• Korean Journal of Plant Resources
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• v.19 no.5
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• pp.628-633
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• 2006

ITS DNA sequences from five individuals, representative of five groups designated according to the degree of leaf teeth and lobes from simple to palmate compound leaf in the Viola albida complex, established and further analysed in order to solve the taxonomic difficulty. A total 702 bp was sequenced at the 5.8S ribosomal DNA and internal transcribed spacer 1 and 2. The 5.8S coding region is 163 bp, and has no sequence variations. The ITS1 and ITS2 noncoding regions have a little bit sequence variations, and those were further analysed by the methods of the analysis of variance (ANOVA), the analysis of sequence divergence and the phylogenetic analysis. The result of ANOVA showed no significant differences among individuals investigated. The analysis of sequence divergence with Kimura 2-parameter distance revealed that in-groups showed much less than 0.05 in absolute value among individuals, while two out groups more than 0.05, V. grypoceras and V. orientalis. This result appeared that the sequence divergence among in-groups was not yet occurred in the species level but situated at somewhere below the species level. In the phylogenetic analysis, two outgroups formed the basal clades in order. Five individuals in-groups formed a clade. The clade was, however, not very robust as around 50% in bootstrap value, suggesting that this result was not meaningful in the phylogenetic point of views.

• Journal of Microbiology
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• v.45 no.2
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• pp.158-167
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• 2007

In this study, we have cloned a novel cDNA encoding for a papain-family cysteine protease from the Uni-ZAP XR cDNA library of the polychaete, Periserrula leucophryna. This gene was expressed in Escherichia coli using the T7 promoter system, and the protease was characterized after partial purification. First, the partial DNA fragment (498 bp) was amplified from the total RNA via RT-PCR using degenerated primers derived from the conserved region of cysteine protease. The full-length cDNA of cysteine protease (PLCP) was prepared via the screening of the Uni-ZAP XR cDNA library using the $^{32}P-labeled$ partial DNA fragment. As a result, the PLCP gene was determined to consist of a 2591 bp nucleotide sequence (CDS: 173-1024 bp) which encodes for a 283-amino acid polypeptide, which is itself composed of an 59-residue signal sequence, a 6-residue propeptide, a 218-residue mature protein, and a long 3'-noncoding region encompassing 1564 bp. The predicted molecular weights of the preproprotein and the mature protein were calculated as 31.8 kDa and 25 kDa, respectively. The results of sequence analysis and alignment revealed a significant degree of sequence similarity with other eukaryotic cysteine proteases, including the conserved catalytic triad of the $Cys^{90},\;His^{226},\;and\;Asn^{250}$ residues which characterize the C1 family of papain-like cysteine protease. The nucleotide and amino acid sequences of the novel gene were deposited into the GenBank database under the accession numbers, AY390282 and AAR27011, respectively. The results of Northern blot analysis revealed the 2.5 kb size of the transcript and ubiquitous expression throughout the entirety of the body, head, gut, and skin, which suggested that the PLCP may be grouped within the cathepsin F-like proteases. The region encoding for the mature form of the protease was then subcloned into the pT7-7 expression vector following PCR amplification using the designed primers, including the initiation and termination codons. The recombinant cysteine proteases were generated in a range of 6.3 % to 12.5 % of the total cell proteins in the E. coli BL21(DE3) strain for 8 transformants. The results of SDS-PAGE and Western blot analysis indicated that a cysteine protease of approximately 25 kDa (mature form) was generated. The optimal pH and temperature of the enzyme were determined to be approximately 9.5 and $35^{\circ}C$, respectively, thereby indicating that the cysteine protease is a member of the alkaline protease group. The evaluation of substrate specificity indicated that the purified protease was more active towards Arg-X or Lys-X and did not efficiently cleave the substrates with non-polar amino acids at the P1 site. The PLCP evidenced fibrinolytic activity on the plasminogen-free fibrin plate test.

