• 한국동물생명공학회지
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• 제35권2호
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• pp.198-206
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• 2020

Food and agricultural production sector, especially livestock production is vital for Mongolia's economic and social development. Domestic sheep play key roles for Mongolians, providing food (meat, milk) and raw materials (wool, sheepskin), but genetic diversity, origin of sheep populations in Mongolia have not been well studied. Studies of population genetic diversity is important research field in conservation and restoration of animal breeds and genetic resources. Therefore, this study aimed to investigate genetic characteristics and estimate origin through the analysis of mitochondrial DNA control region D-loop and Cytochrome b of Mongolian indigenous sheep (Mongolian native, Orkhon and Altanbulag) and one Europe sheep (Suffolk). As a result of there were found, 220 SNPs (Single nucleotide polymorphism) in the D-loop region, 28 SNPs in the Cytochrome B region, furthermore, 77 Haplotypes. The nucleotide diversity was only found in D-loop region (n = 0.0184). Phylogenetic analysis showed that 3 (A, B, and C) of 5 haplogroups of sheep have been identified in our research. Haplogroup C was only found in Mongolian indigenous sheep. Haplogroup D and E were not observed. As a result of haplogroups, haplogroup A was dominant (n = 46 of 94 sheeps), followed by haplogroup B (n = 36) and haplogroup C (n = 12). Sequence analysis showed that T deletion, insertion and heteroplasmy in D-loop region occurred at a high rate in Mongolian indigenous sheep population (T insertion = 47, T deletion = 83). The heteroplasmy, which has never been found in Mongolian sheep, has been newly discovered in this study. As a result, the Mongolian sheep varieties, which mainly derived from Asia, were in hybridization with European sheep varieties.

• 생명과학회지
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• 제23권1호
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• pp.24-30
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• 2013

본 연구는 mtDNA cytochrome b (Cyt b) 유전자 서열을 토대로 한국흑우의 유전적 다양성 및 계통유전학적 위치를 파악하기 위하여 실시하였다. 한국흑우 38두로부터 결정된 mtDNA Cyt b 유전자 전체서열 내에서 염기삽입 및 결실 없이 1개의 silent mutation이 동정되었다. 또한 2개의 haplotype으로 분류되었고, 염기변이율 및 haplotype 다양성지수에 기초한 한국흑우의 유전적 다양성은 기존에 보고된 중국 품종에 비해 낮게 나타났다. 한국, 일본, 중국에 분포하고 있는 12품종 101개 서열을 수집하여 한국흑우와의 유연관계를 확인하였다. 한국흑우에서 분류된 2개의 haplotype은 모두 B. taurus 계열에 포함되었으며, 한우, 일본흑우, Yanbian, Zaosheng 등 4개 품종과 하나의 그룹을 형성하였다. 또한 품종별 Dxy 유전거리 산출 결과, 한국흑우는 한우 및 일본흑우에 비해서 중국의 Yanbian, Zaosheng 품종과 더 가까운 유연관계를 보였다. 본 연구의 결과는 가축유전자원으로서 한국흑우의 보존 및 유전적 특성 구명을 위한 중요한 자료로 활용이 가능할 것으로 사료된다.

• 식물분류학회지
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• 제45권3호
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• pp.254-261
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• 2015

분비나무와 구상나무의 계통지리적 유연관계 파악을 위하여 16개 지역의 구상나무와 분비나무 집단에 대하여 미토콘드리아 DNA(nad5 intron 4, nad5 intron 1 지역)를 이용한 유전적 분석을 수행하였다. 그 결과 총 7 지역의 유전자 변이가 확인되었으며, 4개의 반수체형이 확인되었다. 개체군 내 평균 유전다양성($H_S$)은 0.098, 전체 유전다양성($H_T$)은 0.620으로 관찰되었으며, 개체군 간 분화값은 $G_{ST}=0.841$, $N_{ST}=0.849$로 확인되었다. 조사 개체의 지리적 위치에 따라 일본지역을 제외하고 3개의 그룹(북부지역, 중부지역, 남부지역)으로 나누었다. 북부지역과 남부지역은 대부분 각각 M1, M2 단일의 반수체형을 가지며, 중부지역은 북부지역과 남부지역의 분포경계에 위치하면서 유전자 유입으로 인해 유전 다양성 ($H_T=0.654$) 이 가장 높게 나타난 것으로 판단된다. 현재 남부지역의 단일의 반수체형(M2) 분포는 빙하기 때 북부지역에서 남하한 개체군들이 지리적 격리를 통해 분화하게 되고 빙하기 이후 다시 중부지역까지 분포 확장된 결과로 추측된다.

