• 생명과학회지
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• 제23권4호
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• pp.595-601
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• 2013

생물들에서 생명의 본질적 기능을 수행하는 단백질들의 종류와 보존성을 밝히기 위해 COG (Clusters of Orthologous Groups of proteins) 알고리즘을 이용하였다. 66종의 미생물에서 보존적인 63개의 ortholog 그룹들은 진핵생물 7종에서 104개의 ortholog들로 확산되었으며, 7종 모두의 핵에 보존적인 KOG (euKaryotic Orthologous Group)은 71개였다. 71개 중 단백질 합성에 관여하는 유전자들이 총 54개로 생명현상에서의 단백질의 중요성을 확인할 수 있었다. Distance value로 보존적 유전자가 생물종 사이에 나타내는 유전자 변이의 정도를 파악하니 'Translation initiation factor'인 KOG3403과 KOG3271 그리고 'Prolyl-tRNA synthetase' (KOG4163) 등이 높은 보존성을 보였다. 보존적 KOG들의 평균과 분산으로 유전체 분석을 수행하여 꼬마선충이 KOG 평균사이의 편차가 제일 커 유전자의 변이가 다양한 것을 알 수 있었다. 본 연구결과는 기초연구와 항생제 개발 등에 이용될 수 있을 것이다.

• 한국환경과학회지
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• 제16권5호
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• pp.561-569
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• 2007

This study used SCS-CN method to estimate the real recharge of the study area which is one of the most reasonable techniques to estimate groundwater recharge when there is no available runoff data in a watershed. From the results of tile real recharge analysis for the study area using SCS-CN method, it was analyzed that the year 1994 when the drought was severe shotted the lowest recharge of 106.3mm with recharge rate of 12.4%, and the highest recharge of 285.6mm with recharge rate of 21.8% occurred in 1990. Yearly average recharge of 213.2mm was obtained, and tile average recharge rate was 16.9%/year. KOG-FLOW model which has powerful post process functions consists of setting environments for input parameters in Korean language, and help function is added to each input data. Detailed information for each parameter is displayed when the icon is placed on the input parameters, and geologic boundaries or initial head data for each layer can be set easily on work sheet. The relative errors (R. E.) for each model's observed values and calculated values are $0.156{\sim}0.432$ in case of KOG-FLOW, and $0.451{\sim}1.175$ in case of WINFLOW, therefore it is known that KOG-FLOW model developed in this study produced results compared to observed head values.

• 생명과학회지
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• 제24권7호
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• pp.791-797
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• 2014

원핵과 진핵생물에 공통 보존적인 OG (Orthologous Group of proteins)를 미토콘드리아 관련 OG와 비관련 OG로 나누어 분석하였다. 62개의 원핵-진핵생물 공통적 COG (Clusters of OG)중 20개가 미토콘드리아 관련 OG였고 이들은 모두 번역관련 OG로 생명현상에서의 단백질의 중요성을 확인할 수 있었다. 세포내 절대기생체인 뇌회백염원충은 비교대상 다른 생물들 모두에 공통적인 미토콘드리아 관련 OG가 전혀 없었다. 뇌회백염원충을 제외한 6개 진핵생물과 원핵생물 63종에 모두 보존적인 미토콘드리아 관련 OG는 17개였다. Phylogenetic tree의 distance 분석을 수행하니 보존적 OG가 원핵생물에서 미토콘드리아 관련 OG와 비관련 OG 등 각각 2개의 그룹으로 나누어 졌고(p<0.001, paired t-test) 진핵생물은 그렇지 않았다(p>0.05, paired t-test). 보존성이 가장 높은 ortholog는 미토콘드리아 관련 OG에서는 COG0048-KOG1750 (ribosomal small subunit S12)이었고, 미토콘드리아 비관련 OG에서는 COG0100-KOG0407 (ribosomal small subunit S11)이었다. 본 연구결과는 진화관계 등의 기초학문적 연구와 치료제 개발 등의 자료가 될 수 있을 것이다.

• 대한의생명과학회지
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• 제18권3호
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• pp.313-318
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• 2012

Acanthamoeba is an opportunistic pathogen known to cause granulomatous amoebic encephalitis and amebic keratitis. Acanthamoeba exhibits life cycle consisting of trophozoite and cyst, and the cyst is highly resistant to variable antibiotics and therapeutic agents. To understand the encystation mechanism of Acanthamoeba, the expression profiles of trophozoite and cyst were compared by gene ontology (GO) analysis. Ribosomal proteins and cytoskeletal proteins were highly expressed in trophozoite. In cyst, various protease, and signal transduction - and protein turnover - related proteins were highly expressed. These results correlated with eukaryotic orthologous groups (KOG) assignment and microarray analysis of Acanthamoeba trophozoite and cyst ESTs. The information of differential expression profiles of trophozoite and cyst would provide important clues for research on encystation mechanism of cyst forming protozoa including Acanthamoeba.

