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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
    • Proceedings of the Korean Society for Applied Microbiology Conference
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    • 2001.06a
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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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Sequence Analysis and Suggestion for Linking Contents of Elementary and Secondary Software Education (초·중등 소프트웨어(정보) 교육 내용의 연계를 위한 계열성 분야 분석 및 제언)

  • Jeon, Yongju
    • Journal of Creative Information Culture
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    • v.5 no.2
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    • pp.105-116
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    • 2019
  • The purpose of this study is to analyze the sequence of software education content elements of the 2015 revised national curriculum in terms of basic subjects that preliminary informatics teachers should complete in the college, presented in ministry of education notification no. 2017-126, in order to implement and establish more systematic and interrelated software education. Expert reviews were conducted to verify the validity of the sequence analysis and the results were presented in a structured table, which can be used as a reference for teachers in the field to consider the sequence of educational content when designing curricula and lessons. In addition, learning concepts, which are the key words of the achievement criteria associated with the content elements, are analyzed in order to explore the hierarchy of software education contents in each sequence. Based on this, the study suggests how to link software education between school levels.

A study on $NO_2$ and TSP levels of the Major Trunk Road in Asan-area (아산지역 도로변의 $NO_2$ 및 TSP 농도에 관한 연구)

  • 손부순;김현탁;차정훈
    • Journal of environmental and Sanitary engineering
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    • v.14 no.2
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    • pp.68-74
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    • 1999
  • The atmospheric concentrations of Nitrogen Dioxide ($NO_2$) and Total Suspended Particulates (TSP) at the traffic road side were measured n Asan area, Choongchumg-namdo during May 1998 and January, 1999.The results of the study are as follows;1. The aversge value of airbone $NO_2$ and TSP levels were 28.5ppb and 5.9mg/me in Asan area. 2. The concentration distribution of NO2 and TSP is high for the season of winter. On a daily pattern, somewhat high value is appeared in the afternoon. 3. For the station, terminal, and Shinchang, the average value of $NO_2$ is 33.6ppb, 27.9ppb and 24.1ppb in sequence, and the ones of TSP is 6.3mg/m3, 6.0mg/m3 and 5.3mg/m3 in order.4. The high levels of $NO_2$ and TSP were positively related to traffic volume.

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Scheduling in Flexible Manufacturing System with Flow Type (흐름작업장 형태를 따르는 유연 생산시스템에서의 일정계획)

  • 장석화
    • Journal of Korean Society of Industrial and Systems Engineering
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    • v.14 no.24
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    • pp.97-103
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    • 1991
  • This paper deals with a scheduling problem with the objective of maximizing the throughput rate in flexible manufacturing system with shop type. Manufacturing system is consisted of multi-stage in series. All kinds of parts are processed in same in processing time. No buffer space is allowed between stages, and no part waiting is allowed in each stage. Part flow control method for determining the optimal production sequence of all parts and the production starting time of each part is proposed.

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Isolation and characterization of Bacillus subtilis NO12 from button mushroom substrates (양송이 배지로부터 분리된 Bacillus subtilis NO12의 특성)

  • Kim, Hye Soo;Park, Hyun Young;Lee, Chan-Jung;Kong, Won-Sik;Cho, Soo Jeong
    • Journal of Mushroom
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    • v.15 no.4
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    • pp.249-253
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    • 2017
  • Twelve strains of bacteria with cellulase and xylanase activities were isolated from spent mushroom substrates collected from button mushroom cultivation farm, Buye, Chungcheongnam-do in Korea. Among them, one strain, designated NO12, with higher cellulase and xylanase activities was selected by agar diffusion method. The strain NO12 was identified to be a Bacillus sp. by biochemical characteristics using Bacillus ID kit and MicroLog system. Comparative 16S rDNA gene sequence analysis showed that strain NO12 formed a distinct phylogenetic tree within the genus Bacillus and was most closely related to Bacillus subtilis with 16S rDNA gene sequence similarity of 99.2%. Based on its physiological properties, biochemical characteristics, and phylogenetic distinctiveness, strain NO12 was classified within the genus Bacillus, for which the name Bacillus subtilis NO12 was proposed. The cellulase and xylanase activities of B. subtilis NO12 were slightly increased according to bacterial population from exponential phase to stationary phase in the growth curve for B. subtilis NO12. The xylanase activity continuously increased from the beginning of the exponential phase and exhibited maximum activity in the middle of the exponential phase.

