• 한국작물학회:학술대회논문집
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• 한국작물학회 2022년도 추계학술대회
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• pp.218-218
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• 2022

Granules-bound starch synthase II (GBSSII), one of the isoforms of granule-bound starch synthase (GBSS), is responsible for amylose synthesis by expressing in non-storage tissues such as leaf, stem, root, and pericarp. Up to date, little is known about this gene functions and basic knowledge of heritable characteristics of this gene, GBSSII. We identified functional haplotypes and performed evolutionary analyses on the GBSSII using 374 rice accessions (320 Korean bred and 54 wild) based on the classified groups. A total of 14 haplotypes were found, and almost all haplotypes (13) were functional, carrying 19 non-synonymous SNPs in two exons (exons 1 and 2). The lowest nucleotide diversity was detected in Tropical japonica (0.00145), while the highest pi-value was in Aus (0.01081), illustrating the signal of this gene evolution. The highest Tajima's D value in Aus (1.6380) indicates GBSSII gene domestication signature under balancing selection, while the lowest Tajima's D value in Temperate japonica (-0.8243) highlights that they were under positive selection, which may be purified due to the excess of rare alleles. The highest genetic differentiation was observed between Tropical japonica and aroma (F_ST = 0.921928). In contrast, the highest interbreed level was detected in Aus-admixture (F_ST = -0.20157). The genetic relatedness between and or among the wild and cultivated subpopulations was revealed through PCA, population structure, and phylogenetic analyses.

• 응용통계연구
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• 제20권3호
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• pp.531-540
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• 2007

본 연구에서는 유전자 선택 방법으로 최근 이용되는 SVM-RFE 알고리즘은 단순히 가중치의 절대값을 유전자 선택 기준으로 사용하여 유전자 값의 변동성을 고려하지 못하므로 가중치의 절대값을 그것의 표준오차로 나눈 보완된 통계량, B-RFE 알고리즘을 새로운 기준으로 제안하였다. 두 방법을 모의실험을 통해서 비교한 결과 본 연구에서 제안한 B-RFE 알고리즘이 더 의미 있는 순위를 도출하였다.

• Food Science and Biotechnology
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• 제17권6호
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• pp.1221-1227
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• 2008

The application of the cellulase gene (celA) as a selection marker of food-grade integration system was investigated in Lactobacillus (Lb.) casei, Lactococcus lactis, and Leuconostoc (Leu.) mesenteroides. The 6.0-kb vector pOC13 containing celA from Clostridium thermocellum with an integrase gene and a phage attachment site originating from bacteriophage A2 was used for site-specific recombination into chromosomal DNA of lactic acid bacteria (LAB). pOC13 was also equipped with a broad host range plus replication origin from the lactococcal plasmid pWV01, and a controllable promoter of nisA ($P_{nisA}$) for the production of foreign proteins. pOC13 was integrated successfully into Lb. casei EM116, and pOC13 integrants were easily detectable by the formation of halo zone on plates containing cellulose. Recombinant Lb. casei EM 116::pOC13 maintained these traits in the absence of selection pressure during 100 generations. pOC13 was integrated into the chromosome of L. lactis and Leu. mesenteroides, and celA acted as an efficient selection marker. These results show that celA can be used as a food-grade selection marker, and that the new integrative vector could be used for the production of foreign proteins in LAB.

• The Plant Pathology Journal
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• 제33권3호
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• pp.296-306
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• 2017

Sugarcane mosaic virus (SCMV) is one of the most damaging viruses infecting sugarcane, maize and some other graminaceous species around the world. To investigate the genetic diversity of SCMV in Iran, the coat protein (CP) gene sequences of 23 SCMV isolates from different hosts were determined. The nucleotide sequence identity among Iranian isolates was more than 96%. They shared nucleotide identities of 75.5-99.9% with those of other SCMV isolates available in GenBank, the highest with the Egyptian isolate EGY7-1 (97.5-99.9%). The results of phylogenetic analysis suggested five divergent evolutionary lineages that did not completely reflect the geographical origin or host plant of the isolates. Population genetic analysis revealed greater between-group than within-group evolutionary divergence values, further supporting the results of the phylogenetic analysis. Our results indicated that natural selection might have contributed to the evolution of isolates belonging to the five identified SCMV groups, with infrequent genetic exchanges occurring between them. Phylogenetic analyses and the estimation of genetic distance indicated that Iranian isolates have low genetic diversity. No recombination was found in the CP cistron of Iranian isolates and the CP gene was under negative selection. These findings provide a comprehensive analysis of the population structure and driving forces for the evolution of SCMV with implications for global exchange of sugarcane germplasm. Gene flow, selection and somehow homologous recombination were found to be the important evolutionary factors shaping the genetic structure of SCMV populations.