• Asian-Australasian Journal of Animal Sciences
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• v.14 no.6
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• pp.880-884
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• 2001

Rumen microbiology research has undergone several evolutionary steps: the isolation and nutritional characterization of readily cultivated microbes; followed by the cloning and sequence analysis of individual genes relevant to key digestive processes; through to the use of small subunit ribosomal RNA (SSU rRNA) sequences for a cultivation-independent examination of microbial diversity. Our knowledge of rumen microbiology has expanded as a result, but the translation of this information into productive alterations of ruminal function has been rather limited. For instance, the cloning and characterization of cellulase genes in Escherichia coli has yielded some valuable information about this complex enzyme system in ruminal bacteria. SSU rRNA analyses have also confirmed that a considerable amount of the microbial diversity in the rumen is not represented in existing culture collections. However, we still have little idea of whether the key, and potentially rate-limiting, gene products and (or) microbial interactions have been identified. Technologies allowing high throughput nucleotide and protein sequence analysis have led to the emergence of two new fields of investigation, genomics and proteomics. Both disciplines can be further subdivided into functional and comparative lines of investigation. The massive accumulation of microbial DNA and protein sequence data, including complete genome sequences, is revolutionizing the way we examine microbial physiology and diversity. We describe here some examples of our use of genomics- and proteomics-based methods, to analyze the cellulase system of Ruminococcus flavefaciens FD-1 and explore the genome of Ruminococcus albus 8. At Illinois, we are using bacterial artificial chromosome (BAC) vectors to create libraries containing large (>75 kbases), contiguous segments of DNA from R. flavefaciens FD-1. Considering that every bacterium is not a candidate for whole genome sequencing, BAC libraries offer an attractive, alternative method to perform physical and functional analyses of a bacterium's genome. Our first plan is to use these BAC clones to determine whether or not cellulases and accessory genes in R. flavefaciens exist in clusters of orthologous genes (COGs). Proteomics is also being used to complement the BAC library/DNA sequencing approach. Proteins differentially expressed in response to carbon source are being identified by 2-D SDS-PAGE, followed by in-gel-digests and peptide mass mapping by MALDI-TOF Mass Spectrometry, as well as peptide sequencing by Edman degradation. At Ohio State, we have used a combination of functional proteomics, mutational analysis and differential display RT-PCR to obtain evidence suggesting that in addition to a cellulosome-like mechanism, R. albus 8 possesses other mechanisms for adhesion to plant surfaces. Genome walking on either side of these differentially expressed transcripts has also resulted in two interesting observations: i) a relatively large number of genes with no matches in the current databases and; ii) the identification of genes with a high level of sequence identity to those identified, until now, in the archaebacteria. Genomics and proteomics will also accelerate our understanding of microbial interactions, and allow a greater degree of in situ analyses in the future. The challenge is to utilize genomics and proteomics to improve our fundamental understanding of microbial physiology, diversity and ecology, and overcome constraints to ruminal function.

• Journal of Korean Neurosurgical Society
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• v.55 no.3
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• pp.136-141
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• 2014

Objective : The aims of this study are to identify interpersonal differences in defining coordinates and to figure out the degree of distortion of the MRI and compare the accuracy between CT, 1.5-tesla (T) and 3.0T MRI. Methods : We compared coordinates in the CT images defined by 2 neurosurgeons. We also calculated the errors of 1.5T MRI and those of 3.0T. We compared the errors of the 1.5T with those of the 3.0T. In addition, we compared the errors in each sequence and in each axis. Results : The mean difference in the CT images between the two neurosurgeons was $0.48{\pm}0.22mm$. The mean errors of the 1.5T were $1.55{\pm}0.48mm$ (T1), $0.75{\pm}0.38$ (T2), and $1.07{\pm}0.57$ (FLAIR) and those of the 3.0T were $2.35{\pm}0.53$ (T1), $2.18{\pm}0.76$ (T2), and $2.16{\pm}0.77$ (FLAIR). The smallest mean errors out of all the axes were in the x axis : 0.28-0.34 (1.5T) and 0.31-0.52 (3.0T). The smallest errors out of all the MRI sequences were in the T2 : 0.29-0.58 (1.5T) and 0.31-1.85 (3.0T). Conclusion : There was no interpersonal difference in running the Gamma $Plan^{(R)}$ to define coordinates. The errors of the 3.0T were greater than those of the 1.5T, and these errors were not of an acceptable level. The x coordinate error was the smallest and the z coordinate error was the greatest regardless of the MRI sequence. The T2 sequence was the most accurate sequence.

• Journal of applied mathematics & informatics
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• v.31 no.3_4
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• pp.533-544
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• 2013

The multiplicative version of Wiener index (${\pi}$-index), proposed by Gutman et al. in 2000, is equal to the product of the distances between all pairs of vertices of a (molecular) graph G. In this paper, we first present some sharp bounds in terms of the order and other graph parameters including the diameter, degree sequence, Zagreb indices, Zagreb coindices, eccentric connectivity index and Merrifield-Simmons index for ${\pi}$-index of general connected graphs and trees, as well as a Nordhaus-Gaddum-type bound for ${\pi}$-index of connected triangle-free graphs. Then we study the behavior of ${\pi}$-index upon the case when removing a vertex or an edge from the underlying graph. Finally, we investigate the extremal properties of ${\pi}$-index within the set of trees and unicyclic graphs.

