• Journal of Microbiology and Biotechnology
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• 제23권3호
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• pp.304-312
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• 2013

The thermotolerant methylotrophic yeast Hansenula polymorpha is attracting interest as a potential strain for the production of recombinant proteins and biofuels. However, only limited numbers of genome engineering tools are currently available for H. polymorpha. In the present study, we identified the HpPOL3 gene encoding the catalytic subunit of DNA polymerase ${\delta}$ of H. polymorpha and mutated the sequence encoding conserved amino acid residues that are important for its proofreading 3'${\rightarrow}$5' exonuclease activity. The resulting $HpPOL3^*$ gene encoding the error-prone proofreading-deficient DNA polymerase ${\delta}$ was cloned under a methanol oxidase promoter to construct the mutator plasmid pHIF8, which also contains additional elements for site-specific chromosomal integration, selection, and excision. In a H. polymorpha mutator strain chromosomally integrated with pHIF8, a $URA3^-$ mutant resistant to 5-fluoroorotic acid was generated at a 50-fold higher frequency than in the wild-type strain, due to the dominant negative expression of $HpPOL3^*$. Moreover, after obtaining the desired mutant, the mutator allele was readily removed from the chromosome by homologous recombination to avoid the uncontrolled accumulation of additional mutations. Our mutator system, which depends on the accumulation of random mutations that are incorporated during DNA replication, will be useful to generate strains with mutant phenotypes, especially those related to unknown or multiple genes on the chromosome.

• Journal of Ginseng Research
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• 제41권4호
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• pp.469-476
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• 2017

Background: Panax ginseng Meyer (Asian ginseng) has a large nuclear genome size of > 3.5 Gbp in haploid genome equivalent of 24 chromosomes. Tandem repeats (TRs) occupy significant portions of the genome in many plants and are often found in specific genomic loci, making them a valuable molecular cytogenetic tool in discriminating chromosomes. In an effort to understand the P. ginseng genome structure, we characterized an ultrahigh copy 167-bp TR (Pg167TR) and explored its chromosomal distribution as well as its utility for chromosome identification. Methods: Polymerase chain reaction amplicons of Pg167TR were labeled, along with 5S and 45S rDNA amplicons, using a direct nick-translation method. Direct fluorescence in situ hybridization (FISH) was used to analyze the chromosomal distribution of Pg167TR. Results: Recently, we reported a method of karyotyping the 24 chromosome pairs of P. ginseng using rDNA and DAPI (4',6-diamidino-2-phenylindole) bands. Here, a unique distribution of Pg167TR in all 24 P. ginseng chromosomes was observed, allowing easy identification of individual homologous chromosomes. Additionally, direct labeling of 5S and 45S rDNA probes allowed the identification of two additional 5S rDNA loci not previously reported, enabling the refinement of the P. ginseng karyotype. Conclusion: Identification of individual P. ginseng chromosomes was achieved using Pg167TR-FISH. Chromosome identification is important in understanding the P. ginseng genome structure, and our method will be useful for future integration of genetic linkage maps and genome scaffold anchoring. Additionally, it is a good tool for comparative studies with related species in efforts to understand the evolution of P. ginseng.

• KSBB Journal
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• 제25권2호
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• pp.167-172
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• 2010

농작물에 심각한 피해를 주는 phytotoxin을 생산하는 S. scabiei ATCC 49173의 분자 유전학적인 연구를 위해 대장균으로부터 S. scabiei로 plasmid DNA를 도입하는 접합 전달법을 이용한 형질전환법을 확립하였다. 본 연구를 통해 확인된 S. scabiei의 접합전달용 최적배지는 50 mM의 $MgCl_2$를 첨가한 MS배지이며 접합전달에 사용되는 DNA 수용체인 포자는 $45^{\circ}C$의 열처리와 $5{\times}10^7$이상의 plasmid DNA 공여체가 필요하다는 것을 확인하였다. 또 얻어진 접합전달체에 대하여 Southern blot hybridization과 벡터가 삽입된 염색체부분의 염기서열분석을 통해 attB site의 특성을 분석한 결과 S. scabiei 염색체의 pirin 상동체를 코드하는 ORF내에 단일위치로 존재하고 있으며 이미 밝혀진 다른 방선균유래 attB site의 염기서열에 대해 86.3%~96.1%의 상동성을 보였다.

