• Journal of Microbiology and Biotechnology
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• 제23권4호
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• pp.459-466
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• 2013

The lactic acid bacterium Streptococcus thermophilus is widely used as a starter culture for the production of dairy products. Whole-genome sequencing is expected to utilize the genetic basis behind the metabolic functioning of lactic acid bacterium (LAB), for development of their use in biotechnological and probiotic applications. We sequenced the whole genome of Streptococcus thermophilus MTCC 5461, the strain isolated from a curd source, by 454 GS-FLX titanium and Ion Torrent PGM. We performed comparative genome analysis using the local BLAST and RDP for 16S rDNA comparison and by the RAST server for functional comparison against the published genome sequence of Streptococcus thermophilus CNRZ 1066. The whole genome size of S. thermophilus MTCC 5461 is of 1.73Mb size with a GC content of 39.3%. Streptococcal virulence-related genes are either inactivated or absent in the strain. The genome possesses coding sequences for features important for a probiotic organism such as adhesion, acid tolerance, bacteriocin production, and lactose utilization, which was found to be conserved among the strains MTCC 5461 and CNRZ 1066. Biochemical analysis revealed the utilization of 17 sugars by the bacterium, where the presence of genes encoding enzymes involved in metabolism for 16 of these 17 sugars were confirmed in the genome. This study supports the facts that the strain MTCC 5461 is nonpathogenic and harbors essential features that can be exploited for its probiotic potential.

• 대한전자공학회논문지SP
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• 제42권4호
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• pp.133-142
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• 2005

본 논문에서는 디지털 컨텐츠 보호 기술 중 하나인 두 가지 디지털 비디오 스크램블링 방법을 제안한다. 그 중 한 가지는 움직임 벡터를 이용하여 인터 블록을 왜곡하는 스크램블링 방법이며, 다른 한 가지는 H.264 비디오 압축 기술의 인트라 예측모드를 이용하여 인트라 블록을 왜곡하는 스크램블링 방법이다. 움직임 벡터를 이용한 스크램블링 방법은 움직임 벡터의 수평값과 수직값을 교환하는 것으로 MPEG-1, 2, 4, H.264와 같은 대부분의 비디오 압축 기술에 적용 가능하다. 인트라 예측 모드를 이용한 방법은 H.264 비디오 압축 기술의 특징인 인트라 예측 부호화를 이용한 것으로, 인트라 예측 부호화시 발생하는 인트라 예측 모드를 통상적인 복호화가 가능하며 비트율의 변화가 없는 범위 내에서 랜덤하게 변경하는 것이다. 두 가지 방법 모두 스크램블링으로 인한 압축 효율의 저하가 전혀 없으며, XOR과 같은 매우 간단한 연산만으로 구현이 가능하므로 계산량의 증가가 적다. 뿐만 아니라, 인트라 블록 스크램블링의 경우 인터 블록에 대한 직접적인 왜곡 없이 에러 전파 효과로 인해 간접적으로 인터 블록을 왜곡할 수 있는 장점을 갖고 있다. 본 논문에서는 이와 같은 두 가지 새로운 디지털 비디오 스크램블링 방법을 제안하고, 이에 대한 실험 결과를 통해 제안된 알고리듬의 효율성을 보인다.

• 한국자원식물학회:학술대회논문집
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• 한국자원식물학회 2019년도 춘계학술대회
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• pp.71-71
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• 2019

The genus Cenchrus (Poaceae), containing ca. 23 species, is distributed throughout Australia, Africa, Indian sub-continent, and America. In Korea, Cenchrus longispinus (Hack.) Fernald, especially introduced to Daecheong Island in 1999, is one of the most hazardous invasive plant which causes serious environmental threats, biodiversity damages and physically negative impact on humans and animals. Based on the next-generation sequencing (NGS) technology, we characterized the chloroplast (cp) genome sequences of C. longispinus which contains a large single copy (LSC; 80,223 bp), a small single copy (SSC; 12,449 bp), separated by a pair of inverted repeats (IRs; 22,236 bp). Additionally, we analyzed the cp genome sequences of Cenchrus echinatus L. which contains a large single copy (LSC; 80,220 bp), a small single copy (SSC; 12,439 bp), separated by a pair of inverted repeats (IRs; 22,236 bp). These cp genomes consist of 75 unique genes, 4 rRNA coding genes, 33 tRNA coding genes and 21 duplicated in the IR regions, of which the gene content and organization are similar to the other Poaceae cp genomes. We selected 40 potential regions in cp genomes of two Cenchrus species and one Korean Pennisetum species to develop new single nucleotide polymorphism (SNP) markers for identifying C. longispinus based on amplification-refractory mutation system (ARMS) technique. The markers, inferred from SNP in matK and ndhF genes, show effectiveness to recognize C. longispinus from C. echinatus and Korean native species Pennisetum alopecuroides (L.) Spreng.