• Parasites, Hosts and Diseases
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• 제51권1호
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• pp.55-59
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• 2013

Twelve 924 bp cytochrome c oxidase subunit 1 (cox1) mitochondrial DNA sequences from Taenia asiatica isolates from Thailand were aligned and compared with multiple sequence isolates from Thailand and 6 other countries from the GenBank database. The genetic divergence of T. asiatica was also compared with Taenia saginata database sequences from 6 different countries in Asia, including Thailand, and 3 countries from other continents. The results showed that there were minor genetic variations within T. asiatica species, while high intraspecies variation was found in T. saginata. There were only 2 haplotypes and 1 polymorphic site found in T. asiatica, but 8 haplotypes and 9 polymorphic sites in T.saginata. Haplotype diversity was very low, 0.067, in T. asiatica and high, 0.700, in T. saginata. The very low genetic diversity suggested that T. asiatica may be at a risk due to the loss of potential adaptive alleles, resulting in reduced viability and decreased responses to environmental changes, which may endanger the species.

• Asian-Australasian Journal of Animal Sciences
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• 제24권8호
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• pp.1048-1052
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• 2011

The Chinese Holstein cattle breed, an introduced breed in China, has been crossbred with native cattle breeds. We hypothesised that the Chinese Holstein local population in Beijing share haplotypes with native Asian cattle breeds, the result of a sudden population expansion in the recent past. We also hypothesised that crossbreeding and population expansion left traces that shaped the genetic makeup of the breed. Evaluation of this was performed by mitochondrial DNA (mtDNA) sequence analysis of Chinese Holstein cattle from Beijing (n = 41) and a comparison of them with the published mtDNA sequences (n = 293) of 14 Asian breeds with an emphasis on Chinese native cattle breeds. Three shared common haplotypes between Chinese Holstein cattle and native Asian cattle were found. Moreover, a high level of haplotype diversity in Chinese Holstein cattle (h = 0.9557) and low nucleotide diversity (${\pi}$ = 0.0052) was found, indicating a past population bottleneck followed by rapid population growth. These findings are supported by the significantly negative deviation of Tajima's D (-1.82085), the star-like pattern of dominant haplotypes and the pairwise mismatch distribution analysis, which showed a unimodal pattern.

• Fisheries and Aquatic Sciences
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• 제15권1호
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• pp.49-56
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• 2012

Genetic variation in the Asian shore crab Hemigrapsus sanguineus was determined from partial mitochondrial DNA (mtDNA) sequences of the cytochrome b (Cytb) gene. Samples included 143 crabs from six localities along three coastlines in South Korea. A nucleotide sequence analysis revealed 38 variable sites in a 470-bp sequence, which defined 37 haplotypes. The haplotypes were not associated geographically and had a shallow genealogy. Pairwise $F_{ST}$ tests and a two-dimensional scaling analysis revealed no significant genetic differentiation among most of the populations. The low pairwise comparison values, but significant genetic differentiation of a northeastern population from all other populations, might have been influenced by a restriction in gene flow caused by hydrographic conditions such as ocean boundaries. The high haplotype diversity, low nucleotide diversity, and time since H. sanguineus expansion in Korean coastal waters indicate rapid population growth and a recent, sudden expansion in the Late Pleistocene.

• Animal cells and systems
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• 제14권3호
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• pp.197-206
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• 2010

The population structure of brown sole was examined in a total of 308 samples collected from three geographical groups: one locality (Gangneung) on the east side of the Korean Peninsula, two localities (Erimo and Tomakomai) on the southeastern side and four localities (Onishika, Teshio, Tomamae and Yoichi) on the northwestern side of Hokkaido Island, Japan, by using sequences of 484 bp from the 5' end of the control region of mtDNA. We detected 225 haplotypes, but 183 of them were unique to an individual. A total of 116 nucleotide sites were variable. Haplotype diversity (h) was very high, ranging from 0.989 to 1.000, and nucleotide diversity (${\pi}$) was detected between 0.015 and 0.022. Genetic distances (${\Phi}_{ST}$) within populations, among populations and among geographical groups were low (0.0002 to 0.0014). No significant difference was detected by the AMOVA test (P < 0.05). Pairwise $F_{ST}$ values between sampling localities were also low and not significant. Genetic differentiation was not detected among sampling localities.

