• Asian-Australasian Journal of Animal Sciences
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• 제31권1호
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• pp.13-18
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• 2018

Objective: Meat quality including muscle color in chickens is an important trait and continuous selective pressures for fast growth and high yield have negatively impacted this trait. This study was conducted to investigate genetic variations responsible for regulating muscle color. Methods: Whole genome re-sequencing analysis using Illumina HiSeq paired end read method was performed with pooled DNA samples isolated from two broiler chicken lines divergently selected for muscle color (high muscle color [HMC] and low muscle color [LMC]) along with their random bred control line (RAN). Sequencing read data was aligned to the chicken reference genome sequence for Red Jungle Fowl (Galgal4) using reference based genome alignment with NGen program of the Lasergene software package. The potential causal single nucleotide polymorphisms (SNPs) showing non-synonymous changes in coding DNA sequence regions were chosen in each line. Bioinformatic analyses to interpret functions of genes retaining SNPs were performed using the ingenuity pathways analysis (IPA). Results: Millions of SNPs were identified and totally 2,884 SNPs (1,307 for HMC and 1,577 for LMC) showing >75% SNP rates could induce non-synonymous mutations in amino acid sequences. Of those, SNPs showing over 10 read depths yielded 15 more reliable SNPs including 1 for HMC and 14 for LMC. The IPA analyses suggested that meat color in chickens appeared to be associated with chromosomal DNA stability, the functions of ubiquitylation (UBC) and quality and quantity of various subtypes of collagens. Conclusion: In this study, various potential genetic markers showing amino acid changes were identified in differential meat color lines, that can be used for further animal selection strategy.

• Ocean and Polar Research
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• 제27권2호
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• pp.205-214
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• 2005

From ancient Antarctic glacier ice, we extracted total genomic DNA that was suitable for prokaryotic 16S rDNA gene cloning and sequencing, and bacterial artificial chromosome (BAC) library and end-sequencing. The ice samples were from the Dry Valley region. Age dating by $^{40}Ar/^{39}Ar$ analysis on the volcanic ashes deposited in situ indicated the ice samples are minimum 100,000-300,000 yr (sample DLE) and 8 million years (sample EME) old. Further assay proved the ice survived freeze-thaw cycles or other re-working processes. EME, which was from a small lobe of the basal Taylor glacier, is the oldest known ice on Earth. Microorganisms, preserved frozen in glacier ice and isolated from the rest of the world over a geological time scale, can provide valuable data or insight for the diversity, distribution, survival strategy, and evolutionary relationships to the extant relatives. From the 16S gene cloning study, we detected no PCR amplicons with Archaea-specific primers, however we found many phylotypes belonging to Bacteria divisions, such as Actinobacteria, Acidobacteria, Proteobacteria $({\alpha},\;{\beta},\;and\;{\gamma})$, Firmicutes, and Cytophaga-Flavobacterium-Bacteroid$. BAC cloning and sequencing revealed protein codings highly identical to phenylacetic acid degradation protein paaA, chromosome segregation ATPases, or cold shock protein B of present day bacteria. Throughput sequencing of the BAC clones is underway. Viable and culturable cells were recovered from the DLE sample, and characterized by their 16S rDNA sequences. Further investigation on the survivorship and functional genes from the past should help unveil the evolution of life on Earth, or elsewhere, if any.

• Journal of Technology Innovation
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• 제13권2호
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• pp.1-22
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• 2005

This paper adopts an embeddedness perspective and discusses rationales for government intervention in relation to economic development. Looking at East Asian experiences with industrial and technology policy the paper examines the general requirements, specific areas of focus and appropriate techniques for industrial and technology policy. Eight generic policy requirements are identified, viz. government capacity; monitoring and adjustment; policy sequencing; incremental upgrading; progressive market reliance; performance-orientation; selectivity; and flexibility.

