• Title/Summary/Keyword: Mapping sequence

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Spatial Physicochemical and Metagenomic Analysis of Desert Environment

  • Sivakala, Kunjukrishnan Kamalakshi;Jose, Polpass Arul;Anandham, Rangasamy;Thinesh, Thangathurai;Jebakumar, Solomon Robinson David;Samaddar, Sandipan;Chatterjee, Poulami;Sivakumar, Natesan;Sa, Tongmin
    • Journal of Microbiology and Biotechnology
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    • v.28 no.9
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    • pp.1517-1526
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    • 2018
  • Investigating bacterial diversity and its metabolic capabilities is crucial for interpreting the ecological patterns in a desert environment and assessing the presence of exploitable microbial resources. In this study, we evaluated the spatial heterogeneity of physicochemical parameters, soil bacterial diversity and metabolic adaptation at meter scale. Soil samples were collected from two quadrats of a desert (Thar Desert, India) with a hot, arid climate, very little rainfall and extreme temperatures. Analysis of physico-chemical parameters and subsequent variance analysis (p-values < 0.05) revealed that sulfate, potassium and magnesium ions were the most variable between the quadrats. Microbial diversity of the two quadrats was studied using Illumina bar-coded sequencing by targeting V3-V4 regions of 16S rDNA. As for the results, 702504 high-quality sequence reads, assigned to 173 operational taxonomic units (OTUs) at species level, were examined. The most abundant phyla in both quadrats were Actinobacteria (38.72%), Proteobacteria (32.94%), and Acidobacteria (9.24%). At genus level, Gaiella represented highest prevalence, followed by Streptomyces, Solirubrobacter, Aciditerrimonas, Geminicoccus, Geodermatophilus, Microvirga, and Rubrobacter. Between the quadrats, significant difference (p-values < 0.05) was found in the abundance of Aciditerrimonas, Geodermatophilus, Geminicoccus, Ilumatobacter, Marmoricola, Nakamurella, and Solirubrobacter. Metabolic functional mapping revealed diverse biological activities, and was significantly correlated with physicochemical parameters. The results revealed spatial variation of ions, microbial abundance and functional attributes in the studied quadrats, and patchy nature in local scale. Interestingly, abundance of the biotechnologically important phylum Actinobacteria, with large proposition of unclassified species in the desert, suggested that this arid environment is a promising site for bioprospection.

Improvement of Power Efficiency of HPA by the PAPR Reduction and Predistorter in MIMO-OFDM (MIMO-OFDM에서 PAPR 저감 및 사전 왜곡기에 의한 HPA의 전력 효율 개선)

  • Trang Ngo Thi Thu;Kim Nam;Han Tae-Young
    • The Journal of the Korea Contents Association
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    • v.5 no.1
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    • pp.201-208
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    • 2005
  • Tn this paper, we evaluate the peak-to-average power ratio (PAPR) performance in a space-time block code (STBC) multi-input multi-output orthogonal frequency division multiplexing (MIMO-OFDM) system using selected mapping (SLM) and partial transmit sequences (PTS) approaches. SLM and PTS methods are used to decrease the nonlinear distortion and to improve the power efficiency of the nonlinear high power amplifier(HPA) in the MIMO-OFDM system. In simulation result, when compared with the existing MIMO-OFDM system using QPSK, the PTS method reduces the PAPR about 5dB while the SLM method can reduce about 3.5 dB. Also, we find the BER performance of the MIMO-OFDM system with and without the predistorter in front of the HPA. When the predistorter is used, the input back-off (IBO) of 4 dB is required in the PTS method, and IBO of 6 dB in the SLM method to closely conform to the linear amplifier. If the method of improving the PAPR is not used, the value of IBO of 8 dB is required.