• 한국패류학회지
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• 제22권2호
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• pp.109-113
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• 2006

연체동물 유래 아미노산 서열 22,138 개에서 NLS가 예측되는 아미노산 서열은 266 개였으며 이는 연체동물 전체 아미노산 중 1.2% 정도였다. 또한 현재 등재되어 있는 연체동물 8,314 종 중 NLS를 포함한 아미노산이 밝혀진 생물은 60여종에 불과 하였다. 현재 알려진 연체동물 서열 중에는 두족 강의 경우가 NLS를 포함한 아미노산이 많을 것으로 예측되었다.

• Parasites, Hosts and Diseases
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• 제49권4호
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• pp.341-347
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• 2011

Acanthamoeba infection is difficult to treat because of the resistance property of Acanthamoeba cyst against the host immune system, diverse antibiotics, and therapeutic agents. To identify encystation mediating factors of Acanthamoeba, we compared the transcription profile between cysts and trophozoites using microarray analysis. The DNA chip was composed of 12,544 genes based on expressed sequence tag (EST) from an Acanthamoeba ESTs database (DB) constructed in our laboratory, genetic information of Acanthamoeba from TBest DB, and all of Acanthamoeba related genes registered in the NCBI. Microarray analysis indicated that 701 genes showed higher expression than 2 folds in cysts than in trophozoites, and 859 genes were less expressed in cysts than in trophozoites. The results of real-time PCR analysis of randomly selected 9 genes of which expression was increased during cyst formation were coincided well with the microarray results. Eukaryotic orthologous groups (KOG) analysis showed an increment in T article (signal transduction mechanisms) and O article (posttranslational modification, protein turnover, and chaperones) whereas significant decrement of C article (energy production and conversion) during cyst formation. Especially, cystein proteinases showed high expression changes (282 folds) with significant increases in real-time PCR, suggesting a pivotal role of this proteinase in the cyst formation of Acanthamoeba. The present study provides important clues for the identification and characterization of encystation mediating factors of Acanthamoeba.

• 한국자원식물학회:학술대회논문집
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• 한국자원식물학회 2019년도 추계학술대회
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• pp.73-73
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• 2019

Angelica gigas Nakai (Korean danggui), a member of the Umbelliferae family, is a Korean traditional medicinal plant whose roots have been used for treating gynecological diseases. Transcriptomics is the study of the transcriptome, which is the complete set of RNA transcripts that are produced by the genome, using high-throughput methods, such as microarray analysis. In this study, transcriptome analysis of A.gigas Nakai was carried out. Transcriptome sequencing and assembly was carried out by using Illumina Hiseq 2500, Velvet and Oases. A total of 109,591,555 clean reads of A. gigas Nakai was obtained after trimming adaptors. The obtained reads were assembled with an average length of 1,154 bp, a maximum length of 13,166 bp, a minimum length of 200 pb, and N50 of 1,635 bp. Functional annotation and classification was performed using NCBI NR, InterprotScan, KOG, KEGG and GO. Candidate genes for phenylpropanoid biosynthesis were obtanied from A.gigas transcriptome and the genes and its proteins were confirmed through the NCBI homology BLAST searches, revealing high identity with other othologous genes and proteins from various plants pecies. In RNA sequencing analysis using an Illumina Next-Seq2500 sequencer, we identified a total 94,930 transcripts and annotated 71,281 transcripts, which provide basic information for further research in A.gigas Nakai. Our transcriptome data reveal that several differentially expressed genes related to flower color in A.gigas Nakai. The results of this research provide comprehensive information on the A.gigas Nakai genome and enhance our understanding of the flower color related gene pathways in this plant.

• 한국패류학회지
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• 제28권4호
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• pp.377-384
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• 2012

The importance of biological resources has been gradually increasing, and mollusks have been utilized as main fishery resources in terrestrial ecosystems. But little is known about genomic and transcriptional analysis in mollusks. This is the first report on the transcriptomic profile of Meretrix lusoria. In this study, we constructed cDNA library and determined 542 of distinct EST sequences composed of 284 singletons and 95 contigs. At first, we identified 180 of EST sequences that have significant hits on protein sequences of the exclusive Mollusks database through BLASTX program and 343 of EST sequences that have significant hits on NCBI NR database. We also found that 211 of putative sequences through local BLAST (blastx, E < e-10) search against KOG database were classified into 16 functional categories. Some kinds of immune response related genes encoding allograft inflammatory factor 1 (AIF-1), B-cell translocation gene 1 (BTG1), C-type lectin A, thioester-containing protein and 26S proteasome regulatory complex were identified. To determine phylogenetic relationship, we identified partial sequences of four genes (COX1, COX2, 12S rRNA and NADH dehydrogenase) that significantly matched with the mitochondrial genomes of 3 species-Ml (Meretrix lusoria), Mp (Meretrix petechialis) and Mm (Meretrix meretrix). As a result, we found that there was a little bit of a difference between sequences of Korean isolates and other known isolates. This study will be useful to develop breeding technology and might also be helpful to establish a classification system.