• Interdisciplinary Bio Central
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• 제5권1호
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• pp.2.1-2.3
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• 2013

Birth and development of information biology are introduced with its definition and scientific basis. The discipline lives on the two types of nutrition, one is a huge amount of biological data on genomes, gene expressions, proteomes, protein 3D structures, protein networks, and so forth. The other is the method of using them on a computer. The scientific basis of the two is evolution. To collect genome and gene expression data form laboratories in the world, annotate and dissimilate back to researchers worldwide, they built the EMBL database in Europe in 1982, GenBank in USA in 1984 and DNA Data Bank of Japan in 1987. On the other hand, the methods of using and analyzing those data have accordingly been developed. The two aspects advance the discipline further and further.

• Parasites, Hosts and Diseases
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• 제45권4호
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• pp.283-285
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• 2007

To examine the expressed gene profile during encystation of Acanthamoeba castellanii Castellani, we used differentially expressed gene (DGE) screening by RT-PCR with 20 sets of random primers. From this analysis, we found that approximately 16 genes showed up regulation during encystation. We chose 6 genes, which had relatively higher expression levels, for further investigation. Based on homology search in database, DEG2 showed 55% of similarity with xylose isomerase, DEG9 showed 37% of similarity with Na P-type ATPase, and DEG14 showed 77% of similarity with subtilisin-like serine proteinase. DEG3 and DEG26 were identified as hypothetical proteins and DEG25 exhibited no significant similarity to any known protein. Encystation of Acanthamoeba has been suggested to be a process to resist adverse environmental or nutritional conditions. Further characterization studies of these genes may provide us with more information on the encystation mechanism of Acanthamoeba.

• 방사선산업학회지
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• 제4권3호
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• pp.289-295
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• 2010

The bacterium Deinococcus radiodurans is one of the most resistant organisms to the effects of ionizing radiation and other DNA-damaging agents. In this study, distributions of 10 ddr (DNA damage response) genes were investigated in 8 species of Deinococcus by polymerase chain reaction (PCR). We have compared the sequences of ddr genes of D. radiodurans, D. geothermalis and D. deserti, and selected primers which are suitable for the detection of ddr in different species of Deinococcus. A sequence homology search and PCR assay showed that ddrO, which encodes a global regulator of the radiation-desiccation response, was most well conserved in the Deinococcus lineage.

• 농업과학연구
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• 제38권1호
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• pp.11-16
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• 2011

In this study, we report the generation and analysis of a total of 1,211 expressed sequence tags (ESTs) from Pinus koraiensis. A cDNA library was generated from the young leaf tissue and a total of 1,211 cDNA were partially sequenced. EST and unigene sequence quality were determined by computational filtering, manual review, and BLAST analyses. In all, 857 ESTs were acquired after the removal of the vector sequence and filtering over a minimum length 50 nucleotides. A total of 411 unigene, consisting of 89 contigs and 322 singletons, was identified after assembling. Also, we identified 77 new microsatellite-containing sequences from the unigenes and classified the structure according to their repeat unit. According to homology search with BLASTX against the NCBI database, 63.1% of ESTs were homologous with known function and 22.2% of ESTs were matched with putative or unknown function. The remaining 14.6% of ESTs showed no significant similarity to any protein sequences found in the public database. Gene ontology (GO) classification showed that the most abundant GO terms were transport, nucleotide binding, plastid, in terms biological process, molecular function and cellular component, respectively. The sequence data will be used to characterize potential roles of new genes in Pinus and provided for the useful tools as a genetic resource.

• Asian-Australasian Journal of Animal Sciences
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• 제19권3호
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• pp.329-334
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• 2006