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ISHIKAWA AND MANN ITERATIVE PROCESSES WITH ERRORS FOR NONLINEAR $\Phi$-STRONGLY QUASI-ACCRETIVE MAPPINGS IN NORMED LINEAR SPACES

  • Zhou, H.Y.;Cho, Y.J.
    • Journal of the Korean Mathematical Society
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    • v.36 no.6
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    • pp.1061-1073
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    • 1999
  • Let X be a real normed linear space. Let T : D(T) ⊂ X \longrightarrow X be a uniformly continuous and ∮-strongly quasi-accretive mapping. Let {${\alpha}$n}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} , {${\beta}$n}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} be two real sequences in [0, 1] satisfying the following conditions: (ⅰ) ${\alpha}$n \longrightarrow0, ${\beta}$n \longrightarrow0, as n \longrightarrow$\infty$ (ⅱ) {{{{ SUM from { { n}=0} to inf }}}} ${\alpha}$=$\infty$. Set Sx=x-Tx for all x $\in$D(T). Assume that {u}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} and {v}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} are two sequences in D(T) satisfying {{{{ SUM from { { n}=0} to inf }}}}∥un∥<$\infty$ and vn\longrightarrow0 as n\longrightarrow$\infty$. Suppose that, for any given x0$\in$X, the Ishikawa type iteration sequence {xn}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} with errors defined by (IS)1 xn+1=(1-${\alpha}$n)xn+${\alpha}$nSyn+un, yn=(1-${\beta}$n)x+${\beta}$nSxn+vn for all n=0, 1, 2 … is well-defined. we prove that {xn}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} converges strongly to the unique zero of T if and only if {Syn}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} is bounded. Several related results deal with iterative approximations of fixed points of ∮-hemicontractions by the ishikawa iteration with errors in a normed linear space. Certain conditions on the iterative parameters {${\alpha}$n}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} , {${\beta}$n}{{{{ { }`_{n=0 } ^{$\infty$ } }}}} and t are also given which guarantee the strong convergence of the iteration processes.

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Cytogenetic Mapping of Carthamus tinctorius L. with Tandemly Repeated DNA Sequences by Fluorescence in situ Hybridization

  • Mancia, Franklin Hinosa;Ju, Yoon Ha;Lim, Ki-Byung;Kim, Jung Sun;Nam, Sang Yong;Hwang, Yoon-Jung
    • Korean Journal of Plant Resources
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    • v.30 no.6
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    • pp.654-661
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    • 2017
  • Dual-color fluorescence in situ hybridization karyotype analysis was created using repetitive sequences including two types of rDNA repeats (45S and 5S rDNAs) and Arabidopsis-type telomere sequence repeats. The somatic metaphase cells of Carthamus tinctorius were observed as diploids (2n=2x=24). A symmetrical or slightly asymmetrical karyotype with seven pairs of metacentric and five pairs of submetacentric chromosomes was observed. The lengths of the somatic metaphase chromosomes ranged from 4.18 to $6.53{\mu}m$, with a total length of $60.71{\mu}m$. One locus of 45S rDNA was located on the pericentromeric regions of three pairs of chromosomes and the other pair was situated on the terminal regions of the short arms of a single pair of chromosomes. One locus of 5S rDNA was detected on the interstitial regions of the short arms of two pairs of chromosomes. Arabidopsis-type telomeric repeats were detected on the terminal regions of all pairs of chromosomes. Co-localization of loci between telomeric repeats and 45S rDNA was observed in a single pair of chromosomes. The results provide additional information for the existing physical mapping project of C. tinctorius and will also serve as a benchmark to a more intricate cytogenetic investigation of C. tinctorius and its related species.

