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Development of a DNA chip to identify the place of origin of hairtail species
박중연,김지훈,김은미,강정하,강현석,안철민,이원선,황승용 한국바이오칩학회 2013 BioChip Journal Vol.7 No.2
Hairtails of the family Trichiuridae are widely distributed in the West Sea, South Sea, and Jeju Island in Korea and form large populations on the continental shelf of the western North Pacific. These fish species are imported from China and several other countries because of the high demand in Korea. However,imported hairtail are difficult to distinguish from domestic hairtail. Thus, we developed a DNA chip that distinguishes three hairtail species from eight countries for quick and simple species identification. Species-specific oligonucleotide probes were designed by sequence analysis of the mitochondrial cytochrome c oxidase subunit I. In this study, we used speciesspecific probes and a DNA chip system to successfully and rapidly identify three different hairtail species from eight different geographical locations.
박중연,이승용,안철민,강정하,김지훈,채진철,JiaYu Chen,강진석,안정진,이영식,황승용 한국바이오칩학회 2012 BioChip Journal Vol.6 No.4
Recently people are increasingly health conscious and interested in their well-being. Dietary issues are also a hot topic of research, as an ever- growing industry aims to marked specific health benefits of foods. The attention of many people is also focused on the elemental composition of food, and many research groups focus on element analysis of food and fast identification of the chemical species of food elements. Also, many researchers are resolving questions of food elemental composition by the analysis of biological resource information. Many groups use DNA sequencing methods, because DNA analysis provides a complete picture of the genetic information. DNA sequencing methods are quickly changing due to the development of new biotechnology. Lately Next Generation Sequencing (NGS) techniques have been developed. NGS techniques have several advantages, such as increased productivity, as well as less time and cost. NGS technologies have resulted in new sequencing methods as well as the creation of a new foundation of genome research. Our research is based on species identification within fish cake using NGS and microarray. Finally we performed a comparative study between NGS and microarray by data analysis. We identified 39 fish species within fish cake samples, we are able to accurate analysis by sequence data. NGS techniques are used in many applications, including genomics and epigenomics. NGS techniques are widely used for gene analysis and early diagnosis of disease within medical R&D and bio-medical areas. Our research is widely applicable to the study of various biological materials, and may be applicable to the lowcost analysis of human genes. Our research can be applied to several areas of new research using multifaceted analysis.
일본 해역에 서식하고 있는 도다리, Pleuronichthys cornutus, 2형간의 유전적 분기
박중연,목도명박,강용주,PARK Jung-Youn,KIJIMA Akihiro,KANG Yong-Joo 한국수산과학회 1994 한국수산과학회지 Vol.27 No.3
일본에서 상업적으로 중요한 어종 중의 하나인 도다리 2형간 유전적 분기의 정도를 측정하기 위하여 전분 gel 전기영동법에 의한 isozyme분석을 행하였다. 도다리 2형간에 있어서 14종의 효소를 지배하는 22유전자좌가 검출되었으며 2형간에 있어서 공통의 대림유전자를 가지고 있지 않은 완전분기는 3유전자좌(Acp, Idh-2 및 Mdh-2)에서 관찰되었다. 2형간에 있어서 측정된 Nei의 유전적거리는 0.46592이었으며 2형간에 있어서 유전적 변이성의 차이를 나타내는 평균 이형 접합체율의 기대치는 A type에서 0.120, B type에서는 0.095로 나타났다. 이상의 결과로부터 2형간에 있어서 유전적으로 상호 분기되어 있었으며 그들의 분기 년도는 대략 $2.3{\times}10^6$년 전으로 추정된다. In order to estimate the degree of genetic divergence between the two types of finespotted flounder, Pleuronichthys cornutus which is important commercially in Japan, isozyme analysis was carried out by starch gel electrophoresis. Twenty two loci coding for fourteen enzymes were scored in two types of finespotted flounder and three completely divergent loci (Acp, Idh-2 and Mdh-2), with no common alleles, were observed between these two types. Nei's genetic distance between two types was 0.46592. However, the expected average heterozygosity was 0.120 in type A (Hon meitagarei) and 0.095 in type B (Bake meitagarei) These results mean that the existence of two types of finespotted flounder was established in this study which may have had genetic divergence and the divergence time of these two types may have been about $2.3{\times}10^6$ years ago.
