• Genomics & Informatics
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• v.14 no.1
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• pp.29-33
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• 2016

A retron is a bacterial retroelement that encodes an RNA gene and a reverse transcriptase (RT). The former, once transcribed, works as a template primer for reverse transcription by the latter. The resulting DNA is covalently linked to the upstream part of the RNA; this chimera is called multicopy single-stranded DNA (msDNA), which is extrachromosomal DNA found in many bacterial species. Based on the conserved features in the eight known msDNA sequences, we developed a detection method and applied it to scan National Center for Biotechnology Information (NCBI) RefSeq bacterial genome sequences. Among 16,844 bacterial sequences possessing a retron-type RT domain, we identified 48 unique types of msDNA. Currently, the biological role of msDNA is not well understood. Our work will be a useful tool in studying the distribution, evolution, and physiological role of msDNA.

• Journal of Korea Entertainment Industry Association
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• v.14 no.7
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• pp.309-318
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• 2020

This research studies the specific cases of how Hayao Miyazaki re-arranges Hollywood's conservative storytelling model, such as the three-act, eight-sequences structure, and the use of antagonist and antagonistic force, and how he applies them into his fairytale-like narratives to increase the attention of the audience. At the same time, this research also studies the cases of how fairytale-like characters of Miyazaki's storytelling make up for the drawbacks caused by the re-arranged narrative structure and the relationship between the characters, to make the audience keep track to follow the protagonist's journey. This research focuses on the re-arrangement of the three-act structure and the eight-sequences structure. For the details, this research focuses on the alternative use of antagonistic force in My Neighbor Totoro and the cases of antagonists turning to the protagonists' side around the mid-point in Spirited Away and Howl's Moving Castle. Also, the study shows how Miyazaki expands the second act (the third to the sixth sequence) and shortens the third act (the seventh to the eighth sequence) to earn the time for the audience to be in the same position with the protagonist, and how the fairytale-like characters of these films make up for the disadvantages caused by the shortened third act.

• Journal of Life Science
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• v.13 no.6
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• pp.958-969
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• 2003

The human Y chromosome is strictly paternally inherited and does not X-Y crossing over during male meiosis in most of its length. Although this region came to be known as the non-recombining region Y (NRY), it was renamed as male-specific region Y (MSY) due to abundant recombination. The MSY is a mosaic of heterochromatic sequences and three classes of euchromatic sequences: X-transposed, X-degenerated and ampliconic. The X-transposed sequences exhibit 99% identity to the X chromosomal sequences. The X-degenerate sequences are remnants of ancient autosomes from which the modem X and Y chromosomes evolved. Eight palindromes of the ampliconic comprise one-quarter of the euchromatic DNA of the male-specific region of the human Y chromosome. They contain many testis-specific genes and typically exhibit 99.97% intra-palindromic (arm-to-arm) sequence identity. The arms of these palindromes must have subsequently engaged in gene conversion, driving the pair arms to evolve it concert. Averages of approximately 600 nucleotides per newborn male have undergone Y-Y gene conversion, which has had an important role in the evolution of multi-copy testis gene families in the MSY.

• Toxicological Research
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• v.8 no.2
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• pp.331-342
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• 1992

The chicken major histocompatibility complex (MHC), the B complex, is beginning to be analyzed at the DNA level. Inbred lines of chickens have been reported to possess 3~5 MHC class II genes. To further analyzed the molecular structure of the chicken MHC class II genes, cDNA clones coding for chicken MHC class II (B-L) ${\beta}$ chain molecules were isolated from chicken spleen and liver. Tissue-specific transcription of B-L ${\beta}$genes was studied by Northern blot analysis. A high level of expression was detected for spleen poly(A)$^+$ RNA whereas a faint signal was detected for liver poly(A)$^+$ RNA. Twenty-nine cDNA clones were isolated from the spleen and eight cDNA clones were isolated from the liver. Based on restriction maps, most clones could be clustered into one family of genes. Four cDNA clones were sequenced (S7, S10 and S19 from the spleen and L1, which was identical to S19, from the liver). Complete amino acid sequences of B-L ${\beta}$ chain molecules were predicated from the nucleotide sequences of the cDNA clones. Although both the nature and the location of the conserved residues were similar in chicken and mammalian sequences, some species-specific differences were found, suggesting that the structures of the B-L molecules are similar, but not identical to their mammalian counterparts.