Adipocyte-specific secretory factor (ADSF)/resistin, a hormone, is a small cysteine-rich protein secreted from adipose tissue and has been implicated in modulating adipogenesis in humans and rodents. The objective of this study was to clone a gene encoding ADSF/resistin and to characterize its function in Korean Native Cattle (Hanwoo). The coding sequence was 330 base pairs and it encoded a protein of 109 amino acids. An NCBI BLAST-search revealed the cloned cDNA fragment shared significant homology (82%) with the cDNA encoding the human ADSF/resistin. The nucleotide sequence homology of the Hanwoo sequence was 73% and 64% for the rat and mouse, respectively. A 654 bp ADSF/resistin gene promoter was cloned and putative binding sites of transcription factors were identified. Tissue distribution of ADSF mRNA was examined in liver, skeletal muscles (tenderloin, biceps femoris), subcutaneous fat, and perirenal fat by RT-PCR. ADSF mRNAs were detected in fat tissues but not in liver and muscles, suggesting that ADSF/resistin expression may be induced during adipogenesis. Although, the physiological function of ADSF/resistin in the cow remains to be determined, these data indicate ADSF is related to the adipocyte phenotype and may have a possibly regulatory role in adipocyte function.

• 생명과학회지
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• 제11권5호
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• pp.423-431
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• 2001

Agrobacterium에 의한 식물형질전환은 가장 일반적으로 많은 사용되는 식물형질전환 기술이냐 이 과정에서 관여하는 식물 유전자들에 대한 관여하는 식물 유전자들에게 대한 연구는 거의 전무한 상태다. 본 연구는 Agrobacterium의 감염에 저항성을 보이는 새로운 돌연변이들의 분리와 분석 연구에 연속하여 Agrobacterium에 의한 식물형질전환에 관여하는 Arabidopsis RAT3 유전자의 cDNA와 gemonic clone을 plasmid rescue 기술을 이용하여 분리하였다. 염기서열 분석결과, 매우 유사한 2개의 유전자가 (RAT3-1과 RAT3-2)약 600bp 간격을 두고 연속하여 존재함을 밝혔다. 그중 RAT3-1 이 mutagen으로 사용된 T-DNA에 의해 손상을 받아 rat3 돌연변이 형질이 유도되었다. RAT3 유전자의 단백질의 분자량은 15 kDa 정도이며 아미노 밀단에 분비를 위한 signal peptide를 가지며 단백질이 전체적인 매우 친수성인 것으로 미루어 세포막 밖으로 분비될 것으로 생각된다. 이들 유전자의 정확한 생물학적 기능에 대한 연구들이 수행 중이며, 이러한 기초연구는 식물형질전환 기술의 개발에 기여할 것이다.

• 한국균학회지
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• 제41권3호
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• pp.200-204
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• 2013

일부 자낭균류는 Dihydroxynaphthalene(DHN) 멜라닌을 가지고 있다. 본 연구는 배에 검은별무늬병을 일으키는 V. nashicola 균이 어떠한 형태의 멜라닌을 가지고 있는지 확인하고자 DHN 멜라닌 합성유전자중의 하나인 scytalone dehydratase(SD) 유전자의 부분 염기서열을 국내 여러 지역과 일본에서 분리된 11개 균주로부터 분석하였다. PCR 방법을 사용하여 429 bp 크기의 반응산물을 11개 균주 모두로부터 증폭하였고 염기서열을 분석하였다. 증폭된 PCR 산물은 GenBank database에 비교 탐색한 결과 SD 유전자로 판정되었다. 분석된 11개 균주의 SD 유전자에는 모두 1개의 인트론과 122개 아미노산을 코딩하는 2개의 엑손이 존재하였다. 이들 11개 SD 유전자 간에 염기서열은 100% 상동성을 보였다. 결정된 V. nashicola SD 유전자의 아미노산 서열의 유사도는 다른 곰팡이와 비교할 때 69~73%로 수준이었다. 본 연구 결과는 V. nashicola 균이 DHN 멜라닌 생합성 단계를 운영하고 있음을 입증하였다.

• 한국치위생학회지
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• 제6권4호
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• pp.311-324
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• 2006

