• 제목/요약/키워드: Sequencing Strategy

검색결과 94건 처리시간 0.028초

Complete genome sequence of Lactobacillus amylovorus 1394N20, a potential probiotic strain, isolated from a Hanwoo calf

  • Oh, Young Joon;Kim, Joon Yong;Lee, Jieun;Lim, Seul Ki;Yu, Dohyeon;Oh, Yeon-su;Park, Jinho;Choi, Hak-Jong
    • Journal of Animal Science and Technology
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    • 제63권5호
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    • pp.1207-1210
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    • 2021
  • Lactobacillus amylovorus are known to exist in the intestinal flora of healthy cattle or pigs. The L. amylovorus strain 1394N20 was isolated from the feces of the Hanwoo calf (Bos taurus coreanae). The genome of strain 1394N20 consists of a single circular chromosome (2,176,326 bp) with overall guanine + cytosine content of 37.8 mol%. Moreover, 2,281 protein-coding sequences, 15 rRNAs, and 65 tRNAs genes were identified in the chromosome based on the results of annotation. The bacterium has a gene encoding endoglucanase, an enzyme that hydrolyzes the 1,4-β-D-glycosidic linkages in cellulose, hemicellulose, lichenin, and cereal β-D-glucans. Genomic sequencing of L. amylovorus strain 1394N20 reveals the immense potential of the strain as a probiotic with nutrient digestibility.

Metagenomic SMRT Sequencing-Based Exploration of Novel Lignocellulose-Degrading Capability in Wood Detritus from Torreya nucifera in Bija Forest on Jeju Island

  • Oh, Han Na;Lee, Tae Kwon;Park, Jae Wan;No, Jee Hyun;Kim, Dockyu;Sul, Woo Jun
    • Journal of Microbiology and Biotechnology
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    • 제27권9호
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    • pp.1670-1680
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    • 2017
  • Lignocellulose, composed mostly of cellulose, hemicellulose, and lignin generated through secondary growth of woody plant, is considered as promising resources for biofuel. In order to use lignocellulose as a biofuel, biodegradation besides high-cost chemical treatments were applied, but knowledge on the decomposition of lignocellulose occurring in a natural environment is insufficient. We analyzed the 16S rRNA gene and metagenome to understand how the lignocellulose is decomposed naturally in decayed Torreya nucifera (L) of Bija forest (Bijarim) in Gotjawal, an ecologically distinct environment. A total of 464,360 reads were obtained from 16S rRNA gene sequencing, representing diverse phyla; Proteobacteria (51%), Bacteroidetes (11%) and Actinobacteria (10%). The metagenome analysis using single molecules real-time sequencing revealed that the assembled contigs determined originated from Proteobacteria (58%) and Actinobacteria (10.3%). Carbohydrate Active enZYmes (CAZy)- and Protein families (Pfam)-based analysis showed that Proteobacteria was involved in degrading whole lignocellulose, and Actinobacteria played a role only in a part of hemicellulose degradation. Combining these results, it suggested that Proteobacteria and Actinobacteria had selective biodegradation potential for different lignocellulose substrates. Thus, it is considered that understanding of the systemic microbial degradation pathways may be a useful strategy for recycle of lignocellulosic biomass, and the microbial enzymes in Bija forest can be useful natural resources in industrial processes.

동적계량법에 의한 용수공급시설의 최적화에 관한 연구 (Optimal Sequencing of Water Supply Proiects by Dynamic Programming)

  • 배상근;이순택
    • 물과 미래
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    • 제14권2호
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    • pp.63-69
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    • 1981
  • 본 연구는 용수 공급시설의 최적건설순서 및 최적건설년을 시간-용수수요의 관계로부터 결정함에 있어서 동적 계획법에 의한 해석으로부터 동적 계획법의 수질원분야에 대한 응용가능성을 살펴보며 그 적용을 보이고자 하였다. 분석에 있어서 대구시의 상수도확충계획 자료 중 건설가능 Projects를 채택하였으며 용수추정방법을 지수함수식, 대구시추정치 및 두 방법의 평균치의 3가지 방법으로 하여 동적 계획모델에 적용시켰으며 그 결과 수요곡선의 변화가 optimal sequence에 변화를 가져왔고 대체적으로 D-E-G-F-C-B-A의 순으로 향후 33-38년 기간 내에 건설되어야 함을 발견하였다. 그리고 이자율의 변동은 present value cost에만 영향이 있었으며 동적 계획모델에 의한 용수공급시설의 최적화가 타당함을 보여주었다.

