• The Plant Pathology Journal
• /
• v.24 no.3
• /
• pp.289-295
• /
• 2008

RNA-RNA interactions and the dynamic RNA conformations are important regulators in virus replication in several RNA virus systems and may also involved in the regulation of many important virus life cycle phases, including translation, replication, assembly, and switches in these important stages. The 5' non-translated region of Potato virus X(PVX) contains multiple cis-acting elements that facilitate various viral processes. It has previously been proposed that RNA-RNA interactions between various RNA elements present in PVX RNA genome are required for PVX RNA accumulation(Hu et al., 2007; Kim and Hemenway, 1999). This model was based on the potential base-pairing between conserved sequence elements at the upstream of subgenomic RNAs(sgRNAs) and at the 5' and 3' end of RNA genome. We now provide more evidence that RNA-RNA base-pairing between elements present at the 5' end and upstream of each sgRNA is required for efficient replication of genomic and subgenomic plus-strand RNA accumulation. Site-directed mutations introduced at the 5' end of plus-strand RNA replication defective mutant(${\Delta}12$) increasing base-pairing possibility with conserved sequence elements located upstream of each sgRNAs restored genomic and subgenomic plus-strand RNA accumulation and caused symptom development in inoculated Nicotiana benthamiana plants. Serial passage of a deletion mutant(${\Delta}8$) caused more severe symptoms and restored wild type sequences and thus retained possible RNA-RNA base-pairing. Altogether, these results indicate that the RNA element located at the 5' end of PVX genome involved in RNA-RNA interactions and play a key role in high-level accumulation of plus-strand RNA in vivo.

• BMB Reports
• /
• v.32 no.5
• /
• pp.436-439
• /
• 1999

Shigella sonnei is an important cause of human enteric infections. S. sonnei KNIH104S was previously reported to be isolated from Korean shigellosis patients. We cloned a 2.8-kb KpnI fragment containing the recA gene encoding a recombinase from the chromosomal DNA of S. sonnei KNIH104S. This recombinant plasmid was named pRAK28. E. coli HB101, a recA mutant, cannot grow on Luria-Bertani medium in the presence of the alkylating agent methylmethane sulfonate, however, E. coli HB101 harboring pRAK28 was found to grow on this medium. As far as we know, we are the first to sequence the recA gene from S. sonnei. This gene is composed of 1062 base pairs with an ATG initiation codon and a TAA termination codon. Nucleotide sequence comparison of the S. sonnei recA gene exhibited 99.7% and 99.5% identity with those of S. flexneri and E. coli, respectively.

• The Journal of the Korea institute of electronic communication sciences
• /
• v.6 no.1
• /
• pp.13-19
• /
• 2011

Games gave the calculation method for the crosscorrelation function of a Kasami sequence and a No sequence that have been generated by the same primitive polynomial. In this paper, we calculate the crosscorrelation function of a Kasami sequence and a No sequence that have been generated by the same primitive polynomial with the periodic crosscorrelation function of two base sequences. Our method is different from the Games's method.

• Journal of the Korean Society for Precision Engineering
• /
• v.24 no.7 s.196
• /
• pp.39-48
• /
• 2007

This paper presents a method of a line balanced assembly sequence generation based on the verification of a disassemblability and a work time. To derive the disassemblability for a part to be disassembled, first we inference collision free assembly directions by extracting separable directions fur the part. And we determine the disassemblability defined by the separability and stability cost. The separability cost represents a facility of the part disassembly operation, and the stability cost which represents a degree of the stability for the base assembly motion. Based upon the results, we propose a new approach of evaluating work time using neural networks. The proposed assembly sequence generation provides an effective means of solving the line balancing problem and gives a design guidance of planning assembly lay-out in flexible manufacturing application. Example study is given to illustrate the concepts and procedure of the proposed schemes.

• Journal of the Korean Society for Railway
• /
• v.8 no.5
• /
• pp.411-418
• /
• 2005

This paper expounds the development of a user-friendly expert system for the optimal stacking sequence design of composite laminates subjected to the various rules constraints. The expert system was realized in the graphic-based design environment. Therefore, users can access and use the system easily. The optimal stacking sequence is obtained by means of integration of a genetic algorithm, finite element analysis. These systems were integrated with the rules of design heuristics under an expert system shell. The optimal stacking sequence combination for the application of interest is drawn from the discrete ply angles and design rules stored in the knowledge base of the expert system. For the integration and management of softwares, a graphic-based design environment that provides multi-tasking and graphic user interface capability is built.

