• Asian-Australasian Journal of Animal Sciences
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• v.31 no.8
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• pp.1134-1140
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• 2018

Objective: Fatty acid composition is one of the most important meat quality traits because it can contribute to functional, sensorial, and nutritional factors. In this study, quantitative trait locus (QTL) analyses for fatty acid composition traits were investigated in thigh and breast meat of Korean native chicken (KNC). Methods: In total, 18 fatty acid composition traits were investigated from each meat sample using 83 parents, and 595 $F_1$ chicks of 20 week old. Genotype assessment was performed using 171 informative DNA markers on 26 autosomes. The KNC linkage map was constructed by CRI-MAP software, which calculated genetic distances, with map orders between markers. The half-sib and full-sib QTL analyses were performed using GridQTL and SOLAR programs, respectively. Results: In total, 30 QTLs (12 in the thigh and 18 in the breast meat) were detected by the half-sib analysis and 7 QTLs (3 in the thigh and 4 in the breast meat) were identified by the full-sib analysis. Conclusion: With further verification of the QTL regions using additional markers and positional candidate gene studies, these results can provide valuable information for determining causative mutations affecting the fatty acid composition of KNC meat. Moreover, these findings may aid in the selection of birds with favorable fatty acid composition traits.

• Land and Housing Review
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• v.13 no.1
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• pp.113-129
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• 2022

A building's eco-friendliness is directly related to various values including the life cycle cost of a building. However, the conventional architectural design method has a limitation in that it cannot create an optimized case according to the surrounding environmental conditions. Therefore, the purpose of this research is to present a design assistance tool that can review planning cases optimized for the environmental conditions of the building site in the planning stage of architectural production. To achieve the purpose of the study, an algorithm for realizing 3D modeling of the region and analysis of the solar environment was produced based on the site contours, building, and road information from the digital topographic map provided by the National Geographic Information Institute. To examine the validity of the developed algorithm, a comparative experiment was conducted targeting the elevation direction of the existing building. As a result, it was found that the optimal elevation direction selected by the algorithm can receive higher insolation compared to the front facade of the main building.

• Journal of Plant Biotechnology
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• v.33 no.3
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• pp.153-160
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• 2006

Brassica rape is an important species used as a vegetable, oil, and fodder worldwide. It is related phylogenically to Arabidopsis thaliana, which has already been fully sequenced as a model plant. The 'Multinational Brassica Genome Project (MBGP)'was launched by the international Brassica community with the aim of sequencing the whole genome of B. rapa in 2003 on account of its value and the fact that it has the smallest genome among the diploid Brassica. The genome study was carried out not only to know the structure of genome but also to understand the function and the evolution of the genes comprehensively. There are two mapping populations, over 1,000 molecular markers and a genetic map, 2 BAC libraries, physical map, a 22 cDHA libraries as suitable genomic materials for examining the genome of B. rapa ssp. pekinensis Chinese cabbage. As the first step for whole genome analysis, 220,000 BAC-end sequences of the KBrH and KBrB BAC library are achieved by cooperation of six countries. The results of BAC-end sequence analysis will provide a clue in understanding the structure of the genome of Brassica rapa by analyzing the gene sequence, annotation and abundant repetitive DHA. The second stage involves sequencing of the genetically mapped seed BACs and identifying the overlapping BACs for complete genome sequencing. Currently, the second stage is comprises of process genetic anchoring using communal populations and maps to identify more than 1,000 seed BACs based on a BAC-to-BAC strategy. For the initial sequencing, 629 seed BACs corresponding to the minimum tiling path onto Arabidopsis genome were selected and fully sequenced. These BACs are now anchoring to the genetic map using the development of SSR markers. This information will be useful for identifying near BAC clones with the seed BAC on a genome map. From the BAC sequences, it is revealed that the Brassica rapa genome has extensive triplication of the DNA segment coupled with variable gene losses and rearrangements within the segments. This article introduces the current status and prospective of Korea Brassica Genome Project and the bioinformatics tools possessed in each national team. In the near future, data of the genome will contribute to improving Brassicas for their economic use as well as in understanding the evolutional process.

