• 제목/요약/키워드: genomic library

검색결과 284건 처리시간 0.024초

Saccharomyces cerevisiae의 CDC3 유전자와 유사한 Schizosaccharomyces pombe 유전자의 클로닝 (Molecular Cloning of the Gene in Schizosaccharomyces pombe Related to the CDC3 Gene in Saccharomyces cerevisiae)

  • 김형배
    • 미생물학회지
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    • 제31권3호
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    • pp.197-202
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    • 1993
  • 출아법으로 분열하는 S. cerevisiae 는 mother cell 과 bud cell 과의 연결부위근처의 원형질막 내부에 10-nm filament ring 이 존재한다. CDC3, CDC10, CDC11, CDC12 유전자가 이 filament 를 암호화할 가능성이 많은 것으로 알려져 있으며, 근래에 CDC3 와 CDC12 유전자의 생성물들이 filament ring 에 존재한다는 것이 형광현미경을 이용하여 밝혀졌으나 그 기능은 밝혀지지 않았다. 이에 본인은 10-nm filament ring 의 지능을 알아보기 위하여 ring을 이루고 있는 S. cerevisiae 의 CDC3유전자와 유사한 S. pombe 유전자의 clone 을 시도하였다. 이를 위하여 .lambda. gt11 expression vector 에 S. pombe genomic library 를 만들고 CDC3 항채를 이용하여 screen 하였다. Screen 된 유전자를 sequencing 하여 본 결과, 2개 이상의 intron 이 존재하는 것이 밝혀졌으나, 일부 부위의 아미노산 서열과 CDC3 아미노산 서열을 비교하여 본 결과, 약 62%의 유사성이 존재하였다.

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Generation of Protein Lineages with new Sequence Spaces by Functional Salvage Screen

  • Kim, Geun-Joong;Cheon, Young-Hoon;Park, Min-Soon;Park, Hee-Sung;Kim, Hak-Sung
    • 한국미생물생명공학회:학술대회논문집
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    • 한국미생물생명공학회 2001년도 Proceedings of 2001 International Symposium
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    • pp.77-80
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    • 2001
  • A variety of different methods to generate diverse proteins, including random mutagenesis and recombination, are currently available, and most of them accumulate the mutations on the target gene of a protein, whose sequence space remains unchanged. On the other hand, a pool of diverse genes, which is generated by random insertions, deletions, and exchange of the homologous domains with different lengths in the target gene, would present the protein lineages resulting in new fitness landscapes. Here we report a method to generate a pool of protein variants with different sequence spaces by employing green fluorescent protein (GFP) as a model protein. This process, designated functional salvage screen (FSS), comprises the following procedures: a defective GFP template expressing no fluorescence is firstly constructed by genetically disrupting a predetermined region(s) of the protein, and a library of GFP variants is generated from the defective template by incorporating the randomly fragmented genomic DNA from E. coli into the defined region(s) of the target gene, followed by screening of the functionally salvaged, fluorescence-emitting GFPs. Two approaches, sequence-directed and PCR-coupled methods, were attempted to generate the library of GFP variants with new sequences derived from the genomic segments of E. coli. The functionally salvaged GFPs were selected and analyzed in terms of the sequence space and functional property. The results demonstrate that the functional salvage process not only can be a simple and effective method to create protein lineages with new sequence spaces, but also can be useful in elucidating the involvement of a specific region(s) or domain(s) in the structure and function of protein.