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Synthetic Biology Tools for Novel Secondary Metabolite Discovery in Streptomyces

  • Lee, Namil;Hwang, Soonkyu;Lee, Yongjae;Cho, Suhyung;Palsson, Bernhard;Cho, Byung-Kwan
    • Journal of Microbiology and Biotechnology
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    • 제29권5호
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    • pp.667-686
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    • 2019
  • Streptomyces are attractive microbial cell factories that have industrial capability to produce a wide array of bioactive secondary metabolites. However, the genetic potential of the Streptomyces species has not been fully utilized because most of their secondary metabolite biosynthetic gene clusters (SM-BGCs) are silent under laboratory culture conditions. In an effort to activate SM-BGCs encoded in Streptomyces genomes, synthetic biology has emerged as a robust strategy to understand, design, and engineer the biosynthetic capability of Streptomyces secondary metabolites. In this regard, diverse synthetic biology tools have been developed for Streptomyces species with technical advances in DNA synthesis, sequencing, and editing. Here, we review recent progress in the development of synthetic biology tools for the production of novel secondary metabolites in Streptomyces, including genomic elements and genome engineering tools for Streptomyces, the heterologous gene expression strategy of designed biosynthetic gene clusters in the Streptomyces chassis strain, and future directions to expand diversity of novel secondary metabolites.

Biphasic Study to Characterize Agricultural Biogas Plants by High-Throughput 16S rRNA Gene Amplicon Sequencing and Microscopic Analysis

  • Maus, Irena;Kim, Yong Sung;Wibberg, Daniel;Stolze, Yvonne;Off, Sandra;Antonczyk, Sebastian;Puhler, Alfred;Scherer, Paul;Schluter, Andreas
    • Journal of Microbiology and Biotechnology
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    • 제27권2호
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    • pp.321-334
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    • 2017
  • Process surveillance within agricultural biogas plants (BGPs) was concurrently studied by high-throughput 16S rRNA gene amplicon sequencing and an optimized quantitative microscopic fingerprinting (QMF) technique. In contrast to 16S rRNA gene amplicons, digitalized microscopy is a rapid and cost-effective method that facilitates enumeration and morphological differentiation of the most significant groups of methanogens regarding their shape and characteristic autofluorescent factor 420. Moreover, the fluorescence signal mirrors cell vitality. In this study, four different BGPs were investigated. The results indicated stable process performance in the mesophilic BGPs and in the thermophilic reactor. Bacterial subcommunity characterization revealed significant differences between the four BGPs. Most remarkably, the genera Defluviitoga and Halocella dominated the thermophilic bacterial subcommunity, whereas members of another taxon, Syntrophaceticus, were found to be abundant in the mesophilic BGP. The domain Archaea was dominated by the genus Methanoculleus in all four BGPs, followed by Methanosaeta in BGP1 and BGP3. In contrast, Methanothermobacter members were highly abundant in the thermophilic BGP4. Furthermore, a high consistency between the sequencing approach and the QMF method was shown, especially for the thermophilic BGP. The differences elucidated that using this biphasic approach for mesophilic BGPs provided novel insights regarding disaggregated single cells of Methanosarcina and Methanosaeta species. Both dominated the archaeal subcommunity and replaced coccoid Methanoculleus members belonging to the same group of Methanomicrobiales that have been frequently observed in similar BGPs. This work demonstrates that combining QMF and 16S rRNA gene amplicon sequencing is a complementary strategy to describe archaeal community structures within biogas processes.

이동로봇 자율주행을 위한 행위모듈의 실행순서 조정기법 (Sequencing Strategy for Autonomous Mobile Robots in Real Environments)

  • 송인섭;박정민;오상록;조영조;박귀태
    • 제어로봇시스템학회논문지
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    • 제5권3호
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    • pp.297-305
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    • 1999
  • Autonomous mobile robots are required to achieve multiple goals while responding quickly to the dynamic environments. An appropriate robot control architecture, which clearly and systematically defines the relationship among the inputs, the processing functions and the outputs, thus needs to be embedded in the robot controller. This paper proposes a kind of hybrid control architecture which combines the key features of the two well-known robot control architectures; hierarchical and behavioral- based. The overall control architecture consists of three layers, i.e. the highest planner, the middle plan executor, and the lowest monitor and behavior-based controller. In the planned situation, only one behavior module is chosen by the logical coordinator in the plan executor according to the way point bin. In the exceptional situation, the central controller in the plan executor issues an additional control command to reach the planned way point. Several simulations and experiments with autonomous mobile robot show that the proposed architecture enables the robot controller to achieve the multiple sequential goals even in dynamic and uncertain environments.