• Journal of Animal Science and Technology
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• 제65권1호
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• pp.183-196
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• 2023

Interferon-alpha inducible protein 6 (IFI6) is an interferon-stimulated gene (ISG), belonging to the FAM14 family of proteins and is localized in the mitochondrial membrane, where it plays a role in apoptosis. Transcriptional regulation of this gene is poorly understood in the context of inflammation by intracellular nucleic acid-sensing receptors and pathological conditions caused by viral infection. In this study, chicken IFI6 (chIFI6) was identified and studied for its molecular features and transcriptional regulation in chicken cells and tissues, i.e., lungs, spleens, and tracheas from highly pathogenic avian influenza virus (HPAIV)-infected chickens. The chIFI6-coding sequences contained 1638 nucleotides encoding 107 amino acids in three exons, whereas the duck IFI6-coding sequences contained 495 nucleotides encoding 107 amino acids. IFI6 proteins from chickens, ducks, and quail contain an IF6/IF27-like superfamily domain. Expression of chIFI6 was higher in HPAIV-infected White Leghorn chicken lungs, spleens, and tracheas than in mock-infected controls. TLR3 signals regulate the transcription of chIFI6 in chicken DF-1 cells via the NF-κB and JNK signaling pathways, indicating that multiple signaling pathways differentially contribute to the transcription of chIFI6. Further research is needed to unravel the molecular mechanisms underlying IFI6 transcription, as well as the involvement of chIFI6 in the pathogenesis of HPAIV in chickens.

• International Journal of Industrial Entomology and Biomaterials
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• 제46권2호
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• pp.41-54
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• 2023

The blue-tailed damselfly, Ischnura elegans Van der Linden, 1820 (Odonata: Coenagrionidae), is a climate-sensitive indicator species in South Korea. In this study, we sequenced the complete mitochondrial genome (mitogenome) of I. elegans collected from South Korea for subsequent population genetic analysis, particularly to trace population movements in response to climate change. The 15,963 base pair (bp)-long complete mitogenome of I. elegans has typical sets of genes including a major non-coding region (the A+T-rich region), and an arrangement identical to that observed in ancestral insect species. The ATP6, ND3 and ND1 genes have the TTG start codon, which, although rare, is the canonical start codon for animal mitochondrial tRNA. The A/T content was 71.4% in protein-coding genes, 72.1% in tRNAs, 72.9% in the whole genome, 74.7% in srRNA, 75.3% in lrRNA, and 83.8% in the A+T-rich region. The A+T-rich region is unusually long (1,196 bp) and contains two subunits (192 bp and 176-165 bp), each of which is tandemly triplicated and surrounded by non-repeat sequences. Comparison of the sequence divergence among available mitogenomes of I. elegans, including the one from the current study, revealed ND2 as the most variable gene, followed by COII and COI, suggesting that ND2 should be targeted first in subsequent population-level studies. Phylogenetic reconstruction based on all available mitogenome sequences of Coenagrionidae showed a strong sister relationship between I. elegans and I. senegalensis.

• 한국해양생명과학회지
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• 제1권2호
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• pp.88-94
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• 2016

Determining the infection history of living organisms is essential for understanding the evolution of infection agents with their host, particularly for key aspects such as immunity. Viruses, which can spread between individuals and often cause disease, have been widely examined. The increasing availability of fish genome sequences has provided specific insights into the diversity and host distribution of retroviruses in fish. The shortspine spurdog (Squalus mitsukurii) is an important elasmobranch species; this medium-sized dogfish typically lives at depths of 100~500 m. However, the retroviral envelope polyprotein in dogfish has not been examined. Thus, the aim of the present study was to identify and analyze the retroviral envelope polyprotein in various tissues of dogfish. The 1334-base pair full-length novel cDNA of dogfish envelope polyprotein (dEnv) was obtained by 3' and 5'-rapid amplification of cDNA end analysis from S. mitsukurii. The open reading frame showed a complete coding sequence of 815 base pairs with a deduced peptide sequence of 183 amino acids that exhibited 34~50% identity with other fish and bird species. It was also expressed according to reverse transcription and real-time polymerase chain reaction in the kidney, liver, intestine, and lung, but not in the gill. This distribution can be assessed by identifying and analyzing endogenous retroviruses in fish, which consists of three main genes: gag, pol and env. Dogfish envelope polyprotein sequence is likely important in evolution and induces rearrangements, altering the regulatory and coding sequences. This is the first report of the identification and molecular characterization of retroviral envelope polyprotein in various tissues of S. mitsukurii.