A Study for Reducing Traffic Accident at Signalized Intersection - Focus on Left-turn Phase Sequence - (교차로 교통사고 감소방안에 관한 연구 - 좌회전 현시 순서를 중심으로 -)

  • Park, Jong-Wook;Lee, In-Won;Lee, Choul-Ki;Yang, Lyun-Ho;Lee, Gun-Sang
    • The Journal of The Korea Institute of Intelligent Transport Systems
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    • v.5 no.2 s.10
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    • pp.61-71
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    • 2006
  • The main purpose of this study is to search a method for reducing traffic accident at signalized intersections. One of the important factors for this is the Left-turn phase sequence. In 1985, the operational principle of Left-turn phase Sequence was changed from Lagging left-turn to Leading left-turn in Korea. Then there was a resonable motive-no exclusive left turn-lane and narrow intersection. So, it is necessary to evaluate the performance difference between Leading and Lagging left -turn phase Sequence. The process of this study is as follows: $\cdot$ First, all the intersection was divided three parts for analysis the traffic safety: Inside part of an Intersection, Crosswalk, Intersection approach and exit. $\cdot$ Second, a safety analysis was performed by using the concepts of 'Effective interphase Period(EIP)' and 'Conflict method' The Study result is that the benefit of of phase Sequence changes from Leading to Lagging phase were significant. For an example the Accident cost will reduced about 41.8 billion won per year in korea.

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Molecular Data Concerning Alloploid Character and the Origin of Chloroplast and Mitochondrial Genomes in the Liverwort Species Pellia borealis

  • Pacak, Andrezej
    • Journal of Plant Biotechnology
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    • v.2 no.2
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    • pp.101-108
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    • 2000
  • The liverwort Pellia borealis is a diploid, monoecious, allopolypliod species (n=18) that as it was postulated, originated after hybridization and duplication of chromosome sets of two cryptic species: Pellia epiphylta-species N (n=9) and Pellia epiphylla-species 5 (n=9). Our recent results have supported the allopolyploid origin of P.borealis. We have shown that the nuclear genome of P.borealis consists of two nuclear genomes: one derived from P.epiphylla-species N and the other from P.epiphylla-species 5. In this paper we show the origin of chloroplast and mitochondrial genomes in an allopolyploid species P.borealis. To our knowledge there is no information concerning the way of mitochondria and chloroplast inheritance in Brophyta. Using an allopolyploid species of p. borealis as a model species we have decided to look into chloroplast and mitochondrial genomes of P.borealis, P.epiphylla-species N and P.epiphylla-species S for nucleotide sequences that would allow us to differentiate between both cryptic species and to identify the origin of organelle genomes in the alloploid species. We have amplified and sequenced a chloroplast $tRNA^{Leu}$ gene (anticodon UAA) containing an intron that has shown to be highly variable in a nucleotide sequence and used for plant population genetics. Unfortunately these sequences were identical in all three liverwort species tested. The analysis of the nucleotide sequence of chloroplast, an intron containing $tRNA^{Gly}$ (anticodon UCC) genes, gave expected results: the intron nucleotide sequence was identical in the case of both P.borealis and P.epiphyllaspecies N, while the sequence obtained from P.epiphyllasperies S was different in several nucleotide positions. These results were confirmed by the nucleotide sequence of another chloroplast molecular marker the chloroplast, an intron-contaning $tRNA^{Lys}$ gene (anticodon UUU). We have also sequenced mitochondrial, an intron-containing $tRNA^{Ser}$ gene (anticodon GCU) in all three liverwort species. In this case we found that, as in the case of the chloroplast genome, P.borealis mitochondrial genome was inherited from P.epiphylla-species N. On the basis of our results we claim that both organelle genomes of P.borealis derived from P.epiphylla-species N.