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Theileria sergenti DAN probe를 만들기 위한 기초 연구 (A study for a construction of Theileria sergenti DNA probe)

  • 김명철;이주묵;권오덕;채준석;김흥섭
    • 대한수의학회지
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    • 제33권3호
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    • pp.479-486
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    • 1993
  • This study was attempted co develope a method for detection of Theileria sergenti infection on the basis of hybridization of parasite DNA with a probe. For construction of a T sergenti genomic library, T sergenti DNA was digested completely with Bam-HI and the fragments were ligated into the Bam-HI site of pUC-19 before transformation of Escherichia colistrain JM83. To detect clones containing the parasite's DNA sequences, a genomic DNA library of T sergenti constructed in pUC-19 was screened by cracking and Southern hybridization. Seven colonies were chosen from 29 colonies which were screened by transformation of Escherichia coli strain JM83. Seven transformants were comfirmed from seven colonies by cracking. The sizes of transformants were about 5Kb, 5.7Kb, 4.3Kb, 7.75Kb, 7.85Kb, 5.8Kb, 3.8Kb, respectively. DNA inserts, T sergenti DNA, and bovine DNA were hybridized with radio-labelled T sergenti DNA. Two($pT_1$, $pT_1$) of the seven inserts and T sergenti DNA reacted strongly but another 5 inserts and bovine DNA showed weak reation. All of the DNA inserts were not reaction, but T sergenti DNA were very weakly and bovine DNA were strongly reacted to hybridization with radio-labelled bovine DNA. Therefore, we obtained total 7 T sergenti DNA fragments in this study.

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면역화학적 방법에 의한 Acetobacter turbidans의 $\alpha$-Acylamino-$\beta$-lactam Acylhydrolase의 유전자 클론화 (Molecular Cloning of the Gene for $\alpha$-Acylamino-$\beta$-lactam Acylhydrolase from Acetobacter turbidans by Immunochemical Detection Method)

  • Nam, Doo-Hyun;Dewey D.Y. Ryu
    • 한국미생물·생명공학회지
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    • 제16권5호
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    • pp.363-368
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    • 1988
  • 반합성 베타 락탐 항생물질의 가수분해 및 합성을 촉매하는 효소인 $\alpha$-acylamino-$\beta$-lactam acylhydrolase(ALAH)의 유전자를 Acetobacfer turbidans로부터 클론화하기 위한 연구를 수행하였다. 우선 순수 분리 정제된 효소에 대한 항혈청 (폴리클론 항체)을 제조한 다음 이를 probe로 하여 면역화학적 방법으로 유전자의 선별을 시도하였다. 이러한 용도로 개발된 운반체인 λ gtll에다 A. turbidans의 유전자 단편들을 삽입하여 genomic library를 제조한 후 이 library에서 유전자를 선별한 결과 두개의 positive clone을 얻을 수 있었다. 그러나. 이 두 clone들은 면역화학적으로 서로 다른 반응을 나타내었는데, 그 중 하나는 효소의 항혈청과는 잘 결합하나 융합되어진 베타 갈락토시다아제에 대한 항체와는 잘 결합하지 못하였고(λ gtll dn1), 또 다른 clone 은 이와 반대의 양상을 보여주었다(λ gtll dn2). 더구나 이들 clone을 여러 제한효소들로 분석해본 결과, 유전자가 삽입된 부분인 Eco RI 부위중 하나가 없어진 것을 알 수 있었다. 따라서 A. turbidans의 효소에 대한 유전자가 λ gtll에 클론화 되었으나 이 유전자와 베타 갈락토시다아제의 유전자(lacZ)간에 염기배열상 동위성이 있은 부위가 존재하여 재조합된 λ gtll 파지의 복제과정에서 삭제되어진 것으로 간주되어진다.

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Ten new microsatellite markers in cutlassfish Trichiurus lepturus derived from an enriched genomic library

  • An, Hye-Suck;Lee, Jeong-Ho;Noh, Jae-Koo;Kim, Hyun-Chul;Park, Chul-Ji;Min, Byung-Hwa;Myeong, Jeong-In
    • Animal cells and systems
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    • 제14권3호
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    • pp.169-174
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    • 2010
  • Cutlassfish (Trichiurus lepturus Linnaeus 1758) is a commercially important fish in Korea. In recent years, the catch of cutlassfish in the coastal waters of Korea has significantly declined. Its genetic characterization has been little studied. To assist conservation and management efforts, we isolated and characterized 10 microsatellite loci using an enrichment method based on magnetic/biotin capture of microsatellite sequences from a size-selected genomic library. To characterize each locus, 30 individuals from a natural T. lepturus population in the coastal waters of Jeju Island, Korea, were genotyped. All loci except two, KTh9B and KTh22A, were polymorphic, with an average of 14.3 alleles per locus (range, 10 22). The mean observed and expected heterozygosities were 0.80 (range, 0.50 0.97) a 0.82 (range, 0.68 0.95), respectively. A significant deviation from Hardy-Weinberg equilibrium was observed at three loci (KTh6B, KTh10, and KTh16). This high variability indicates that these microsatellites may be useful for high-resolution studies of population genetics.