• Proceedings of the Korean Society of Machine Tool Engineers Conference
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• 한국공작기계학회 2004년도 추계학술대회 논문집
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• pp.439-444
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• 2004

A new efficient intelligent machining strategy named the Steepest Directed Tree method is presented in this study, which makes surface model discrete with triangulation meshes and the cutter paths track along the tree directions. In order to formulate these algorithms practically, it is deduced the multi-stage machining approach of uncut volume caused by cutter gouging in the course of milling using flat end mill. It is systematized the checking process the cutter interference by grouping the 6 kinds of gouging types, which yields the environment of connectivity data lists including CL-data, and then the multi-stage machining strategy, that minimizes uncut area by continuously sequencing the generative subsequent CL-paths, is shamed to determine the second tool path for the next uncut area and to compose the operating multi-stage cutting processes. The completed machining system of curved surfaces is evaluated by testing the practical machining experiments which have various kinds of shape conditions.

• 대한공업교육학회지
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• 제30권1호
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• pp.133-148
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• 2005

This research attempts to establish a strategy through which to secure the introduction of the KEM 2.0 system. Another aim of this research is to eventually establish a service system which can be used to automatically generate and provide the metadata information contained in the Cylearn system. in order to facilitate Korean vocational high school students access to teaching-learning materials. The main research tasks associated with this research were: 1) To establish the components of the file server system while taking into consideration the environment in which each educational organization operates; 2) To utilize the KEM 2.0 in order to optimize the configuration of the Cylearn system and the related software. To do so, the KEM 2.0. should be applied in close coordination with Edunet: The results of this research can be summarized as follows: First, a strategy to introduce the KEM 2.0 was established. To achieve this, the researcher analyzed the characteristics of the sequencing and presentation methods and suggested teaching-learning materials based on the KEM 2.0.s sequencing system. Second, the file server was constructed using the KEM 2.0. The established file server took into account the environmental conditions in which the Edunet system operates so as to facilitate the creation of a network system with Edunet. Third, the Cylearn service system was linked to Edunet. The researcher developed a module using the KEM 2.0. that could be used to transmit the metadata related to teaching-learning materials to Edunet. To achieve this, an input device and a databank which could be used to transfer the generated metadata to Edunet were developed. The input device and databank developed using the KEM 2.0. were used to transfer the metadata to Edunet by linking the Cylearn system to the Edunet system.

• Genomics & Informatics
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• 제10권4호
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• pp.249-255
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• 2012

In this study, fosmid cloning strategies were used to assess the microbial populations in water from the International Space Station (ISS) drinking water system (henceforth referred to as Prebiocide and Tank A water samples). The goals of this study were: to compare the sensitivity of the fosmid cloning strategy with that of traditional culture-based and 16S rRNA-based approaches and to detect the widest possible spectrum of microbial populations during the water purification process. Initially, microbes could not be cultivated, and conventional PCR failed to amplify 16S rDNA fragments from these low biomass samples. Therefore, randomly primed rolling-circle amplification was used to amplify any DNA that might be present in the samples, followed by size selection by using pulsed-field gel electrophoresis. The amplified high-molecular- weight DNA from both samples was cloned into fosmid vectors. Several hundred clones were randomly selected for sequencing, followed by Blastn/Blastx searches. Sequences encoding specific genes from Burkholderia, a species abundant in the soil and groundwater, were found in both samples. Bradyrhizobium and Mesorhizobium, which belong to rhizobia, a large community of nitrogen fixers often found in association with plant roots, were present in the Prebiocide samples. Ralstonia, which is prevalent in soils with a high heavy metal content, was detected in the Tank A samples. The detection of many unidentified sequences suggests the presence of potentially novel microbial fingerprints. The bacterial diversity detected in this pilot study using a fosmid vector approach was higher than that detected by conventional 16S rRNA gene sequencing.