• Journal of Plant Biotechnology
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• v.35 no.4
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• pp.317-327
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• 2008

Phytocystatins, which are inhibitors of plant cysteine peptidases, are involved in the regulation of protein turnover and in the defense against insect pests and pathogens. Extensive searches in the Brassica rapa genome allowed the prediction of at least eight different phytocystatin genes on seven chromosomes in the B. rapa genome. Structure comparisons based on alignments of the all BrCYS ($\underline{B}$. $\underline{r}apa$ $phyto{\underline{cys}}tatin$) proteins using the CLUSTALW program revealed conservation of the three consensus motifs known to interact with the active site of cysteine peptidases. According to the phylogenetic analysis based on the deduced amino acid sequences, the eight BrCYS proteins were divided into several clusters related to the orthologous phytocystatin. The predicted three-dimensional structure models of the eight BrCYS proteins demonstrate that all of these proteins are similar to the reported crystal structure of oryzacystatin-I (OC-I). Digital northern and RT-PCR analyses indicated that the eight BrCYS genes exhibit different expression patterns in B. rapa tissues and respond differently to abiotic stimuli. The differences in gene structure and expression between the eight BrCYS genes suggest that these proteins may play diverse physiological roles in B. rapa and may interact with cysteine peptidases through different mechanisms.

• Journal of The Korean Astronomical Society
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• v.44 no.1
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• pp.13-21
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• 2011

We model dust around Herbig Ae/Be stars using a radiative transfer model for multiple isothermal circumstellar dust shells to reproduce the multiple broad peaks in their spectral energy distributions (SEDs). Using the opacity functions for various types of dust grains at different temperatures, we calculate the radiative transfer model SEDs for multiple dust shells. For eight sample stars, we compare the model results with the observed SEDs including the Infrared Space Observatory (ISO) and AKARI data. We present model parameters for the best fit model SEDs that would be helpful to understand the overall structure of dust envelopes around Herbig Ae/Be stars. We find that at least four separate dust components are required to reproduce the observed SEDs. For all the sample stars, two innermost dust components (a hot component of 1000-1500 K and a warm component of 300-600 K) with amorphous silicate and carbon grains are needed. Crystalline dust grains (corundum, forsterite, olivine, and water ice) are needed for some objects. Some crystalline dust grains exist in cold regions as well as in hot inner shells.

• Proceedings of the Korean Institute of Intelligent Systems Conference
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• 1998.10a
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• pp.255-262
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• 1998

This paper presents a translation, rotation and scale invariant methodology for the recognition of closed planar shape images using the bispectrum of a contour sequence and the learning vector quantization(LVQ) neural classifier. The contour sequences obtained from the closed planar images represent the Euclidean distance between the centroid and all boundary pixels of the shape, and are related to the overall shape of the images. The higher order spectra based on third order cumulants is applied to tihs contour sample to extract fifteen bispectral feature vectors for each planar image. There feature vector, which are invariant to shape translation, rotation and scale transformation, can be used to represent two0dimensional planar images and are fed into a neural network classifier. The LVQ architecture is chosen as a neural classifier because the network is easy and fast to train, the structure is relatively simple. The experimental recognition processes with eight different hapes of aircraft images are presented to illustrate the high performance of this proposed method even the target images are significantly corrupted by noise.

• Journal of the Korean Institute of Traditional Landscape Architecture
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• v.37 no.4
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• pp.32-50
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• 2019