종자내 아미노산 합성 조절 유전자에 관한 연구 (Amino Acid Biosynthesis and Gene Regulation in Seed)

  • 임용표;서미정;조수진;이정희;이효연
    • 한국식물학회:학술대회논문집
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    • 한국식물학회 1996년도 제10회 식물생명공학심포지움 고등식물 발생생물학의 최근 진보
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    • pp.61-74
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    • 1996
  • Human and monogastric animals can not synthesize 10 out of the 20 amino asids and therefor need to obtain these from their diet. The plant seed is a major source of dietary protein. It is particular important in their study to increase nutritional quality of the seed storage proteins. The low contents of lysine, asparagine and threonenein various cereal seeds and of cystein and methionine. In legume seeds is due to the low proportions of these amino acids in the major storage proteins, we have tried to apply the three strategies; (1) mutagenesis and selection of specific amino acid analogue resistance, (2) cloning and expression study of lysine biosynthesis related gene, (3) transfomation of lysine rich soybean glycinin gene. The 5-methyltryptophan (5MT) resistant cell lines, SAR1, SAR2 and SAR3 were selected from anther derived callus of rice (Oryza sativa L. "Sasanishiki"). Among these selected cell lines, two (SAR1 and SAR3) were able to grow stably at 200 mg/L of 5MT. Analysis of the freed amino acids in callus shows that 5MT resistant cells (SAR3) accumulated free tryptophan at least up to 50 times higher than those that of the higher than of SAS. These results indicated that the 5MT resistant cell lines are useful in studies of amino acid biosynthesis. Tr75, a rice (Oryza sativa L., var. Sasanishiki) mutant resistant to 5MT was segregated from the progenies of its initial mutant line, TR1. The 5MT resistant of TR75 was inherited in the M8 generations as a single dominant nuclear gene. The content of free amino acids in the TR75 homozygous seeds increased approximately 1.5 to 2.0 fold compared to wild-type seeds. Especially, the contents of tryptophan, phenylalanine and aspartic acid were 5.0, 5.3 and 2.7 times higher than those of wild-type seeds, respectively. The content of lysine is significantly low in rice. The lysine is synthesized by a complex pathway that is predominantly regulated by feedback inhibition of several enzymes including asparginase, aspatate kinase, dihydrodipicolinat synthase, etc. For understanding the regulation mechanism of lysine synthesis in rice, we try to clone the lysine biosynthetic metabolism related gene, DHPS and asparaginase, from rice. We have isolated a rice DHPS genomic clone which contains an ORF of 1044 nucleotides (347 amino acids, Mr. 38, 381 daltons), an intron of 587 nucleotides and 5'and 3'-flanking regions by screening of rice genomic DNA library. Deduced amino acid sequence of mature peptide domain of GDHPS clone is highly conserved in monocot and dicot plants whereas that of transit peptide domain is extremely different depending on plant specie. Southern blot analysis indicated that GDHPS is located two copy gene in rice genome. The transcripts of a rice GDHPS were expressed in leaves and roots but not detected in callus tissues. The transcription level of GDHPS is much higher in leaves indicating enormous chloroplast development than roots. Genomic DNA clones for asparaginase genes were screened from the rice genomic library by using plaque hybridization technique. Twelve different genomic clones were isolated from first and second screening, and 8 of 12 clones were analyzed by restriction patterns and identified by Southern Blotting, Restriction enzyme digestion patterns and Southern blot analysis of 8 clones show the different pattern for asparaginase gene. Genomic Southern blot analysis from rice were done. It is estimated that rice has at least 2-3 copy of asparaginase gene. One of 8 positive clones was subcloned into the pBluescript SK(+) vector, and was constructed the physical map. For transformation of lysine rich storage protein into tobacco, soybean glycinin genes are transformed into tobacco. To examine whether glycinin could be stably accumulated in endosperm tissue, the glycinin cDNA was transcriptionally fused to an endosperm-specific promotor of the rice storage protein glutelin gene and then introduced into tobacco genomic via Agrobacterium-mediated transformation. Consequently the glycinin gene was expressed in a seed-and developmentally-specific manner in transgenic tobacco seeds. Glycinin were targeted to vacuole-derived protein bodies in the endosperm tissue and highly accumulated in the matrix region of many transgenic plant (1-4% of total seed proteins). Synthesized glycinin was processed into mature form, and assembled into a hexamer in a similar manner as the glycinin in soybean seed. Modified glycinin, in which 4 contiguous methionine residues were inserted at the variable regions corresponding to the C - teminal regions of the acidic and basic polypeptides, were also found to be accumulated similarly as in the normal glycinin. There was no apparent difference in the expression level, processing and targeting to protein bodies, or accumulation level between normal and modified glycinin. glycinin.

