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윤문근,이주경,진형주,진덕희 한국수산과학회 2009 Fisheries and Aquatic Sciences Vol.12 No.1
Nucleotide sequences of about 500 bp from the 5' end of mitochondrial (mt) DNA Cytochrome Oxidase I (COI) were analyzed to estimate the genetic variation between wild and cultured populations of the ascidian Halocynthia roretzi from two sites along the coast of Korea. A total of 25 haplotypes were defined by 21 variable nucleotide sites in the examined COI region. Genetic diversity (haplotype diversity and nucleotide divergence) of wild populations was higher than that of the cultured population. These data suggest that reduced genetic variation in the cultured population may have results from bottleneck effect caused by the use of a limited number of parental stock and pooling of gametes for fertilization. Pairwise population FST estimates inferred that wild and cultured populations were genetically distinct. The combined results suggest that sequence polymorphism in the COI region would be preferable for estimating the genetic diversity of ascidian populations.
윤문근,이충일,정해근,김현우,박현제,강창근,심정희,김근용,박주면,유해균 (사)한국해양생명과학회 2022 한국해양생명과학회지 Vol.7 No.1
Mitochondrial genomes of three specimens of Gadus chalcogrammus Pallas 1,814 from Korea and Japan were completely analyzed by the primer walking method. They were 16,570~16,571 bp in length, each comprising 13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes. Their gene orders were identical to those of conspecific specimens, but exhibited unique haplotypes. In the phylogenetic tree, the juvenile Korean and adult Japanese specimens were separated from the dominant clade composed of specimens from Japan, Korea, the Bering Sea, and the Arctic, including the adult Korean specimen.
윤문근,진형주,성기백,진덕희 한국수산과학회 2008 Fisheries and Aquatic Sciences Vol.11 No.1
We analyzed the nucleotide sequences of about 500 bp of the mitochondrial NADH dehydrogenase subunit 3 (ND3) gene to estimate the genetic variation of Korean masu salmon (Oncorhynchus masou) populations. DNA samples were collected from 104 river-only specimens and 52 anadromous specimens from three hatcheries and one river. There are no records of artificial release into the river. We amplified the ND3 gene by polymerase chain reaction, targeting areas that included parts of the cytochrome oxidase III gene and the NADH dehydrogenase subunit 4L gene, and defined 14 haplotypes based on 12 variable nucleotide sites in the examined region. Among the haplotypes, ten were specific to river-only specimens within hatchery populations. Haplotype diversity of river-only populations in hatcheries was higher than that of anadromous and wild populations. Pairwise population FST estimates and neighbor-joining tree analyses inferred that anadromous and river-only populations were distinct. These results suggest that sequence polymorphism in the ND3 region may be a useful marker for analyzing the genetic variation and population structure of masu salmon.
윤문근,홍성익,남윤권,김동수 한국통합생물학회 2011 Animal cells and systems Vol.15 No.3
The genetic diversity and population history of the Asian shore crab, Hemigrapsus sanguineus, were investigated with a nucleotide sequence analysis of 536 base pairs (bp) of the mitochondrial cytochrome c oxidase subunit I gene (COI) in 111 samples collected from four populations in Korea and one in Japan. In total, 28 haplotypes were defined by 27 variable nucleotide sites in the COI region examined. The observed haplotypes had a shallow haplotype genealogy and no geographical associations. Most of the populations had high haplotype diversity (0.6560.788) and low nucleotide diversity (0.001650.00244), and significant negative values for Fu’s F_S, suggesting rapid and recent population growth from an ancestral population and sudden population expansion. The pairwise fixation indices (F_(ST)) estimated with the exact test and the migration rates indicate that substantial gene flow occurs among these populations as a result of sea currents, except between the Yellow Sea coast of Korea (BUA) and the Pacific Ocean coast of Japan (JPA). These two populations (BUA and JPA) showed significant genetic differentiation and low migration rate.
윤문근,정주연,김동수 한국수산과학회 2013 Fisheries and Aquatic Sciences Vol.16 No.4
Genetic diversity and gene flow patterns in Pollicipes mitella were investigated with a nucleotide sequence analysis of 514 base pairs from the mitochondrial cytochrome c oxidase subunit I gene (COI) in 124 samples collected from six Korean populations. Intotal, 59 haplotypes were defined by 40 variable nucleotide sites in the COI region. The haplotypes had shallow haplotype genealogy and no geographic associations. All populations had high haplotype diversity (0.909 to 0.979) and low nucleotide diversity(0.0055 to 0.0098). The haplotypes with recently diverged nucleotides were distributed by long-range larvae dispersal among regional populations. The pairwise fixation indices (FST) estimated with the exact test and migration rates indicate that substantialgene flow has occurred among populations as a result of sea currents, except between the Uljin (East Sea coast) and other Korean populations. This suggests that significant genetic differentiation and low migration rates have affected the Uljin population.