The present study examines the circumstances around the establishment of the Seonyu Eight Scenic Spots (仙遊八景) in Gogunsan Islands and the characteristics of the landscape of each viewing point. The study conclusions are as follows. First, since the scenic spots were first established in 1969, their content and sequences have been changed several times, and their names have also been changed to some extent. Until the 1970s, these scenic spots did not have official names for them and were often specified as 'Gogunsan Eight Scenic Spots', and excluded 'the Musan Twelve Peaks (巫山十二峰)'. In addition, viewing points of the eight scenic spots varied across periods. This suggests that, for the early form of Seonyu Eight Scenic Spots, the picturesque scenery of Gogunsan Islands, and Seonyudo Island in particular, was chosen, while eight scenic spots in its vicinity were regarded. Second, the Seonyu Eight Scenic Spots of the early 2000s, which has all eight scenic spots of now, follows the nomenclature of the traditional eight scenic spots by specifying the sequence number with a refined name in four syllables. Its first scenic spot was Mangju Waterfall (望主瀑布) and its eighth scenic spot was Seonyu Sunset (仙遊落照); currently, the first scenic spot is Seonyu Sunset and the second scenic spot is Mangju Waterfall. Such change in the sequence of viewing points resulted from differences in representative landscape resources between the periods. Third, the lack of structure and finesse due to continuous changes is directed related to the identity issue of the Seonyu Eight Scenic Spots. Above all, it is unclear by whom and when Seonyu Eight Scenic Spots was established, and there are clear traces of following the eight scenic spots in the neighboring areas such as Okgu (沃溝) and Impi (臨陂)'s Eight Scenic Spots. Moreover, it is evaluated to have an unrefined, incomplete structure due to the lack of clarity in the knowledge and information about viewing objects, when to view, and historical and cultural background. Fourth, the first scenic spot, Seonyu Sunset, has the image that dominates the entire Eight Scenic Spots. The temporary landscape, the sunset, became the best view because it was perceived as the entirety of the landscape created by the fusion of the beautiful natural elements of Seonyudo Island. Therefore, there is ample room for raising the value of other landscape resources of Gogunsan Islands by utilizing the existing perception of exploring the entire landscape of Seonyudo Island and Gogunsan Islands starting with Seonyu Sunset. This likely requires additional work to imbue each viewing point with identity and completion.

• Korean Journal of Environment and Ecology
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• v.29 no.5
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• pp.693-702
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• 2015

In order to identify the species and to reveal the phylogenetic relationship of rook populations found in Jeju-do Province in winter seasons, we determined the sequences of mitochondrial cytochrome c oxidase I (COI) gene and analyzed the genetic structure of maternal lineages and phylogenetic relationship. The rook DNAs were isolated from the post-mortem specimens and plumages collected from agricultural farms in Jeju-do Province including U-do Island. The obtained COI sequences (n=41) showed over 97.0% identities with those previously reported from Corvus frugeligus. Three COI haplotypes (J01-J03) were detected from COI sequences of the rooks obtained in Jeju-do Province but those did not show the site-specific patterns, showing that they might be derived from a common maternal origin. Eight maternal haplotypes were detected from all COI sequences obtained. Among those three haplotypes contained the COI sequences from Northeast Asia including eastern Russia, Mongolia and South Korea. On the other hand, the other five haplotypes contained the COI sequences reported from Central Asia, Middle East, western Russia and European countries. The COI sequences from Jeju-do Province were located on three haplotypes (CF01-CF03) belonging to Northeast Asian rook lineages. The NJ tree showed the distinct branch patterns suggesting two different maternal lineages of C. frugilegus, which proposed as two parapatric subspecies, C. f. frugilegus (Western) and C. f. pastinator (Eastern). These findings using DNA barcoding approaches will be contributed to provide the information about avian fauna for understanding the genetic structure of maternal lineage, phylogenetic relationship and their molecular ecology.

• Fisheries and Aquatic Sciences
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• v.27 no.3
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• pp.145-158
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• 2024

Life history characteristics, habitat landscape, and historical events are believed to have shaped the patterns of genetic variation in many taxa. The bony lip barb, Osteohilus vittatus, represent a potamodromous fish that complete all life cycle in freshwater and is widely distributed in Southeast Asia. It usually lives in small rivers and other freshwater habitats, and movement between habitats for either food or reproduction has been typical. These life history characteristics may promote gene flow, leading to less structured populations. However, many freshwater habitats are fragmented, which restricts gene flow. We investigate how this interplay has shaped patterns of genetic variation and phylogeographic structure within this species in the Sundaland, a biodiversity hotspot with a complex geological history, using mitochondrial cytochrome oxidase I (mtCOI) as a genetic marker. Forty-six mtCOI sequences of 506 bp long were collected from ten localities, eight geographically isolated and two connected. The sequences were used for population genetic and phylogeographic analyses. Our results showed a low genetic diversity within populations but high between populations. There was a deep phylogeographic structure among geographically isolated populations but a lack of such structure in the connected habitats. Among geographically isolated populations, sequence divergence was revealed, ranging from 1.8% between Java and Sumatra populations to 12.2% between Malaysia and Vietnam. An indication of structuring was also observed among localities that are geographically closer but without connectivity. We conclude that despite high dispersal capacity, the joint effects of historical events, long-term geographic isolation associated with sea level oscillation during the Pleistocene, and restricted gene flow related to lack of habitat connectivity have shaped the phylogeographic structure within the O. vittatus over the Sundaland.