Tìm thấy 20+ kết quả cho từ khóa "Linkage disequilibrium"
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Evaluation of genetic diversity and genome-wide linkage disequilibrium among U.S. https://doi.org/10.1007/s . Linkage maps of the RFLP sites in common wheat.. Detecting the number of clusters of individuals using the software structure: a simulation study. https://doi.org/10.1111/j x.
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The effect of linkage disequilibrium (LD) pruning on genome coverage and F ROH estimates for ICE, SAA, LAB and BAR in RZooRoH. L aut : Length of the autosomal genome. N out : Desired number of final outer SNPs on either side of the homozygous segment that should not be included in the final ROH. Tom Druet for his advice on the use of the RZooRoH algorithm..
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By intercrossing the Collaborative Cross strains, a Diversity Outbred stock was generated to reduce the linkage disequilibrium blocks characteristic of the founder inbred lines [6, 7].. The Diversity Outbred stock has been used to map nu- merous quantitative traits observed in the founding in- bred lines, including serum cholesterol levels and heart size [6, 8, 9]..
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Mathematical properties of the r2 measure of linkage disequilibrium. https://doi.org/1 0.1016/j.tpb . https://doi.org/1 0.1093/bioinformatics/bth457.. https://doi.org/10.1186/s . https://doi.org/10.3168/jds.2007-0980.. https://doi.org/10.2527/jas.2016.0874.
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The identified SNPs provide a clear picture of genetic structure, diversity, relatedness and linkage disequilib- rium of the studied population which leads to higher precision in parent selection for a need-based future breeding program. Sequencing of the library was done at Table 9 Linkage disequilibrium in the studied collection.
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Structure of linkage disequilibrium and phenotypic associations in the maize genome
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The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.. f Linkage disequilibrium r 2 heatmap of the entire region. c TE content variation of the sequence flanked by the two genes. e Frequency of the TE families in the sequence flanked by the two genes as a percentage of the population.
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A high-density linkage map based on resequencing a RIL population in foxtail millet.. Genome-Wide Association study of Major Agronomic traits in Foxtail Millet (Setaria italica L.) Using ddRAD sequencing. Population structure and linkage disequilibrium of ICRISAT foxtail millet (Setaria italica (L.) P. Foxtail millet: a model crop for genetic and genomic studies in bioenergy grasses. reference genome sequence of the model plant Setaria.
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Fitness epistasis has the potential to generate linkage disequilibrium [32, 33] and affect the efficiency of nat- ural selection [34, 35]. demonstrated that fitness epistasis can create LD among ancestry blocks in recently admixed populations such as African Americans and Hispanics, and this LD is detect- able by testing the correlation of local ancestry between two unlinked loci [3].
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Twenty-three of 37 SNPs were located within the known QTLs or located 75 kb near the known SNPs controlling soybean growth periods, indicating the feasibility of the nat- ural population for GWAS (Additional file 8). 3 The linkage disequilibrium (LD), principal component and kinship analyses of soybean genetic data. a The estimated average linkage disequilibrium (LD) decay of soybean genome. c The population structure of the soybean germplasm collection reflected by principal components. d The heat
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Many shared genetic variants are identified in linkage disequilibrium with variants associated with other human traits or dis- eases, and these pleiotropic connections connect the hu- man traits together [8, 12]. In a previous study, we reported that biochemical indices are closely associated with disease. Additionally, a genome-wide assay indicated that genes or loci associated with lipid traits are related to bio- chemical indices.
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Patterns of linkage disequilibrium in the human genome
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In order to make GCA improvement for quality traits in parents of hybrid rice by molecular marker assisted selection feasible, genome-wide GCA loci for quality traits in parents were detected through association analysis between the effects of GCA and constructed single nucleotide polymorphism linkage disequilibrium blocks (SNPLDBs), by using unhusked rice grains harvested from F 1 plants of 48 crosses of Indica rice and 78 crosses of Japonica rice.
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Nucleotide diversity and linkage disequilibrium in cold-hardiness- and wood quality-related candidate genes in Douglas-fir.. Conifers network: report of the 4th meeting. The Douglas-fir genome sequence reveals specialization of the photosynthetic apparatus in Pinaceae. Douglas-fir reference sequence database (v0.5 and v1.0) [Internet]. A SNP resource for Douglas-fir: de novo transcriptome assembly and SNP detection and validation.
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Several linkage disequilibrium (LD) blocks were detected in the regions where the 61 significantly associated SNPs were located: 3 LD blocks were detected in the region of 33.4–34.5 Mb on SSC5. 3 LD blocks were detected in the region of 36.1–44.3 Mb on SSC5, and 1 LD block was detected in the region of 47.1–47.8 Mb on SSC5 (Fig. 47.8 Mb regions on SSC5 maps in the Sscrofa 10.2 gen- ome assembly were realigned to 30.2–31.3 Mb, 33.6–. 41.08 Mb Mb on SSC5 in the Sscrofa 11.1 genome assembly by NCBI
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Genome-wide patterns of population structure and linkage disequilibrium in farmed Nile tilapia (Oreochromis niloticus). Yang J, Benyamin B, McEvoy BP, Gordon S, Henders AK, Nyholt DR, et al.
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The genetic variability in Iranian buffalo breeds have been recently studied and findings based on the Linkage Disequilibrium (LD) obtained from the Affymetrix 90 K SNP genotypes [19] showed a close genetic relation be- tween AZE and KHU due to a high LD consistency across the two populations and a lower similarity when the comparison involved MAZ with both AZE and KHU due to variability in the LD trend within breed.
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Prediction ac- curacy depends on many factors, including the model, crop, size of the reference population, extent of linkage disequilibrium (LD), marker set, and heritability of the. Recently, an updated version of the M. In a study using 4113 SNP markers, of which 90% mapped to v2 genome scaffolds, O’Connor, Kilian [44] found that LD decayed rapidly over short distances of the genome.. Narrow-sense heritability for yield in the study popula- tion was .
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Evaluation of linkage disequilibrium, population structure, and genetic diversity in the US peanut mini core collection. Haun WJ, Hyten DL, Xu WW, Gerhardt DJ, Albert TJ, Richmond T, et al.. The composition and origins of genomic variation among individuals of the soybean reference cultivar Williams 82
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Genetic structure and linkage disequilibrium of the assembled association panel. The SNP with the strongest association with tannin content was P = 6.02E-12) which tagged Sobic.005G kb away;. One of these 7 genes was a priori gene, Sobic.004G281000, (similar to MADS-box protein.