2007-2009년 매물도에서 새우조망에 의한 어류 종조성의 연변동
박중연,강현숙,강정하,김진구,유정화,김동선 한국수산과학회 2013 한국수산과학회지 Vol.46 No.5
We investigated yearly fluctuation of the fish species composition of beam trawls off Maemuldo in the east southern sea of Korea, from March 2007 to November 2009. A total of 75 fish species were collected during the period. The number of fish species accumulated amounted to 54, 64 and 75 species in 2007, 2008 and 2009, respectively. The number of newly occurring species increased with time. The number of expected resident species in Maemuldo was estimated as 9 species including Conger myrister, Okamejei kenojei and Pholis nebulosa,each of which appeared more than 14 out of a total 27 times. Cluster analysis showed that the years 2007 and 2008 were closely clustered,while the year 2009 was distantly clustered with 2007 and 2008. This may be due to the high catch ratio of Clidoderma asperrimum in 2009alone, when a low water temperature phenomenon was observed unlike the situation in 2007 and 2008.
미토콘드리아 DNA에 의한 붕넙치과 어류 4종간의 염기치환수
박중연,김윤,PARK Jung-Youn,KIM Yoon 한국수산과학회 1995 한국수산과학회지 Vol.28 No.5
붕넙치과 어류의 종간에 있어서의 유전적 분화정도를 DNA level에서 관찰하기 위하여 참가자미, 문치가자미, 돌가자미, 강가자미의 미토콘드리아 DNA를 분리하고, 6염기인식의 14제한효소로써 절단한 절단단편의 염기치환수를 계산하였다. 1) mtDNA 총염기대수는 4종 모두 17.6kbp 부근으로 나타나 동일한 염기대수를 가지는 것으로 추정되었다. 2) 14종류의 제한효소로써 절단한 절단단편의 pattern으로 4종의 종내 및 종간의 haplotype수를 조사한 결과, 참가자미에서는 10개, 문치가자미에서는 4개, 강가자미에서는 2개, 돌가자미에서는 1개의 haplotype이 관찰되었으며, 종간에 있어서는 공통적인 haplotype가 전혀 관찰되지 않았다. 3) mtDNA의 유전적 변이성을 나타내는 haplotype 다양도 (h)는 참가자미에서 0.588, 문치가자미에서 0.371로 나타나 참가자미에서 높은 변이성을 나타내었다. 4) 4종의 유전적 분화의 정도를 mtDNA haplotype간의 제한 부위당 염기치환수 (d)로써 살펴 본 결과, 종내의 평균은 0.0045, 종간의 평균은 0.0344, 속간의 평균은 0.0457로 되어 종간, 속간의 값이 종내에 비해 현저하게 높은 수치를 나타내었다. 5) 4종간의 mtDNA haplotype는 1개 또는 2개의 염기치환에 의한 차이가 아니고 유전적 불연속을 나타내었다. In order to estimate the level of genetic differences among the pleuronectid species, mitochondrial DNAs were isolated from four species: brown sole, Limanda herensteini; marbled sole, Limanda Yokohamae; stone flounder, Kareius bicoloratus; starry flounder, Platichthys stellatus, and the number of nucleotide substitutions was calculated by the restriction fragment length polymorphisms (RFIPs) generated by f4 sin base recognition restriction endonucleases. Total lengths of the mitochondrial DNA were measured as about 17.6 kbp in all species. Ten different composite genotypes were observed in brown sole, four different genotypes in marbled sole, and two different genotypes in starry flounder. However, only one genotype was observed in stone flounder. The calculated haplotypic diversity value of brown sole was higher than that of marbled sole. The average number of nucleotide substitutions per sites in four species was estimated to be 0.0045 in the intraspecies, 0.0344 in the interspecies, and 0.0457 in the genera, respectively. From these results, we could estimate that the genetic differences among interspecies were not influenced by nucleotide substitutions but genetical discontinuous.