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A New PTS OFDM Scheme with Low Complexity for PAPR Reduction (OFDM 통신 시스템에서 PAPR을 줄이기 위한 적은 계산 복잡도를 갖는 PTS 방법)

  • Lim Dae-Woon;Heo Seok-Joong;No Jong-Seon;Chung Ha-Bong
    • The Journal of Korean Institute of Communications and Information Sciences
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    • v.31 no.9C
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    • pp.914-920
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    • 2006
  • In this paper, we introduce a new partial transmit sequence (PTS) orthogonal frequency division multiplexing (OFDM) scheme with low computational complexity. In the proposed scheme, $2^n$-point inverse fast Fourier transform (IFFT) is divided into two parts. An input symbol sequence is partially transformed using the first l stages of IFFT into an intermediate signal sequence and the intermediate signal sequence is partitioned into a number of intermediate signal subsequences. Then, the remaining n - l stages of IFFT are applied to each of the intermediate signal subsequences and the resulting signal subsequences are summed after being multiplied by each member of a set of W rotating vectors to yield W distinct OFDM signal sequences. The one with the lowest peak to average power ratio (PAPR) among these OFDM signal sequences is selected for transmission. The new PTS OFDM scheme reduces the computational complexity while it shows almost the same performance of PAPR reduction as that of the conventional PTS OFDM scheme.

Effect of Xylanase Pre-and Post-Treatment on oxygen Bleaching of Oak Kraft Pulp

  • Kim, Dong-Ho;Paik, Ki-Hyon
    • Proceedings of the Korea Technical Association of the Pulp and Paper Industry Conference
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    • 1999.11a
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    • pp.194-204
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    • 1999
  • The use of genetically cloned xylanase acquired from Bacillus strearthermophillus improves bleachability for oak kraft pulps. Combination of xylanase(X). oxygen(O), ozone(Z). peroxide(P), alkaline extraction(Eo. Eop), and chlorination(C/D, D) have been tested in a variety of bleaching sequences. The effectiveness of xylanase pre-treatment(XO) and post-treatment(OX) in oxygen bleaching is mainly compared. With xylanase treatment the brightness increase by 1.5-2.1% ISO in OZEP, OZEoP, OZEopP and OPZP sequences. There is only numerically difference of brightness gains between OX and XO sequences. With xylanase treatment chemical requirements for bleaching decrease by 42.6-48.6% in OC/DEoD sequence and 47.9-54.7% as active chlorine in OC/DEopD sequence at the same brightness. the reduction of bleaching chemicals is higher in XO sequence than those in OX sequence. Following xylanase treatment the viscosity increases from 11.7-12.0 mPa·s to 12.4-13.5 mPa·s and the brightness stability is considerably improved however the difference of effectiveness between XO and OX sequence is not present. Compared to tensile index vs tear index, the physical properties are similar for TCF bleaching sequences with and without xylanase treatments. However in OC/DEoD and OC/DEopD sequences the physical properties decrease with xylanase treatment. There is no difference in the physical properties between XO and OX sequences. COD, BOD and color of bleaching effluents increase slightly with xylanase treatment, however the discharge of COD end-load into environmental impact decrease.

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Improved AKA Protocol for Efficient Management of Authentication Data in 3GPP Network (3GPP 네트워크에서 효율적인 인증 데이터 관리를 위한 개선된 AKA 프로토콜)

  • Kim, Doo-Hwan;Jung, Sou-Hwan
    • Journal of the Korea Institute of Information Security & Cryptology
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    • v.19 no.2
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    • pp.93-103
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    • 2009
  • In this paper, we propose a USIM-based Authentication Scheme for 3GPP Network Access. The proposed scheme improves the problems of existing authentication protocol in 3GPP Network such as sequence number synchronization problem, the storage overhead of authentication data, and bandwidth consumption between Serving Network and Home Network. Our proposal is based on the USIM-based Authentication and Key Agreement Protocol that is defined in 3GPP Specification. In our scheme, mobile nodes share a SK with Serving Network and use a time stamp when mobile nodes are performing an authentication procedure with Serving Network. By using time stamp, there is no reason for using sequence number to match the authentication vector between mobile nodes and networks. So, synchronization problem can be solved in our scheme. As well as our scheme uses an authentication vector, the storage overhead of authentication data in Serving Network and bandwidth consumption between networks can be improved.