• ALGAE
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• 제28권1호
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• pp.31-43
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• 2013

This review provides a comprehensive summary of the PCR primers and profiles currently in use in our laboratory for red algal DNA barcoding and phylogenetic research. While work focuses on florideophyte taxa, many of the markers have been applied successfully to the Bangiales, as well as other lineages previously assigned to the Bangiophyceae sensu lato. All of the primers currently in use with their respective amplification profiles and strategies are provided, which can include full fragment, overlapping fragments and what might best be called "informed overlapping fragments", i.e., a fragment for a marker is amplified and sequenced for a taxon and those sequence data are then used to identify the best primers to amplify the remaining fragment(s) for that marker. We extend this strategy for the more variable markers with sequence from the external PCR primers used to "inform" the selection of internal sequencing primers. This summary will hopefully serve as a useful resource to systematists in the red algal community.

• Fisheries and Aquatic Sciences
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• 제20권10호
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• pp.26.1-26.9
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• 2017

Fishes in genus Sardinella are small pelagic species, which plays an important role in marine ecosystem as the first consumer. Those species are also commercially important, whose total catch reaches 278,600 tons in 2011 in Indonesia, but their identification has been difficult for their morphological similarity. In this study, we reported Sardinella jussieu for the first time in Indonesian coastal area (Banten Bay, Indonesia, $6^{\circ}\;0^{\prime}\;50.00^{{\prime}{\prime}}\;S-106^{\circ}\;10^{\prime}\;21.00^{{\prime}{\prime}}\;E$). We were able to confirm the species by both its morphological characteristics including the black spot at dorsal fin origin, the dusky pigmentation at caudal fin, 31 total scute numbers, and DNA sequence identity in the GenBank database by the molecular analysis. Its total mitochondrial genome was determined by the combination of next-generation sequencing and typical PCR strategy. The total mitochondrial genome of Sardinella jussieu (16,695 bp) encoded 13 proteins, 2 ribosomal RNAs, 22 transfer RNAs, and the putative control region. All protein-coding genes started with ATG and typical stop codon and ended with TAA or TAG except for ND4 in which AGA is used. Phylogenetic analyses of both COI region and full mitochondrial genome showed that S. jussieu is most closely related to Sardinella albella and Sardinella gibbosa

• Journal of Korean Institute of Industrial Engineers
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• 제25권4호
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• pp.411-420
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• 1999

A mixed model production line is a production line where a variety of product models are produced. In U-shaped production lines (called U-lines) used in just-in-time production system, the strategy of mixing product models is often used to provide various types of products to customers in time. Line balancing and model sequencing problems are important for an efficient use of mixed model U-lines. Although the two problems are tightly interrelated with each other, prior researches have considered them separately or sequentially. This paper presents a new method using a coevolutionary algorithm that can solve the two problems at the same time. To promote diversity and search efficiency, in this paper the evolutionary system is based on the localized interactions within and between populations. Methods of selecting environmental individuals and evaluating fitness are developed. Efficient genetic representations and operator schemes are also provided. When designing the schemes, we take into account the features specific to the problems. The experimental results demonstrate that the proposed algorithm is superior to existing approaches.

• Journal of Environmental Science International
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• 제28권8호
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• pp.669-676
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• 2019

The purpose of this study was to evaluate the effects of different Hydraulic Retention Times (HRTs) on the contaminant removal efficiency using Aerobic Granular Sludge (AGS). A laboratory-scale experiment was performed using a sequencing batch reactor, and the Chemical Oxygen Demand (COD), nitrogen, orthophosphate removal efficiency, AGS/MLSS ratio, and precipitability in accordance with the HRT were evaluated. As a result, the COD removal efficiency was not significantly different with the reduction in HRT, and at a HRT of 6 h, the removal rate was slightly increased owing to the increase in organic loading rate. The nitrogen removal efficiency was improved by injection of influent division at a HRT of 6 h. As the HRT decreased, the MLSS and AGS tended to increase, and the sludge volume index finally decreased to 50 mL/g. In addition, the size of the AGS gradually increased to about 1.0 mm. Therefore, the control of HRT provides favorable conditions for the stable formation of AGS, and is expected to improve the contaminant removal efficiency with the selection of a proper operation strategy.