• Journal of KIISE:Computer Systems and Theory
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• v.33 no.6
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• pp.316-325
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• 2006

In diploid organisms like human, each chromosome consists of two copies. A haplotype is a SNP(single nucleotide polymorphism) sequence information from each copy. Finding the complete map of haplotypes in human population is one of the important issues in human genome. To obtain haplotypes via experimental methods is both time-consuming and expensive. Therefore, inference methods have been used to infer haplotyes from the genotype samples. In this paper, we propose a new approach using genetic algorithm to infer haplotypes, which is based on the model of finding the minimum number of haplotypes that explain the genotype samples. We show that by doing a computational experiment, our algorithm has the correctness similar to HAPAR[1] which is known to produce good results while the execution time of our algorithm is less than that of HAPAR as the input size is increased. The experimental result is also compared with the result by the recent method PTG[2].

• Journal of Life Science
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• v.16 no.2 s.75
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• pp.219-224
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• 2006

Inter-simple sequence repeat (ISSR) analysis were used to assess genetic diversity among 18 genotypes of watermelon (Citrullus lanatus Thunb.) including breeding lines and commercial varieties. The 21 ISSR primers selected from 100 primers were showed the amplification of 105 reproducible fragments ranging from about 200 bp to 5000 bp. A total of 58 DNA fragments were polymorphic with an average 2.7 polymorphic bands per primer. The polymorphic primers were divided into 18 anchored primers and 3 non anchored primers. All of the anchored primers were di-nucleotide repeat motif, and was more polymorphic than non anchored primers. Eighteen watermelon genotypes were classified into two large groups. Clustering was in some accordance with the division of fruit shape into 18 watermelon. Therefore, ISSR markers may be suitable for variety discrimination and for constructing a linkage map of watermelon.

• Mycobiology
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• v.45 no.2
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• pp.105-109
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• 2017

Sixteen genomic DNA simple sequence repeat (SSR) markers of Lentinula edodes were developed from 205 SSR motifs present in 46.1-Mb long L. edodes genome sequences. The number of alleles ranged from 3-14 and the major allele frequency was distributed from 0.17-0.96. The values of observed and expected heterozygosity ranged from 0.00-0.76 and 0.07-0.90, respectively. The polymorphic information content value ranged from 0.07-0.89. A dendrogram, based on 16 SSR markers clustered by the paired hierarchical clustering' method, showed that 33 shiitake cultivars could be divided into three major groups and successfully identified. These SSR markers will contribute to the efficient breeding of this species by providing diversity in shiitake varieties. Furthermore, the genomic information covered by the markers can provide a valuable resource for genetic linkage map construction, molecular mapping, and marker-assisted selection in the shiitake mushroom.

• Asian-Australasian Journal of Animal Sciences
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• v.20 no.5
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• pp.669-676
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• 2007

This study was conducted to detect quantitative trait loci (QTL) affecting growth and body composition in an $F_2$ reference population of Korean native pig and Landrace crossbreds. The three-generation mapping population was generated with 411 progeny from 38 $F_2$ full-sib families, and 133 genetic markers were used to produce a sex-average map of the 18 autosomes. The data set was analyzed using least squares Mendelian and parent-of-origin interval-mapping models. Lack-of-fit tests between the models were used to characterize QTL for mode of expressions. A total of 8 (39) QTL were detected at the 5% genome (chromosome)-wise level for the 17 analyzed traits. Of the 47 QTL detected, 21 QTL were classified as Mendelian expressed, 13 QTL as paternally expressed, 6 QTL as maternally expressed, and 7 QTL as partially expressed. Of the detected QTL at 5% genome-wise level, two QTL had Mendelian mode of inheritance on SSC6 and SSC9 for backfat thickness and bone weight, respectively, two QTL were maternally expressed for leather weight and front leg weight on SSC6 and SSC12, respectively, one QTL was paternally expressed for birth weight on SSC4, and three QTL were partially expressed for hot carcass weight and rear leg weight on SSC6, and bone weight on SSC13. Many of the Mendelian QTL had a dominant (complete or overdominant) mode of gene action, and only a few of the QTL were primarily additive, which reflects that heterosis for growth is appreciable in a cross between Korean native pig and Landrace. Our results indicate that alternate breed alleles of growth and body composition QTL are segregating between the two breeds, which could be utilized for genetic improvement of growth via marker-assisted selection.