• 방송공학회논문지
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• 제9권3호
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• pp.214-224
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• 2004

본 논문에서는 차세대 실감형 3차원 영상 처리와 3차원 TV 3차원 화상회의 등과 같은 3차원 실감 미디어의 부호화에 적합한 H.264 기반의 적응적 시공간적 예측 부호화를 제안한다. 첫 번째로, 두 가지의 IPPP와 IBBP GOP(group of picture) 구조에서 기존의 동시방송(simulcast) 방식과 다르게 same-view와 inter-view 영상의 적응적 시공간적 예측 부호화를 제안한다. 두 번째로, GOP 구조가 IBBP에서 제안된 inter-view 방식의 예측 부호화시 B(hi-predictive) 화면이 MB(macroblock) 모드중 하나인 시간적 직접방식(temporal direct mode)을 수행하려고 할 때 참조 화면이 inter-view 영상을 참조하는 경우 현재의 시간적 직접 방식을 효율적으로 수행하기 위해서 2차원 inter-view 직접 방식을 제안한다. 제안된 방식은 실험결과에서 기존의 동시방송 방식과 비교되었으며 각각의 GOP 구조 모두 화질 면에서 우수한 결과를 확인할 수 있었다.

• Molecules and Cells
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• 제23권1호
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• pp.80-87
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• 2007

Beet curly top virus (BCTV) and Beet severe curly top virus (BSCTV), members of curtoviruses, encode seven open reading frames (ORFs) within a ~3 kb genome. One of these viral ORFs, C1, is known to play an important role in the early stage of viral infection in plants during initiation of viral DNA replication. We used promoter:: reporter (${\beta}$-glucuronidase) gene fusions in transgenic Arabidopsis to identify the putative promoter region of BCTV ORF C1. Unlike other geminiviruses, the intergenic region of BCTV was not sufficient to promote C1 expression in transgenic plants. When sequences extending into the coding region of C1 were tested, strong expression of the reporter protein was observed in vascular tissues of transgenic plants. This expression was not dependent on the presence of the intergenic regions or proximal 5' portions of the C1 coding region. Transgenic plants expressing a reporter gene under control of the putative complete C1 promoter were inoculated with virus to determine if any viral transcript affected C1 expression. Virus inoculated plants did not show any altered pattern or change in of reporter gene expression level. These results suggest that (1) important transcriptional activator elements for C1 expression reside in the 3' portion of C1 coding area itself, (2) C1 protein does not auto-regulate its own expression and (3) C1 expression of two curtoviruses is controlled differently compared to other geminiviruses.

• 방송공학회논문지
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• 제16권4호
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• pp.624-634
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• 2011

최근 차세대 비디오 코딩 표준화를 위해 JCT-VC에서 HEVC라 불리는 새로운 비디오 압축 표준 기술을 개발하고 있다. HEVC는 H.264/AVC보다 높은 성능을 갖는 많은 부호화 기술을 채택하였다. 그중 색차 신호를 보간할 때 H.264/AVC에서 사용된 선형필터보다 좋은 성능을 가지는 DCT 기반으로 한 보간 필터를 사용하고 있다. 본 논문에서는 H.264/AVC에서 사용된 FIR필터와 선형필터를 통합한 필터를 제안하여 부호화 효율을 높이는 방법을 제안한다. 제안하는 방법과 DCT 기반으로 한 보간 필터와 비교하였을 때 실험결과로 제안한 방법은 random access구조의 high efficiency 경우 색차성분 U,V에서 각각 평균 0.9%, 1.1%의 BD-rate가 감소하였고,random access의 low complexity 구조인 경우 색차성분 U,V에서 각각 평균 1.1%, 1.1%의 BD-rate가 감소하였고, low delay의 high efficiency 구조인 경우 색차성분 U,V에서 각각 평균 0.9%, 1.4%의 BD-rate가 감소하였고, low delay 구조의 low complexity인 경우 색차성분 U,V에서 각각 평균 1.8%, 1.8%의 BD-rate가 감소하였다.

• 한국통신학회논문지
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• 제31권3C
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• pp.271-278
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• 2006

비트율-왜곡 최적화 기법은 H.264/AVC(Advance Video Coding)의 부호화 효율을 높이기 위한 방법이긴 하나 모드 결정 과정 중 부호화기의 복잡도를 높아지는 단점이 있다. 많은 고속화 모드결정 연구들이 모드결정의 복잡도를 줄이기 위하여 제안되어져 왔었다. 본 논문에서는 H.264/AVC의 모드결정의 전체적인 복잡도를 줄이기 위하여 다중 참조 영상 선택 고속화 알고리즘과 선택적인 인트라 모드 선택 알고리즘의 두 가지 고속화 알고리즘을 제안한다. 참조영상 선택 고속화 알고리즘은 인터 모드 결정에 효과적이며, 선택적인 인트라 모드 선해 알고리즘은 과도한 인트라 모드 결정의 계산량을 효율적으로 감소시켰다. 제안된 알고리즘을 실험한 결과로 평균 44.63%의 부호화 시간 감소비를 보이면서 영상의 열화와 같은 부호화 효율 감소는 거의 눈에 띄지 않았다.