• The Plant Pathology Journal
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• 제25권2호
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• pp.179-183
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• 2009

To facilitate the genetic manipulation of Cladosporium phlei, a causal agent of leaf spot disease in timothy (Phleum pretense), protoplast-mediated transformation of C. phlei has been developed and the resulting transformants were characterized in this study. Hygromycin B resistance was applied as a dominant selection marker due to the sensitivity of C. phlei to this antibiotic. The transformation efficiency ranged from approximately 20-100 transformants per experiment. Southern blot analysis of stable transformants revealed that transformation occurred by way of stable integration of the vector DNA into the fungal chromosome. PCR analysis and plasmid rescuing of randomly selected transformants suggested that integration of tandem repeat copies of vector DNA was common. In addition, multiple integrations of the transforming vector at different chromosomal sites were also observed. The establishment of a transformation method for C. phlei facilitates strain improvement of this fungus and can be applied as an initial step in the molecular analysis of pigment production in this fungus.

• Journal of Microbiology and Biotechnology
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• 제8권5호
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• pp.441-448
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• 1998

A cellobiose-utilizing recombinant yeast having $\beta$-glucosidase activity was developed for ethanol production from a mixture of glucose and cellobiose. Using $\delta$-sequences of Tyl transposon of yeast as target sites for homologous recombination, a heterologous gene of $\beta$-glucosidase was integrated into the chromosome of Saccharomyces cerevisiae. The $\delta$-integrated recombinant yeast, Saccharomyces cerevisiae L2612 (Pb-BGL), showed perfect mitotic stability even in nonselective media and showed ca. 1.5 fold higher $\beta$-glucosidase activity than the recombinant yeast harboring the $2\mu$-based plasmid vector system. A mathematical model was developed to describe the $\beta$-glucosidase formation and ethanol production from the Saccharomyces cerevisiae L2612 ($p\delta-BGL$). The model newly described that the heterologous $\beta$-glucosidase production mediated by ADH1 promoter is regulated by glucose and repressed by ethanol.

• 생명과학회지
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• 제11권5호
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• pp.400-404
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• 2001

최근 새로운 인간 내생 레트로바이러스 패밀리(HERAV-S)가 인간의 X 염색체상에서 동정 되었다. 그 길이는 6.7kb 이며 LTR-gag-pol-env-LTR의 일반적인 레트로바이러스의 구조를 가졌다. PCR 방법과 염기서열분석을 통하여 인간 게놈 DNA에서 HERV-S LTR 패밀리를 동정하였다. 네 개의 LTR엘리먼트(HSL-1, HSL-5, HSL-10, HSL-11)가 동정 되었으며, 이들은 HERV-S LLR 패밀리는 영장류의 진화과정에서 진화적인 분기를 통해 주된 2개의 그룹으로 나뉘어졌다. 영장류에서 이러한 HERV-S LTR들의 연구가 이루어진다면 이들의 영장류 게놈 내의 삽입시기를 알 수 있고 또한 인류의 진화를 이해하는데 크게 이바지 할 것이다.

• Journal of Information Technology Applications and Management
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• 제20권2호
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• pp.147-160
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• 2013

Today, the management environments of intelligence firm are changing the way of production planning and logistics management, and are changing the process of supply chain management system. This paper shows the development of information system software for intelligence enterprises is used in supply chain management for robot engineering industry. Specifically, supply chain management system in this paper has been developed to analyze the impact of multi plant and multi distribution environment, showing the process analysis and system development of hierarchical assembly manufacturing industry. In this paper we consider a production planning and distribution management system of intelligence firm in the supply chain. We focus on a capacitated production resource and distribution volume allocation problem, develop a mixed integer programming model, and propose an efficient heuristic procedure using a genetic algorithm to solve it efficiently. This method makes it possible for the population to reach the feasible approximate solution easily. The proposed regeneration procedures, which evaluate each infeasible chromosome, makes the solution converge to the feasible approximate solution quickly.