• Korean Journal of Veterinary Research
• /
• v.35 no.2
• /
• pp.287-295
• /
• 1995

Molecular cloning and nucleotide sequencing were undertaken for the RNA genome of gp53 antigenic region in cytopathic Singer strain of bovine viral diarrhea virus. The cloned cDNA was 939 nucleotides in length having a base composition of 31.0% A, 19.6% C, 25.5% G and 24.0% T. The sequence was corresponded to approximately 77.8%(817 bases) of predicted gp53 region and 122 bases after 3'end of gp53 region in the Singer strain when compared with NADL strain of known sequence. A single open reading frame was found in the sequence of 2nd frame and was deduced as encoding 312 amino acids.

• Journal of Microbiology
• /
• v.33 no.3
• /
• pp.252-259
• /
• 1995

The PCR was employed to detect and characterize the bovine immunodeficiency-like virus (BIV), which is a newly recognized member of the I entivirinae of the retroviruses. Degenerate primers representing the conserved regions in the pol genes of the Lentivirinae, were used to detect proviral DNA obtained from the bovine embryonic spleen cell cultures infected with BIV. The PCR amplified DNA fragment was molecularly cloned and sequenced. The BIV DNA fragment contained a sequence identical to that reported by Garvey et al. (Garvey et al., 1990. Virology, 175, 391-409). With the degenerate primers, peripheral blood mononuclear cells (PBMCs) of sick cattle and cells cultured with BIV were tested to determine genetic variation of BIV pol conserved sequence. We found the sequence heterogeneity within cultures and most variations occurred at the third base of codons that would not lead to amino acid substitutions. Another change was GAG (Glu) to AAG (Lys) within the BIV isolates. Interestingly, the altered sequence is also found in other lentiviruses such as HIV-2, SIV mac, CAEV and EIAV.

• Journal of Animal Science and Technology
• /
• v.64 no.3
• /
• pp.599-602
• /
• 2022

A new bacteriocin-producing lactic acid bacteria isolated from kimchi was identified as Lactococcus lactis JNU 534, presenting preservative properties for foods of animal origin. In this study, we present the complete genome sequence of the bacterial strain JNU 534. The final complete genome assembly consists of one circular chromosome (2,443,687 bp [base pair]) with an overall GC (guanine-cytosine) content of 35.2%, one circular plasmid sequence (46,387bp) with a GC content of 34.5%, and one circular contig sequence (7,666 bp) with a GC content of 36.2%.

• Korean Journal of Veterinary Service
• /
• v.28 no.1
• /
• pp.1-21
• /
• 2005

Pullorum disease and Fowl typhoid are kind of poultry specific disease for poultry. The peculiar character of these poultry specific diseases is that it can be infected by transmitting vertically and horizontally, also it is hard to be discovered by clinical sign, and pathology or immunology. So, to develop the PCR method which distinguishes these two genetically similar diseases of separated the specific DNA fragment from each strain and use it for differential diagnosis by subtraction PCR method. Standard strain of S gallinarum and S pullorum, and field isolation strain were verified by biochemistry, It confirmed existence of plasmid by using the PFGE. Then, Isolated DNA from it and used it as materials for the experiment. After cutting genomic DNA of two strains by using Sau 3Al, It ligated primer to tester DNA for PCR amplification and separated specific DNA fragment bacteria with method of subtraction PCR. And, It confirmed that it is a piece of unique DNA in every bacteria using base sequence of separated DNA fragment. 1. The six specific DNA fragment were separated from the DNA of S gallinarum and S pullorum by the subtraction PCR method. 2. In the result of comparison after setting base sequence of each fragment, each separated base sequence of DNA fragment they did not correspond to each other 3. As the result of each DNA fragment is derived from the each strain of DNA, and there was no homology of genomic DNA level in mutual. 4. The fragment originated in plasmid and includes S pullorum did not separate. 5. In the result of searching base sequence in Genebank, it partially shows homology in Salmonella enterica, S typhimurium, S dublin, Escherichia coli, Shigella flexneri, Yersinia pestis, Klebsiella pneumoniae. 6. Primer design by S gallinarum DNA 2, 3 fragment used PCR, They are positive reaction in only S gallinarum at 276, 367 bp position.

• Korean Journal of Microbiology
• /
• v.26 no.2
• /
• pp.101-105
• /
• 1988

6M-MuLV mutants containing deldtions around the putative packaging signal were constructed by using recombinant DNA technique and transfected into NIH/3T3 cell. 2 of 6 mutants can not be packaged into virions even in the presence of the wild type helper virus. The boundary between the packagible and the non-packagible genome is located around Pvu I site, 421 nucleotide downstream from the 5' end of M-MuLV genome. 10 base pair inverted repeat sequence (GAGUCCAAAA) which can make stem structure around Pvu Isite could be the putative packaging signal.