • Asian-Australasian Journal of Animal Sciences
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    • v.18 no.6
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    • pp.772-779
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    • 2005
  • The objectives of this study were to examine problems with using F$_1$ data by simulation, association of marker loci and QTL from crosses of inbred parental lines and to enumerate the preliminary characterization of genetic superiority within inbred parental lines. In this study, the association between markers for QTL used as covariates and estimates of variance components due to effects of lines was investigated through computer simulation. The effects of size of population to develop inbred lines and initial frequencies and magnitudes of effects of QTL were also considered. Results show that estimates of variance components due to line effects are influenced by including marker information as covariates in the model for analysis. Estimates of line variance were increased by adding marker information into the analysis, because negative covariances between effects associated with the markers and the remaining effects associated with other loci existed. However, the fit of the model as indicated by the log likelihood improved by adding more markers as covariates into the analysis. Marker assisted selection will be beneficial when markers explain unexplained genetic difference during selection procedure. Markers can be used to identify QTLs affecting traits, and to select for favorable QTL alleles. To efficiently use genetic markers, location of markers at the genome must be identified. The estimates of variance due to effects of with and without marker information used as covariates in the analysis were investigated. The estimates of line variances were always increased when markers were included as covariates for the model because a negative covariance were existed.

Identification of Mating Type Loci and Development of SCAR Marker Genetically Linked to the B3 Locus in Pleurotus eryngii

  • Ryu, Jae-San;Kim, Min Keun;Ro, Hyeon-Su;Kang, Young Min;Kwon, Jin-Hyeuk;Kong, Won-Sik;Lee, Hyun-Sook
    • Journal of Microbiology and Biotechnology
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    • v.22 no.9
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    • pp.1177-1184
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    • 2012
  • In order to estimate how diverse the mating types in Pleurotus eryngii from different regions are, pairings between monokaryons derived from inter- and intra-groups were done. Sixteen and 15 alleles were identified at loci A and B from the 12 strains. In the P. eryngii KNR2312, widely used for commercial production, four mating loci, A3, A4, B3, and B4, were determined. Those loci, except A3, were found in 4 strains out of 12 strains. To improve breeding efficiency, especially in mating type determination, RAPD and BSA were performed to screen for a mating type specific marker. The SCAR marker 13-$2_{2100}$ was developed based on the RAPD-derived sequence typing B3 locus. The sequence analysis of 13-$2_{2100}$ revealed that it contained a conserved domain, the STE3 super-family, and consensus sequences like the TATA box and GC box. It seems likely that the SCAR marker region is a part of the pheromone receptor gene.

A Major DNA marker Mining of ILST035 microsatellite loci in Hanwoo Chromosome 6

  • Lee, Jea-Young;Yeo, Jung-Sou;Kim, Jae-Woo;Lee, Yong-Won
    • Journal of the Korean Data and Information Science Society
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    • v.13 no.2
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    • pp.97-104
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    • 2002
  • K-Means modelling has been tried for finding major DNA marker of ILST035 microsatellite loci in Hanwoo Chromosome 6 linkage map. Major DNA markers are obtained from the ILST035 microsatellite through quantitative trait loci(QTL) and data mining modelling.

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A Major DNA Marker Mining of BM4311 Microsatellite Loci in Hanwoo Chromosome 6

  • Lee, Jea-Young;Kim, Mun-Jung;Lee, Yong-Won
    • Journal of the Korean Data and Information Science Society
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    • v.14 no.4
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    • pp.759-772
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    • 2003
  • K-Means and Web mining modelling have been tried for finding major DNA marker of BM4311 microsatellite loci in Hanwoo Chromosome 6 linkage map. Furthermore, a major DNA mining by bootstrap simulations(BCa) has been applied.

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Genetic Diversity of Barley Cultivars as Revealed by SSR Masker

  • Kim, Hong-Sik;Park, Kwang-Geun;Baek, Seong-Bum;Suh, Sae-Jung;Nam, Jung-Hyun
    • KOREAN JOURNAL OF CROP SCIENCE
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    • v.47 no.5
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    • pp.379-383
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    • 2002
  • Allelic diversity of 44 microsatellite marker loci originated from the coding regions of specific genes or the non-coding regions of barley genome was analyzed for 19 barley genotypes. Multi-allelic variation was observed at the most of marker loci except for HVM13, HVM15, HVM22, and HVM64. The number of different alleles ranged from 2 to 12 with a mean of 4.0 alleles per micro-satellite. Twenty-one alleles derived from 10 marker loci are specific for certain genotypes. The level of polymorphism (Polymorphic Information Content, PIC) based on the band pattern frequencies among genotypes was relatively high at the several loci such as HVM3, HVM5, HVM14, HVM36, HVM62 and HVM67. In the cluster analysis using genetic similarity matrix calculated from microsatellite-derived DNA profiles, two major groups were classified and the spike-row type was a major factor for clustering. Correlation between genetic similarity matrices based on microsatellite markers and pedigree data was highly significant ($r=0.57^{**}$), but these two parameters were moderately associated each other. On the other hand, RAPD-based genetic similarity matrix was more highly associated with microsatellite-based genetic similarity ($r=0.63^{**}$) than coefficient of parentage.