• Journal of Microbiology and Biotechnology
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• 제26권8호
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• pp.1473-1480
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• 2016

This study focused on the variations in the non-coding sequences between ctxB and rstR of various CTX phages. The non-coding sequences of CTX-1 and CTX-cla are phage type-specific. The length of the non-coding region of CTX-1 and CTX-cla is 601 and 730 nucleotides, respectively. The non-coding sequence of CTX phage could be divided into three regions. There is a phage type-specific Variable region between two homologous Common regions (Common regions 1 and 2). The non-coding sequence of RS1 element is similar to CTX-1 except that Common region 1 is replaced by a short RS1-specific sequence. The non-coding sequences of CTX-2 and CTX-cla are homologous, indicating the non-coding sequence of CTX-2 is derived from CTX-cla. The non-coding region of CTX-O139 is similar to CTX-cla and CTX-2; however, it contains an extra phage type-specific sequence between Common region 2 and rstR. The variations in the non-coding sequences of CTX phages might be associated with the difference in the replication efficiency and the directionality in the integration into the V. cholerae chromosome.

• Plant Resources
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• 제7권1호
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• pp.39-46
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• 2004

To demonstrate the importance of transformation efficiency in independent event, molecular and cytogenetic analysis were conducted with genomic DNA and chromosome of transgenic plants produced by Agrobacterium tumefeciens LBA4404 (pSBM-PPGN: gusA and bar). Selection ratios of putative transgenic calli were similar in independent experiments, however, transformation efficiencies were critically influenced by the type of regeneration media. MSRK5SS-Pr regeneration mediun, which contains 5 mgL$^{-1}$ kinetin, 2% (w/v) sucrose in combination with 3% (w/v) sorbitol, and 500 mgL$^{-1}$ proline, was efficient to produce transgenic plant of rice from putative transgenic callus in the presence of L-phosphinotricin (PPT). With MSRK5SS-Pr medium, transformation efficincies of Nagdongbyeo were significantly enhanced from 3.7% to 6.3% in independent callus lines arid from 7.3% to 19.7% in plants produced, respectively. Stable integration and expression of bar gene were confirmed by basta herbicide assay, PCR amplification and Southern blotting of bar gene, and fluorescence in situ hybridization (FISH) analysis using pSBM-PPGN as a probe. In Southern blot analysis, diverse band patterns were observed in total 44 transgenic plants regenerated from 20 independent PPT resistant calli showing from one to five copies of T-DNA segments, however, the transformants obtained from one callus line showed the same copy numbers with the same fractionized band patterns.

• 미생물학회지
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• 제30권4호
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• pp.322-331
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• 1992

수질환경에서 일어나는 GEM 균주의 항생물질내성유전자의 전이동태를 연구하기 위하여, $Km^{r}$ plasmid 의 conjugation을 실시하였다. 그 결과 conjugant 들에 나타나는 plasmid 의 재배열을 agarose gel 에서 비교분석하였고, DNA probe 유전자의 행방을 추구하였다. GMM 균주들 (DKC600 과 DKC601) 의 $Km^{r}$유전자는 자연계 분리균주(DK1) 보다 더 높은 전이율이 나타났으나, recipient 에 따라 다소 차이가 있었다. Conjugant 들에서 나타나는 plasmid 의 재배열도 donor가 GMM 균주에서 전이된 plasmid 들은 특이하게 그 분자량이 커졌다. LB 에서 수온이 10.deg.C 보다는 25.deg.C 이상 그리고 pH 가 9 에서 5에 가까울수록$Km^{r}$ 유전자는 더 많이 전이되었으나, FW 에서는 수온과 pH 에 의한 영향이 거의 없었다. 또 FW 에서는 GMM 균주의 conjugant 들에서 chromosome 이외에 plasmid 가 거의 발견되지 않았다. 이와 같이 plasmid 들이 다양하게 재배열된 conjugant 들에서 Southern analysis 에 의하여 $Km^{r}$ 유전자의 행방을 알아본 결과, LB 에서는 DK1 뿐만 아니라 GMM 균주들의 $Km^{r}$ plasmid 가 전이된후 그대로 존재하였다. 그러나 FW 의 수질환경에서는 donor 의 $Km^{r}$ plasmid / 는 없어지고 chromosome 에서 hybridization signal 이 나타났다. 또 FW 에서는 donor 가 DK1 일 경우 pDK101 은 수온과 pH 의 영향없이 pDK101 이 그대로 전이되었다. 그러므로 LB 나 AW 에서는 DK1 뿐만 아니라 GMM 규주들의 Km$^{r}$ plasmid 가 전이된후 conjugant 에 그대로 존재하였고 기타의 plasmid 들이 다양하게 재배열되었지만, FW 수질환경에서는 DKC600 의 $Km^{r}$ 유전자가 수온이나 pH 에 상관없이 chromosome 에 integration 되었다.