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애기장대에서 고염 스트레스 내성에 관여하는 OSM1/SYP61 유전자의 동정 (Isolation of SYP61/OSMl that is Required for Salt Tolerance in Arabidopsis by T-DNA Tagging)

  • 김지연;백동원;이효정;신동진;이지영;최원균;김동균;정우식;곽상수;윤대진
    • Journal of Plant Biotechnology
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    • 제33권1호
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    • pp.11-18
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    • 2006
  • 고염 스트레스에 대한 연구는 농업 생산성에 직결되기 때문에, 고염에 대한 식물의 반응 및 신호전달, 적응기작은 중요한 연구주제가 되어 왔다. 현재까지 연구된 고염 스트레스에 대한 저항성 기작 및 유전학적 요소들이 많이 밝혀졌는데도 불구하고 아직 많은 연구를 필요로 하고 있다. 그래서 본 연구에서는 모델식물로 잘 알려진 애기장대에 pSK1015 vector로 T-DNA를 삽입하여 고염 스트레스에 대해 감수성을 보이는 돌연변이체, ssm1 돌연변이체를 선별하였다. ssm1 돌연변이체는 고염 스트레스를 받게 되면 이온의 독성 스트레스와 세포내 삼투압의 불균형에서 오는 스트레스에 대해 대조군에 비해 감수성을 보였다. ssm1 돌연변이체의 genomic DNA 상의 T-DNA가 삽입된 부위를 찾기 위하여 genomic DNA mutant library screening을 수행한 결과, 기존의 알려진 syntaxin 기능 및 환경 스트레스에 관련된 F3M18/AtSYP61/OSM1 임을 알 수 있었다.

큰느타리버섯 유전체내 LTR Retrotransposon 유전자 탐색 및 특성연구 (Screening and Characterization of LTR Retrotransposons in the genomic DNA of Pleurotus eryngii)

  • 김신일;레귀방;김선미;노현수
    • 한국균학회지
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    • 제42권1호
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    • pp.50-56
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    • 2014
  • 본 연구에서는 큰느타리버섯 유전체내에 있는 retrotransposon의 탐색을 위하여 degenerated primer를 이용하여, retrotransposon library를 대장균에 제작하였다. 제작된 library에서 총 256개의 콜로니를 선택하여 염기서열을 결정한 결과, 71개가 LTR retrotransposon이며, 이들 중 70개가 Gypsy-type LTR retrotransposon임을 염기서열분석을 통하여 확인하였다. 특히 송이에서 발견된 MarY1_TM과 진황녹슨버짐버섯의 Gypsy-8_SLL이 각각 14, 18 copy 이상 큰느타리버섯 유전체에 삽입되어 있음을 Southern blot 분석을 통하여 밝혔다. 이와 더불어, 이들이 full length retrotransposon mRNA을 생산하고 있음을 RT-PCR과 northern blot을 통하여 밝힘으로서 활성이 있는 LTR retrotransposon임을 증명하였다.