Estimation of Genetic Characteristic and Cumulative Power of Breed Discrimination Using Microsatellite Markers in Hanwoo (Microsatellite Marker를 사용한 한우 품종 식별력 및 유전적 특성 분석)

  • Oh, Jae-Don;Lee, Jin-Ah;Kong, Hong-Sik;Park, Keong-Do;Yoon, Du-Hak;Jeon, Gwang-Ju;Lee, Hak-Kyo
    • Journal of Embryo Transfer
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    • v.23 no.3
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    • pp.203-209
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    • 2008
  • To estimate the genetic characteristics and cumulative power of discrimination (CPD) existing among Hanwoo (Korean cattle) and exotic foreign population (Angus, Herford, Charolais, Holstein) we used a total of 414 genomic DNAs from five breeds population (Hanwoo, Angus, Hereford, Charolais, Holstein). Genetic characteristics indices including mean allele number among loci, unbiased heterozygosity ($h_i$) within locus and polymorphic information content (PIC) and unbiased average heterozygosity (H) among loci in four breeds were calculated using the generated allele frequencies by each marker. The mean allele numbers for all loci ranged between 5 and 7 while heterozygosity (H) ranged from 0.75 (HW) to 0.64 (HF) among loci and across breeds heterozygosity (H) was 0.69. The generated unbiased average heterozygosity among loci in each breed was integrated to the global formula of CPD resulting in 99.71 % within the populations. The genetic variation of HW (Hanwoo) showed highest estimates among the analyzed breeds.

Isozyme Patterns at Five Loci Salmonids and Their Hybrid(I) (연어류에서의 종간교배 및 Isozyme Pattern에 관한 연구)

  • 홍경표;명정구;김병기;손진기
    • Journal of Embryo Transfer
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    • v.7 no.1
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    • pp.31-39
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    • 1992
  • 연어류의 종간교배 실험과 LDH, MDH, IDH, $\alpha$GODH, ME 등 다섯가지 isozyme에 대한 genetic marker로서의 활용 가능성을 알아보고자 1차적으로 연어, 산천어 및 무지개송어를 이용하여 종간교배를 실시하였고 이들 세종의 isozyme pattern을 비교하였다. 교배실험은 종간교배, 및 allotriploid 구간 등 12구간으로 나누어 실시하였으며 연어 암컷과 산천어 수컷의 교배결과가 초기성장 단계적에서 가장 우수하게 나타났고이들의 allotriploid도 부활율이 28.1%로 가장 우수하였다. Genetic identification을 위한 isozyme loci 분석결과 연어와 산천어는 대부분의 loci에서 거의 찾아볼 수 없었고 무지개송어는 MDH-B와 IDH에서 다형현상을 확인할 수 있었다. 특히 MDH-B loci는 b 유전자의 출현 빈도에서 세 종간의 식별이 가능하였으며, IDH pattern을 산천어와 무지개송어의 비교에 유효한 것으로 나타났다. 이들 두 loci는 hybrid의 genotype 분석시 유용한 marker로 활용할 수 있는 가능성을 보였고, 앞으로의 어류 육종에 좋은 기초 자료로 이용될 것으로 사료된다.

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STUDIES ON BIOCHEMICAL POLYMORPHISM OF MILK PROTEIN AS GENETIC MARKERS IN PIGS

  • Chung, E.R.;Han, S.K.;Shin, Y.C.;Chung, H.Y.;Kim, J.E.
    • Asian-Australasian Journal of Animal Sciences
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    • v.5 no.2
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    • pp.285-294
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    • 1992
  • Biochemical polymorphisms of sow's milk proteins, $\beta$-casein ($\beta$-CN), $\beta$-lactoglobulin ($\beta$-LG), post-lactoglobulin (post-LG), $\alpha$-lactalbumin ($\alpha$-LA) and X-protein, as genetic markers for major pig breeds (Landrace, Yorkshire, Duroc, Hampshire and cross bred) in Korea were determined by starch gel electrophoresis. Phenotype and gene frequencies at all marker loci were estimated and genetic differences among breed populations were analyzed. Three $\beta$-CN phenotypes (AA, AB and BB) controlled by two codominant alleles (${\beta}-CN^A$ and ${\beta}-CN^B$), four $\beta$-LG phenotypes (AA, AC, $AC^{\pm}$ and CC) controlled by two codominant alleles (${\beta}-LG^A$ and ${\beta}-LG^C$) and ten X-protein phenotypes (AA, BB, CC, DD, AB, AC, AD, BC, BD and CD) controlled by four codominant alleles ($X^A,\;X^B,\;X^C\;and\;X^D$) were identified. In addition, a genetically controlled polymorphism of post-LG was found for the first time in sow's milk protein. Three different phenotypes (AA, AB and BB) were designated $post-LG^A$ and $post-LG^B$. Of the five marker loci examined, $\alpha$-LA locus was observed to lack any individual variation in all breeds studied. All populations were in Hardy-Weinberg equilibrium for all loci. There were marked breed differences for phenotype and gene frequencies in the post-LG and X-protein marker loci. However, there were little differences between breeds in the gene frequencies at the $\beta$-CN and $\beta$-LG marker loci.