Amplitude and Phase Variant SLM Scheme for PAPR Reduction in QAM Modulated OFDM Signals (직교 주파수 분할 다중화 신호의 최대전력 대 평균전력의 비 감소를 위한 크기 및 위상 변이 선택 사상 기법)

  • Jeon, Hyun-Bae;Kim, Ki-Hoon;No, Jong-Seon;Shin, Dong-Joon
    • The Journal of Korean Institute of Communications and Information Sciences
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    • v.35 no.2C
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    • pp.203-209
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    • 2010
  • In this paper, we propose a new selected mapping (SLM) scheme for reducing peak to average power ratio (PAPR) of orthogonal frequency division multiplexing (OFDM) signals modulated with quadrature amplitude modulation (QAM), called amplitude and phase variant SLM (APSLM). Contrary to the conventional SLM which rotates the phases of QAM symbols in the frequency domain, the proposed scheme changes the magnitudes as well as the phases of QAM symbols by applying binary sequences to the binary data sequence before mapped to QAM symbols. Simulation results show that the proposed scheme has better PAPR reduction performance than the conventional SLM scheme for the QAM modulated OFDM signals, especially for the small number of subcarriers.

A Study on Automatic Detection of Speed Bump by using Mathematical Morphology Image Filters while Driving (수학적 형태학 처리를 통한 주행 중 과속 방지턱 자동 탐지 방안)

  • Joo, Yong Jin;Hahm, Chang Hahk
    • Journal of Korean Society for Geospatial Information Science
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    • v.21 no.3
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    • pp.55-62
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    • 2013
  • This paper aims to detect Speed Bump by using Omni-directional Camera and to suggest Real-time update scheme of Speed Bump through Vision Based Approach. In order to detect Speed Bump from sequence of camera images, noise should be removed as well as spot estimated as shape and pattern for speed bump should be detected first. Now that speed bump has a regular form of white and yellow area, we extracted speed bump on the road by applying erosion and dilation morphological operations and by using the HSV color model. By collecting huge panoramic images from the camera, we are able to detect the target object and to calculate the distance through GPS log data. Last but not least, we evaluated accuracy of obtained result and detection algorithm by implementing SLAMS (Simultaneous Localization and Mapping system).

Quantitative Trait Loci for Stem Length in Soybean Using a Microsatellite Markers (콩에서 Microsatellite 마커를 이용한 양적형질 유전자의 분석)

  • Kim, Hyeun-Kyeung;Kang, Sung-Taeg;Kong, Hyeun-Jong;Park, In-Soo
    • Journal of Life Science
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    • v.14 no.2
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    • pp.339-344
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    • 2004
  • Identification of individual quantitative trait loci (QTL) is a prerequisite to application of marker-assisted selection for stern length. Two simple sequence repeat (SSR)-based linkage maps were constructed from recombination inbred line populations between cross of Keunolkong and Shinpaldalkong. Two parents used differed greatly in stem length, which were 30.57 cm and 49.75 cm in Keunolkong and Shinpaldalkong, respectively. Using the constructed maps, regression analysis and interval mapping were performed to identify QTLs conferring stem length. Four QTLs for stem length on linkage groups (LG) F, J, N and O were identified in the Keunolkong ${\times}$ Shinpaldalkong population and they totally explained 37.83% of variation for stem length. In the population, two major QTLs on LG J and O conditioning 14.25% and 10.68% of the phenotypic variation in stem length were determined and two QTLs with minor effect were detected on LG F and N. Identification of QTLs for stem length and mapping individual locus should facilitate to describe genetic mechanisms for stem length in different population. SSR markers tightly linked to QTLs for stem length allow to accelerate the elimination of deleterious genes and selection for desirable recombinants at early stage in crop breeding programs.

Development of SSR markers for genetic mapping of Korean ginseng and authentication of Korean ginseng cultivars