• Animal Bioscience
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• 제35권7호
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• pp.949-954
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• 2022

Objective: The present study is aimed at phenotypic characterization and mitochondrial d-loop analysis of indigenous "Diara" buffalo population, which are mostly confined to the villages on the South and North Gangetic marshy plains in the Bihar state of India. These buffaloes are well adapted and are best suited for ploughing and puddling the wet fields meant for paddy cultivation. Methods: Biometric data on 172 buffaloes were collected using a standard flexible tape measure. Animals are medium in size; the typical morphometric features are long head with a broad forehead and moderately long and erect ears. Genomic DNA was isolated from unrelated animals. The mtDNA d-loop 358-bp sequence data was generated and compared with 338 sequences belonging to riverine and swamp buffaloes. Results: Based on the mitochondrial d-loop analysis the Diara buffaloes were grouped along with the haplotypes reported for riverine buffalo. Sequence analysis revealed the presence of 7 mitochondrial D loop haplotypes with haplotype diversity of 0.9643. Five of the haplotypes were shared with established swamp breeds and with Buffalo population of Orissa in India. Conclusion: Morphometric analyses clearly shows distinguishing features like long and broad forehead which may be useful in identification. The germplasm of Diara buffalo is much adapted to the marshy banks of river Ganga and its tributaries. It constitutes a valuable genetic resource which needs to be conserved on priority basis.

• 한국작물학회:학술대회논문집
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• 한국작물학회 2022년도 추계학술대회
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• pp.216-216
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• 2022

The starch-branching enzymes (BEs) are responsible for synthesizing the amylopectin, which plays an important role in determining the structural and physical properties of starch granules. BE has two differently functioning isoforms (BEI and BEIIa/b) based on their difference in the chain-length pattern by the degree of polymerization (DP), which mainly contributes to the amylopectin chain length distribution in starch biosynthesis. In this study, we investigated functional haplotypes and evolutionary analyses of SBE1 in 374 rice accessions (320 Korean bred and 54 wild). The analyses were performed based on the classified subpopulations. Haplotype analysis generates a total of 8 haplotypes, of which only four haplotypes were functional carrying four functional SNPs in four different exons of SBE1 on chromosome 6. Nucleotide diversity analysis showed a highest pi-value in aromatic group (0.0029), while the lowest diversity value was in temperate japonica (0.0002), indicating the signal of this gene evolution origin. Different directional selections could be estimated by negative Tajima's D value of temperate japonica (-1.1285) and positive Tajima's D value of tropical japonica (0.9456), where the selective sweeps were undergone by both positive purifying and balancing selections. Phylogenetic analysis indicates a closer relationship of the wild with most of the cultivated subgroups indicating a common ancestor for SBE1 gene. FST-values indicate distant genetic relationships of temperate japonica from all other classified groups. PCA and population structure analysis show an admixed structure of wild and cultivated subpopulations in some proportions.

• 한국작물학회:학술대회논문집
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• 한국작물학회 2022년도 추계학술대회
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• pp.217-217
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• 2022

Pullulanase (PUL), a debranching enzyme, has been utilized in hydrolyzing the a-1,6 glucosidic linkages in starch, amylopectin, pullulan, as well as related oligosaccharides. It has also been indicated that PUL is a novel indicator of inherent RS (Resistant Starch) formation in rice. In this study, we performed haplotype analysis on 320 bred rice accessions, and additional 54 wild accessions were added to study genetic diversity along with other population-based analyses of the PUL gene. Through these investigations, we summarized a total of 10 functional (non-synonymous) SNPs from 7 different exons on chromosome 4. There were 10 haplotypes, of which only six haplotypes were functional, implicating different subpopulations. Diversity reduction was noticed in temperate japonica (0.0005) compared to the highest one (aus, 0.0154), illustrating their higher genetic differentiation by F_ST-value (0.926). The highest Tajima^ D value was observed in indica (3.6613), indicating PUL gene domestication signature under balancing selection, while the lowest Tajima's D value was found in temperate japonica (-2.2191) which might have undergone under positive selection and purified due to the excess of rare alleles. PCA, population structure, and phylogenetic analyses provide information on the genetic relatedness between and or among the cultivated subpopulations and the wild based on PUL genomic region.