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Point-Merge 절차를 이용한 도착 스케줄링 및 조언 정보 생성 알고리즘 개발 (A Development of Arrival Scheduling and Advisory Generation Algorithms based on Point-Merge Procedure)

  • 홍성권;김소윤;전대근;은연주;오은미
    • 한국항공운항학회지
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    • 제25권3호
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    • pp.44-50
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    • 2017
  • This paper proposes arrival scheduling and advisory generation algorithms which can be used in the terminal airspace with Point-Merge procedures. The proposed scheduling algorithm consists of two steps. In the first step, the algorithm computes aircraft schedules at the entrance of the Point-Merge sequencing legs based on First-Come First-Served(FCFS) strategy. Then, in the second step, optimal sequence and schedules of all aircraft at the runway are computed using Multi-Objective Dynamic Programming(MODP) method. Finally, the advisories that have to be provided to the air traffic controllers are generated. To demonstrate the proposed algorithms, the simulation was conducted based on Jeju International Airport environments.

재무 가치를 고려한 PMO의 전략적 동일 한정 자원 배분 (Strategic Allocation of the Limited Same Resource by Program Management Office Considering Financial Values)

  • 황진하;김주한;황지연
    • 산업경영시스템학회지
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    • 제35권3호
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    • pp.24-31
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    • 2012
  • Priority rules or sequencing heuristics conventionally used to determine resource allocation is to maximize the earned value on time and cost. This study provides a effective strategy-oriented approach for the program resource management problem with limited same resource, which systematically connects individual project objectives to the overall organizational goal, by introducing financial values as well as priority rules in a broader context. It deals with the resource allocation problem as the decision making problem in the strategic management paradigm to meet business objective and solves it using the analytic hierarchy process, and explains the method of application and usefulness through some simulation cases.

An Analysis of Collaborative Visualization Processing of Text Information for Developing e-Learning Contents

  • SUNG, Eunmo
    • Educational Technology International
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    • 제10권1호
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    • pp.25-40
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    • 2009
  • The purpose of this study was to explore procedures and modalities on collaborative visualization processing of text information for developing e-Learning contents. In order to investigate, two research questions were explored: 1) what are procedures on collaborative visualization processing of text information, 2) what kinds of patterns and modalities can be found in each procedure of collaborative visualization of text information. This research method was employed a qualitative research approaches by means of grounded theory. As a result of this research, collaborative visualization processing of text information were emerged six steps: identifying text, analyzing text, exploring visual clues, creating visuals, discussing visuals, elaborating visuals, and creating visuals. Collaborative visualization processing of text information came out the characteristic of systemic and systematic system like spiral sequencing. Also, another result of this study, modalities in collaborative visualization processing of text information was divided two dimensions: individual processing by internal representation, social processing by external representation. This case study suggested that collaborative visualization strategy has full possibility of providing ideal methods for sharing cognitive system or thinking system as using human visual intelligence.

연속회분식반응기에서 패턴매칭방법을 이용한 유입수 부하수준 진단 알고리즘 개발 (Development of a Diagnosis Algorithm of Influent Loading Levels Using Pattern Matching Method in Sequencing Batch Reactor (SBR))

  • 김예진;안유가;김효수;신중필;김창원
    • 대한환경공학회지
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    • 제31권2호
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    • pp.102-108
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    • 2009
  • 연속회분식반응기에서 측정되는 기초상용계측기의 프로파일은 공정 내에서 수행되는 유기오염물질 및 영양염류 제거반응의 진행 정도에 대한 정보를 제공할 수 있다. 특히 호기성 반응구간에 측정되는 pH나 DO, ORP의 변곡점 등의 정보를 이용한 반응 종료 감지는 널리 알려진 응용사례라고 할 수 있다. 그러나 이러한 정보들은 반응의 종료 여부에 대한 정보를 제공할 뿐, 현재 공정에 가해지는 부하에 대한 정보를 제공하지는 못한다. 본 논문에서는 운전자에게 공정 유입수 내의 호기적 반응을 요하는 부하, 즉 암모니아 부하 및 유기물 부하의 고/중/저에 관한 정보를 제공할 수 있는 기초상용계측기의 정보를 활용한 진단 알고리즘을 개발하였다. 본 알고리즘으로 인해, 연속회분식반응기를 운전할 시에 수시로 변화하는 유입수의 부하를 습식분석 없이 자동 계측기 프로파일로부터 얻어낼 수 있을 것으로 사료된다.