• Journal of the Korean Society for Industrial and Applied Mathematics
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• v.20 no.1
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• pp.1-15
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• 2016

The continuous analysis, such as smoothness and uniform convergence, for polynomials and polynomial-like functions using differential operators have been studied considerably, parallel to the study of discrete analysis for these functions, using difference operators. In this work, for the difference operator ${\nabla}_h$ with size h > 0, we verify that for an integer $m{\geq}0$ and a strictly decreasing sequence $h_n$ converging to zero, a continuous function f(x) satisfying $${\nabla}_{h_n}^{m+1}f(kh_n)=0,\text{ for every }n{\geq}1\text{ and }k{\in}{\mathbb{Z}}$$, turns to be a polynomial of degree ${\leq}m$. The proof used the polynomial convergence, and additionally, we investigated several conditions on convergence to polynomials.

• Kyungpook Mathematical Journal
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• v.46 no.3
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• pp.449-461
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• 2006

Generalizing twist moves of classical knots, we introduce $t(a_1,{\cdots},a_m)$-moves of virtual knots for an $m$-tuple ($a_1,{\cdots},a_m$) of nonzero integers. In [4], M. Goussarov, M. Polyak and O. Viro introduced finite type invariants of virtual knots and Gauss diagram formulae giving combinatorial presentations of finite type invariants. By using the Gauss diagram formulae for the finite type invariants of degree 2, we give a necessary condition for a virtual long knot K to be transformed to a virtual long knot K' by a finite sequence of $t(a_1,{\cdots},a_m)$-moves for an $m$-tuple ($a_1,{\cdots},a_m$) of nonzero integers with the same sign.

• Kyungpook Mathematical Journal
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• v.58 no.1
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• pp.183-202
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• 2018

${\Delta}-moves$ are closely related with a Vassiliev invariant of degree 2. For classical knots, M. Okada showed that the second coefficients of the Conway polynomials of two knots differ by 1 if the two knots are related by a single ${\Delta}-move$. The first author extended the Okada's result for virtual knots by using a Vassiliev invariant of virtual knots of type 2 which is induced from the Kauffman polynomial of a virtual knot. The arrow polynomial is a generalization of the Kauffman polynomial. We will generalize this result by using Vassiliev invariants of type 2 induced from the arrow polynomial of a virtual knot and give a lower bound for the number of ${\Delta}-moves$ transforming $K_1$ to $K_2$ if two virtual knots $K_1$ and $K_2$ are related by a finite sequence of ${\Delta}-moves$.

• Journal of Microbiology
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• v.35 no.2
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• pp.92-96
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• 1997

A new site-specific recombinase sin, as a component of a putatie transposon has been cloned and its base sequence has been determined. The proposed sin shows a hish degree of homology with pI9789-sin and pSK1-sin. There is a large (16 bp) inverted repeat downstream of proposed sin and the postulate dhelix-turn-helix motif is located at the extreme C-terminus of the poposed Sin. The transposase gene (tnpA) and .betha.-lactamase gene (blaZ) are located upstream of sin and arsenate reductase gene (arsC) and arsenic efflux pump protein gene (ars B) are downstream. This genetic arrangement seems to be a part of a new putative transposon because there is no known transposon with a gene arrangement of tnpA-blaZ-sin-arsC.

• Journal of The Korean Astronomical Society
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• v.29 no.spc1
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• pp.143-144
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• 1996

Two-component models (normal star and degenerate star components) are the simplest realization of clusters with a mass spectrum because the high mass stars quickly evolve off leaving degenerate stars behind, while low mass stars survive for a long time as main-sequence stars. In the present study we examine the post-collapse evolution of globular clusters using two-component Fokker-Planck models that include three-body binary heating. We confirm that a simple parameter ${\epsilon}{\equiv} (E_{tot}/t_{rh})/(E_c/t_{rc})$ well describes the occurrence of gravothermal oscillations of two-component clusters. Also, we find that the degree of instability depends on the steepness of the mass function such that clusters with a steeper mass function are less exposed to instability.