• Asian Pacific Journal of Cancer Prevention
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• v.15 no.17
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• pp.7443-7447
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• 2014

Aim: Little is known about the genetic associations with Basal cell carcinoma (BCC) risk in non-Caucasian populations, in which BCC is rare, as in Korea. We here conducted a pilot genome-wide association study (GWAS) in 12 patients and 48 standard controls. Method: A total of 263,511 SNPs were analyzed with the Illumina HumanOmni1 Quad v1.0 DNA Analysis BeadChip for cases and Korean HapMap 570K for controls. Results: SNP-based analyses, based on the allele genetic model with adjustment for sex and age showed suggestive associations with BCC risk for 6 SNPs with a P-value (P < 0.0005). However, these associations were not statistically significant after Bonferroni correction: rs1040503, rs2216491, rs13407683, rs4751072, rs9891263, and rs1368474. In addition, results from gene-based analyses showed suggestive associations with BCC risk for 33 candidate genes with a P-value (P <0.0005). Consistent with previous GWAS and replication studies in Caucasian populations, PADI6, RHOU and SLC45A2 were identified as having null associations with BCC (P > 0.05), likely due to the smaller sample size. Conclusions: Although this was a small-scale negative study, to our knowledge, we have conducted the first GWAS for BCC risk in an Asian population. Further large studies in non-Caucasian populations are required to achieve statistical significance and confirm these findings.

• Horticultural Science & Technology
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• v.32 no.6
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• pp.745-752
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• 2014

Chinese cabbage (Brassica rapa L. ssp. pekinensis) is an economically important vegetable crop as a source of the traditional food Kimchi in Korea. Although many varieties exhibiting desirable traits have been developed by the conventional selective breeding approach, breeding related to abiotic or biotic stresses, such as a particular pests or diseases, or tolerance to climatic conditions, is likely to be slow. This could be helped by an efficient method for selection from various, rapidly-evolved genetic resources on the basis of molecular markers. In particular, the Brassica genome sequencing project enables genome-wide discovery of genes or genetic variants associated with agricultural traits. We here discuss the recent progress in the field of Chinese cabbage breeding with regard to the application of molecular markers.

• Korean Journal of Plant Tissue Culture
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• v.24 no.3
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• pp.161-165
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• 1997

The R-mb locus of maize is one of several genes that encode tissue-specific transcriptional regulator for the anthocyanin biosynthesis in plant parts and the aleurone layer in seeds. We found that the seed pigment frequencies gradually decreased at selfed progenies of the R-mb genetic stocks. In order to analyze the genomic structure of R-mb locus components, genomic Southern blot was performed by using R specific probe, pR-nj:1. Two bands were detected at the size of about 3.9 and 7.75kb. Five R-mb positive clones (mb-II, III, V,Ⅵ, and Ⅶ) were obtained by screening of maize genomic λFIXII library using R specific probe pR-nj:1. We constructed the restriction map of clone mb-II (7.75Kb positive) and mb-Ⅵ (3.9Kb positive), and have compared these with other R locus genes. From genetic and molecular analysis, it is suggested that R-mb complex consists two copy of R elements, and each element shows the paramutagenic and gene silencing effects by the fashion of cis-inactivation.