윤문근 ( Moon Geun Yoon ),정주연 ( Ju Yeon Jung ),남윤권 ( Yoon Kwon Nam ),김동수 ( Dong Soo Kim ) 한국수산과학회(구 한국수산학회) 2011 Fisheries and Aquatic Sciences Vol.14 No.1
The genetic diversity and population genetic structure of thread-sail filefish, Stephanolepis cirrhifer (Temminck & Schlegel), were examined with a nucleotide sequence analysis of a 495bp fragment of the 5`-end of the cytochrome b gene in 113 fish collected from five populations from the south and east coasts of the Korean Peninsula. Seventeen variable nucleotide sites and 16 haplotypes were defined. The observed haplotypes had a shallow haplotype genealogy and no geographical association. Most of the populations had high haplotype diversity and low nucleotide diversity, and significant negative values for Fu`s FS, suggesting rapid, recent population growth from an ancestral population and sudden population expansion. The estimated pairwise fixation indices (FST) indicate that substantial gene flow occurs among these populations. Thread-sail filefish in the South Sea of Korea and East Sea Korean populations forms a single panmictic population. Thus, thread-sail filefish in these areas should be treated as one management unit.
한국 주변해역에 서식하는 살오징어(Todarodes pacificus)의 형태 및 유전학적 계군분석
김정연,윤문근,문창호,강창근,최광호,이충일,Kim, Jeong-Yun,Yoon, Moon-Geun,Moon, Chang-Ho,Kang, Chang-Keun,Choi, Kwang Ho,Lee, Chung Il 한국해양학회 2013 바다 Vol.18 No.3
본 연구는 2011년 9월에서 12월까지 동해(북부, 중부, 남부), 서해, 동중국해의 해구에서 각각 채집된 살오징어의 계군을 형태 및 유전학 차이를 이용하여 구분하였다. 형태학적 차이에 따른 계군분석은 평균성숙외투장(20-22 cm)을 기준으로 하여 발생시기를 구분하였고, 유전학적 특성에 따른 계군은 mtDNA COI 영역의 염기변이에 의한 유전자 다양성을 이용하여 확인하였다. 본 연구 결과 평균성숙외투장을 기준으로 동해 북부는 발생시기가 하계군, 나머지 집단(동해 중부, 동해 남부, 동중국해 북부, 서해 북부)은 추계군으로 크게 2개의 계군으로 추정되었다. 유전자 분석결과 살오징어 mtDNA COI 영역에서 총 49개의 haplotype을 확인하였다. TCS 분석결과 haplotype 유전자형 네트워크가 star-like형태이며, 모든 집단에서 유전적 다양성(haplotype diversity, h)이 높고(h=0.661~0.841), 반면에 염기 다양도(nucleotide diversity, ${\pi}$)가 낮게 나타난 점으로 미루어보아 국내 서식 살오징어의 경우 최근에 급속한 집단의 분화가 이루어진 것으로 판단된다. Pairwise Fst를 이용한 집단분석결과 비록 모든 집단간의 유전적 차이가 낮게 나타났지만(Fst = 0.001~0.043) 평균성숙외투장 기준으로 같은 추계군으로 분류된 집단(동해 중부, 동해남부, 서해 북부)간에는 유전적 차이를 확인할 수 있었다(P<0.05). Stock identification of Todarodes pacificus collected in the East Sea, Yellow Sea and East China Sea during the period from September to December in 2011 was analyzed by morphometric characters and mitochondrial DNA (mtDNA) cytochrome oxidase subunit I (COI) gene nucleotide variations. Frequency distributions of mantle length was analyzed by morphological method with measuring size of T. pacificus. Then each stock was estimated to confirm their maturation for mean mantle length comparing with mean mature mantle length 20-22 cm. According to morphologic stock identification, it is estimated that the northern part of East Sea is categorized as summer stock and the rest parts, including mid /southern part of the East Sea, northern part of the East China Sea and northern part of the West Sea were autumn stock. For genetic analysis, a total 49 haplotypes were defined by 33 variable nucleotide sites. From the extensive haplotype diversity, limited nucleotide diversity and star-like shape of haplotype network, T. pacificus appears to have undergone rapid population expansion from an ancestral population with a small effective population size. Although pair-wise Fst estimates which represent genetic difference among groups were low, there are relatively remarkable difference of Fst between middle and southern part of the East Sea. Although middle part of the East Sea and southern part of the East Sea were situated at the East Sea, genetically separated groups were appeared.
우선옥,윤문근,서동상,송준임,김정하,염승식 한국유전학회 2004 Genes & Genomics Vol.26 No.4
The complete cDNA of eukaryotic translation elongation factor 1A (eEF1A) from the soft coral Scleronephthya gracillimum (Kükenthal) (Alcyonacea, Octocorallia, Anthozoa, Cnidaria) was cloned by RT-PCR and the nucleotide sequences were determined. The information on primary structure of the eEF1A gene and protein may be useful for the gene expression study as well as for the phylogenetic study. The full-length cDNA of S. gracillimum eEF1A comprised 1612 bp, not including the poly (A)+ stretch, and contained a complete open reading frame encoding 461 amino acids. The deduced amino acid sequence showed 85% identity to placozoan, 86% to human and 77% to hydra. Considering that functional domains are highly conserved throughout the evolutionary history, the present study suggests that the amino acid sequence of eEF1A alone may not resolve the phylogenetic relationship of lower metazoans. A possible solution to overcome the long branch problems that appear in cnidiarian phylogeny is discussed.