The purpose of this investigation was to evaluate of the specificity of Fusobacterium nucleatum subspecies-specific DNA probes using dot blot hybridization. To confirm whether the clinical isolates were F. nucleatum or not, 16S rDNA of them were cloned and sequenced. The sequencing data were used in homology search with database of GenBank. When the homology was above 98% compared with the nucleotide sequence of a certain bacteria, it was judged as the same species with the bacteria. 23 strains of F. nucleatum were isolates from subgingival plaque of periodontitis patient. The clinical isolates of F. nucleatum were classified into 10 groups using phylogenetic analysis of 16S rDNA sequence. F. nucleatum subspecies nucleatum-specific DNA probe Fu4(1.3 kb) reacted with genomic DNAs from 8 type strains of F. nucleatum and it reacted strongly with those from 8 clinical isolates. The Fp4(0.8 kb) reacted with F. nucleatum subsp. polymorphum ATCC 10953 and one clinical isolates. Fv35(1.9 kb) and Fs17(8.2 kb) probes reacted with genomic DNAs from F. nucleatum subsp. vincentii ATCC 49256 and F. nucleatum subsp. fusiform ATCC 51190, respectively. Our results showed that it is not enough to evaluate the specificity of F. nucleatum subspecies-specific DNA probes with only dot blot hybridization. Therefore, Southern blot analysis will be necessary to confirm the specificity of F. nucleatum subspecies-specific DNA probes.

• 한국버섯학회지
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• 제6권1호
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• pp.20-26
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• 2008

흰목이버섯 균주와 공생균을 수집하고 ITS 5.8S rDNA sequencing을 하여 유전자 서열을 분석하였다. Gene Bank Data homology search 결과 분리된 균의 rDNA 서열이 이 Tremella fuciformis AF042409의 rDNA 서열과 99% 일치하는 것으로 확인되었다. 그리고 함께 분리된 공생균은 같은 방법으로 Annulohhypoxylon stygium 으로 확인하였다. 분리된 T. fuciformis KG 103과 A. stygium KG 201 균주는 PD배지에서 각각 14 mm/14 days과 85 mm/14 days의 균사생육을 나타내었다. T. fuciformis KG 103 균주의 생육최적온도는 $25^{\circ}C$ (14mm/14days) 이었으며, $35^{\circ}C$ 고온과 $15^{\circ}C$이하 저온에서 균사 생장이 억제되었다. A. stygium KG 201은 흰목이버섯균과 유사한 최적온도를 나타내었다. T. fuciformis KG 103 균의 생육 최적 pH는 5.0이었으며, A. stygium KG 201도 pH 5.0에서 생육이 가장 왕성하였다. 흰목이버섯 종균용 최적 배지로 참나무톱밥 77.5%, 미강 20%, 석고 1.5%, 황백당 1%가 선정되었다. T. fuciformis KG 103과 A. stygium KG 201혼합 종균을 제조하고 흰목이버섯 자실체생산을 위한 병속재배 방법을 확립하였다. 콘코브(Corn cob) (77%와 52%)가 사용한 재료 중 최적의 자실체 성장률을 나타냈으며, 콘코브 함량을 줄일수록 생육이 저조하였다. 면실박과 참나무톱밥은 단독 사용시 생육이 저조하였고, 콘코브를 첨가시 수율이 증대되었다. 최적수분농도는 55%로 결정되었다.

• Molecules and Cells
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• 제25권1호
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• pp.20-29
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• 2008

Cytoplasmic male sterility (CMS), one of the most important traits in crop breeding, has been used for commercial seed production by $F_1$ hybrid cultivars of pepper (Capsicum annuum L.). To develop reliable molecular markers for allelic selection of the Restorer-of-fertility (Rf) gene, which is known to be a major determinant of pollen fertility restoration in peppers, a sequence of approximately 10 kb flanking an RAPD fragment closely linked to the Rf locus was obtained by genome walking. A homology search revealed that this sequence contained an LTR retrotransposon and a non-LTR LINE-like retrotransposon. Sequencing of this Rf-linked region to search for polymorphisms between a dominant and recessive allele revealed 98% nucleotide sequence identity between them. A third polymorphic haplotype of the Rf-linked sequence, which has 94-96% nucleotide sequence identity with the two previously isolated haplotypes, was identified among a large number of breeding lines. Utilizing polymorphic sequences in the haplotypes, PCR markers were developed for selection of particular haplotypes and used to examine the distribution of the haplotypes in diverse breeding lines, cultivars, and C. annuum germplasms. Surprisingly, the third haplotype was the predominant type in C. annuum germplasms, while its frequency in $F_1$ hybrid cultivars was relatively low. Meanwhile, analysis of breeding lines whose Rf allele genotypes and male-sterility phenotypes were already known revealed that the third haplotype was mainly present in exotic breeding lines that cause unstable male-sterility when combined with sterile cytoplasms.