  • Kim, Nam-Hoon;Choi, Hong-Il;Jung, Ju-Yeon;Choi, Beom-Soon;Ahn, In-Ok;Lee, Joon-Soo;Yang, Tae-Jin
    • Proceedings of the Plant Resources Society of Korea Conference
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    • 2010.10a
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    • pp.11-11
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    • 2010
  • The Korean ginseng, Panax ginseng C. A. Meyer is a popular medicinal herb in Araliaceae. Genetic map in crops provides valuable information for breeding, genetic and genomic researches. However, little information is available for construction of genetic map in ginseng. Up to now, we have produced large amounts of expressed sequence tags (ESTs) from four ginseng cultivars (37Mb, 49Mb, 39Mb, 47Mb from Gopoong, Gumpoong, Chunpoong and Yunpoong respectively using pyrosequencing technique and 5Mb from normalized full-length cDNA library of Chunpoong) to obtain comprehensive information of gene expression, and constructed EST database including ESTs from public database. Till now, we designed 261 SSR primer sets using EST sequences and identified 106 intergenic polymorphic markers. And 44 of the 106 showed polymorphisms among panax ginseng cultivars. Among 44 markers, 27 SSR polymorphic markers were inspected to 51 $F_2$ population from Yunpoong x Chunpoong, which showed good at the fitness of Mendellian segregation ratio 1:2:1. To enrich the number of markers, and thus construct high resolution genetic map which can be used as frame map for further genome sequencing. we are planning to develop large scale EST-derived SNP markers which are available in the F2 population. This study provides genetic information as well as foundation for ginseng researches such as genetics, genomics, breeding, and the final goal for whole genome sequencing. This study was supported by Technology Development Program for Agriculture and Forestry, Ministry for Food, Agriculture, Forestry and Fisheries, Republic of Korea (Grant No. 609001-051SB210).

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A Case Study of Minimizing Construction Time in Long and Large Twin Tube Tunnel (대단면 장대터널 공기단축 사례연구)

  • No Sang-Lim;Noh Seung-Hwan;Lee Sang-Pil;Kim Moon-Ho;Seo Jung-Woo
    • Tunnel and Underground Space
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    • v.15 no.3 s.56
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    • pp.177-184
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    • 2005
  • The Sapaesan tunnel, the longest twin tube tunnel (4km) in Korea with 4 lanes each, is under construction with two years of delayed schedule because of the strong opposition from environmental bodies. Therefore, maximizing the construction efficiency was needed in tunnel project to compensate for time delay. This study includes improvements in the construction of the Sapaesan tunnel such as increasing excavation length and changing excavation sequence. In this paper the system for predicting tunnel face ahead is also introduced. Bulk-Emulsion explosive and Cylinder-Cut method were adopted in tunnel blasting to increase the excavation length. Optimum tunnel excavation step was designed to make up delayed time. Tunnel foe mapping, TSP survey and geological prediction system using computerized jumbo-drill were performed fnr safe construction of long and large twin tube tunnel.

Mapping of the Reduced Culm Number Trait in Rice (Oryza sativa L.) rcn10(t) Mutant

  • Yeo, Un-Sang;Lee, Jong-Hee;Kim, Choon-Song;Jeon, Meong-Gi;Oh, Tae-Yong;Han, Chang-Deok;Shin, Mun-Sik;Oh, Byeong-Geun
    • Korean Journal of Breeding Science
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    • v.40 no.3
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    • pp.223-227
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    • 2008
  • In rice, tillering is an important trait determining yield. To study tillering at the agricultural and molecular aspects, we have examined a spontaneous rice mutant that showed reduction in the number of culms. The mutant was derived from a $F^6$ line of the cross of Junambyeo*4 / IR72. It could produce, on average, 4 tillers per hill in the paddy field while wild-type plants usually have 15. Except the reduced culm numbers, they also show pale green phenotypes. The phenotypes of this mutant were co-segregated as the monogenic Mendelian ratio (${\chi}^b=0.002$, p=0.969). In order to locate a gene responsible for the rcn phenotype, the mutant with the japonica genetic background was crossed with Milyang21 of the indica background. Bulked segregant analysis was used for rapid determination of chromosomal location. Three SSR markers (RM551, RM8213, and RM16467) on chromosome 4 were genetically associated with the mutant phenotype. Each of the 217 $F_2$ plants was genotyped with simple sequence length polymorphisms. The data showed that RM16572 on chromosome 4 was the closest marker that showed perfect co-segregation among the $F_2$ population. We suggest the new rcn gene studied here name as $rcn10^t$ because there was no report which exhibit a rcn phenotype with a pleiotropic effect of pale green (chlorophyll deficiency), and mapped at same position on chromosome 4.