• Journal of Plant Biotechnology
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• 제30권4호
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• pp.335-339
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• 2003

pSK109를 포함하고 있는 Agrobacterium LBA4004을 통하여 국화 'Shuho-no-chikara'에 LEAFY 유전자을 도입하였다. 엽절편체의 생존율은 kanamycin 10mg/L가 첨가된 배지에서 생존율 약 22%, 절편체의 재분화율이 10%정도였다. 그러나 kanamycin 20mg/L가 첨가된 배지에서는 엽절편은 약 5%정도 생존하였으나 전혀 재분화가 나타나지 않았다. 따라서 kanamycin 10mg/L를 1차 선발배지로, 20mg/L를 2차 선발배지로 선발하였다. Agrobacterium LBA4404와 국화 엽절편체를 3일간 공동배양 하는 것이 형질전환에 효과적이었다. LEAFY유전자가 삽입된 pSK109 vector를 포함한 Agrobacterium LBA4404의 형질전환 효율은 2차 선발까지 약 2.8% 였으며, Southern blot한 결과 0.13%만이 형질 전환체로 확인되었다. 형질 전환체 한계통은 포장에서 약 1주일 정도 조기개화하였고 화형은 정상이었다.

• 대한전기학회:학술대회논문집
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• 대한전기학회 2002년도 하계학술대회 논문집 D
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• pp.2815-2817
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• 2002

Classification method of cancers using cDNA microarrays data was developed using genetic algorithms and neural networks. For gene selection, 2308 genes were ranked using genetic algorithms, and selected by frequency number of selection from 1000 of genetic iterative runs. To calculate fitness values, artificial neural networks are used as classifier. The small, round blue cell tumors (SRBCTs) which is difficult to distinguish via pathological single test was used as test diseases for classification, and the test results showed the 96% of exact classification capability for 25 test samples.

• Animal Bioscience
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• 제34권9호
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• pp.1425-1438
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• 2021

Maintaining a high level of beef consumption requires paying attention not only to quantitative traits but also to the quality and dietary properties of meat. Growing consumer demands do not leave producers many options for how animals are selected for breeding and animal keeping. Meat and carcass fatness quality traits, which are influenced by multiple genes, are economically important in beef cattle breeding programs. The recent availability of genome sequencing methods and many previously identified molecular markers offer new opportunities for animal breeding, including the use of molecular information in selection programs. Many gene polymorphisms have thus far been analyzed and evaluated as potential candidates for molecular markers of meat quality traits. Knowledge of these markers can be further applied to breeding programs through marker-assisted selection. In this literature review, we discuss the most promising and well-described candidates and their associations with selected beef production traits.

• International Journal of Industrial Entomology and Biomaterials
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• 제13권1호
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• pp.1-5
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• 2006

The major dominant fluoride-endurance (Dfe) gene was introduced into the commercial varieties by crossing and pedigree selection to breed silkworm races that could normally develop in the area that polluted by fluoride. After backcrossed for two generations, the Dfe gene was made homozygous, and individuals with good economic characters were selected to generate next generation. After 8 generations of selection, their characters became stable, and the silkworm variety which is resistant to fluoride, Huayuan${\times}$Dongsheng, for spring rearing were bred.

• Genomics & Informatics
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• 제2권4호
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• pp.180-183
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• 2004

Comparative Statistic Module(CSM) provides more reliable list of significant genes to genomics researchers by offering the commonly selected genes and a method of choice by calculating the rank of each statistical test based on the average ranking of common genes across the five statistical methods, i.e. t-test, Kruskal-Wallis (Wilcoxon signed rank) test, SAM, two sample multiple test, and Empirical Bayesian test. This statistical analysis module is implemented in Perl, and R languages.

• Asian-Australasian Journal of Animal Sciences
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• 제28권12호
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• pp.1686-1695
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• 2015

Molecular marker selection has been an acceptable tool in the acceleration of the genetic response of desired traits to improve production performance in chickens. The crossbreds from commercial parent stock (PS) broilers with four Thai synthetic breeds; Kaen Thong (KT), Khai Mook Esarn (KM), Soi Nin (SN), and Soi Pet (SP) were used to study the association among chicken growth hormones (cGH) and the insulin-like growth factor (IGF-I) genes for growth and carcass traits; for the purpose of developing a suitable terminal breeding program for Thai broilers. A total of 408 chickens of four Thai broiler lines were genotyped, using polymerase chain reaction-restriction fragment length polymorphism methods. The cGH gene was significantly associated with body weight at hatching; at 4, 6, 8, 10 weeks of age and with average daily gain (ADG); during 2 to 4, 4 to 6, 0 to 6, 0 to 8, and 0 to 10 weeks of age in $PS{\times}KM$ chickens. For $PS{\times}KT$ populations, cGH gene showed significant association with body weight at hatching, and ADG; during 8 to 10 weeks of age. The single nucleotide polymorphism variant confirmed that allele G has positive effects for body weight and ADG. Within carcass traits, cGH revealed a tentative association within the dressing percentage. For the IGF-I gene polymorphism, there were significant associations with body weight at hatching; at 2, 4, and 6 weeks of age and ADG; during 0 to 2, 4 to 6, and 0 to 6 weeks of age; in all of four Thai broiler populations. There were tentative associations of the IGF-I gene within the percentages of breast muscles and wings. Thus, cGH gene may be used as a candidate gene, to improve growth traits of Thai broilers.