Construction of Various Copy Number Plasmid Vectors and Their Utility for Genome Sequencing

  • Yang, Tae-Jin;Yu, Yeisoo;Frisch, David A.;Lee, Seunghee;Kim, Hye-Ran;Kwon, Soo-Jin;Park, Beom-Suk;Wing, Rod A.
    • Genomics & Informatics
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    • 제2권4호
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    • pp.174-179
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    • 2004
  • We developed various plasmid cloning vectors that are useful in the construction of genomic and shotgun libraries. Two medium copy vectors, pCUGlblu21 (pCb21) and pAGlblu21 (pAb21), which are resistant to kanamycin ($Km^R$) and chloramphenicol ($Cam^R$), respectively, are useful for cloning DNA inserts ranging from 5kb to 15kb. Two high copy vectors, pCUGlblu31 (pCb31) and pAGlblu31 (pAb31), containing $Km^R$ and $Cam^R$, respectively, are useful for DNA inserts less than 5kb. These vectors are well adapted for large-scale genome sequencing projects by providing choice of copy number and selectable marker. The small vector size is another advantage of these vectors. All vectors contain lacZa including multicloning sites that originated from pBluscriptllsk- for easy cloning and sequencing. Two medium copy vectors contain unique and rare cutting Swal (ATTTAAAT) restriction enzyme sites for easy determination of insert size. We developed two combined vectors, pC21A31 and pC31A21, which are combinations of (pCb21 + pAb31) and (pCb31 + pAb21), respectively. These two vectors provide four choices of vectors such as $Km^R$ and medium, $Cam^R$ and high, $Cam^R$ and medium, and $Km^R$ and high copy vectors by restriction enzyme cutting, dephosphorylation, and gel purification. These vectors were successfully applied to high throughput shotgun sequencing of rice, tomato, and brassica BAC clones. With an example of extremely biased hydro sheared 3 kb shotgun library of a tomato BAC clone, which is originated from cytogenetically defined peri-centromeric region, we suggest the utility of an additional 10 kb library for sequence assembly of the difficult-to-assemble BAC clone.

Zymomonas mobilis 알코올 탈수소 효소 유전자의 Cloning과 Escherichia coli 에서의 발현 (Cloning and Expression of the Structural Gene for Alcohol Dehydrogenase of Zymomonas mobilis in Escherichia coli)

  • Yoon, Ki-Hong;Shin, Byung-Sik;M.Y Pack
    • 한국미생물·생명공학회지
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    • 제17권4호
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    • pp.301-306
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    • 1989
  • Zymomonas mobilis ATCC 10988로부터 분리된 chromosomal DNA를 제한효소 Sau3Al으로 부분 절단한 후 이를 BamHI으로 완전 절단하여 alkaline phosphatase를 처치한 pUC9과 ligation하여 Escherichia coli JM83을 형질전환시키는데 사용하였다. 알코올 탈수소 효소활성을 나타내는_대장균 형질전환체를 선별하기 위해 allyl alcohol을 사용하였는데 이 때 allyl alcohol을 함유한 LB 한천 배지에서 자라지 못하는 두개의 clones을 얻었다. 이들 clones으로부터 분리한 plasmids를 여러가지 제한효소로 처리하여 agarose gel 전기영동으로 분석한 결과 2.6kb 크기의 동일한 DNA 조각을 공유하고 있음이 밝혀졌으며 이들 plasmids를 함유하고 있는 대장균 형질전환체와 Z. mobilis에서 생성된 효소를 각기 polyacrylamide gel 전기영동한 후 효소활성을 염색하고 또한 알코올 기질특이성을 조사한 결과 이들 plasmids 가 Z. mebilis 의 alcohol dehydrogenase II 유전자를 함유하고 있음이 밝혀졌다.

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