• 한국정보과학회:학술대회논문집
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• 한국정보과학회 2012년도 한국컴퓨터종합학술대회논문집 Vol.39 No.1(B)
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• pp.357-359
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• 2012

초 고성능 바이오 서열 분석 장비 기술의 발달로 대량의 바이오 정보가 쏟아져 나오고 있으며, 바이오산업의 발달로 개인별 유전체 정보에 의한 맞춤의학의 시대가 도래되고 있다. 수많은 서열에 대한 분석에는 많은 저장장치 및 주기억장치가 필요하므로 슈퍼컴퓨터 급의 서버와 대량의 데이터를 빠르게 처리할 수 있는 프로그램이 필요하다. 이러한 분석에는 염기서열 일치 검색과 이를 기반으로 하는 Alignment와 Assembly 분석이 있으며, 이를 수행하는 기존의 알고리즘 및 대부분의 프로그램들은 염기서열을 문자열로 취급하고, 해쉬 인덱스 테이블, Brujin 그래프의 사용, 버러우즈 휠러 변환(BWT) 등의 기법을 활용하여 효율적인 분석을 도모하였다. 본 논문에서는 염기서열을 문자열이 아닌 k-mer 묶음의 정수형 하나로 변환하여 검색함으로써 저장 공간의 크기를 약 28% 이상으로 줄이고 형 변환 상태에서의 검색을 수행할 수 있는 알고리즘을 제안한다. Assembly 분석 프로그램인 CalcGen 프로그램을 개발하여 본 알고리즘의 효용성 및 효율성을 실험을 통해 검증하였다. 이 연구의 결과는 향후 대량의 유전체 염기서열의 효율적 분석과 저장 및 처리에 또 하나의 새로운 접근 방법을 제안하는데에 그 의미를 둘 수 있다.

• 한국동물학회지
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• 제38권2호
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• pp.167-176
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• 1995

Glucose-regulated proteins (grp's), srp94 3nd grp78/BiP, are a group of stress proteins which are highly synthesized in cells exposed to a variety of stressful agents including tunicamycin 3nd Ca2+ ionophore. Grp78/BiP is hon to function as a molecular chaperone which regulates the folding and assembly of secretory or membrane proteins, but the biological function of grp941 remains to be elucidated. In this study, we have examined the intracellular distribution of grV's and the function of srp94. Grp's are resident in the endoplasmic reticulum (ERI 3nd a specific sequence (Lys-Asp-Glu-Leu) at their C-terminus is known to be responsible for their retention within the ER. However, it has been unclear whether upon disturbance of cellular Caa+ homeostasis by the Ca2+ ionophore, grp94 is retained within the ER or secreted into the medium. In this study, we showed that in the presence of C3a+ ionophore, grp94 and gif78/BiP are present in the cells, mainly within the ER. We have also investigated whether grp94 might function as a molecular chaperone. Here we showed that in the immunoglobulin (Ig)-secreting hvbridom3 cells, grp94 transientlY interacts with fully glycosylated Is heavy chain, suggesting that grpg94 may be involved in facilitating the folding and assembly of Ig heavy chains.

• Journal of Animal Science and Technology
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• 제62권6호
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• pp.948-951
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• 2020

Treponema phagedenis KS1, a fastidious anaerobe, was isolated from a bovine digital dermatitis (BDD)-infected dairy cattle in Chungnam, Korea. Initial data indicated that T. phagedenis KS1 exhibited putative virulent phenotypic characteristics. This study reports the whole genome assembly and annotation of T. phagedenis KS1 (KCTC14157BP) to assist in the identification of putative pathogenicity related factors. The whole genome of T. phagedenis KS1 was sequenced using PacBio RSII and Illumina HiSeqXTen platforms. The assembled T. phagedenis KS1 genome comprises 16 contigs with a total size of 3,769,422 bp and an overall guanine-cytosine (GC) content of 40.03%. Annotation revealed 3,460 protein-coding genes, as well as 49 transfer RNA- and 6 ribosomal RNA-coding genes. The results of this study provide insight into the pathogenicity of T. phagedenis KS1.

• Korean Chemical Engineering Research
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• 제59권1호
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• pp.112-117
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• 2021

본 연구에서는 생물학적 공유결합인 다이타이로신 결합을 모방하여 비가역적 공유결합을 기반으로 한 펩타이드의 자기조립 방법을 연구하였다. 고밀도의 다이타이로신 결합을 달성하기 위해 Tyr-Tyr-Leu-Tyr-Tyr (YYLYY) 의 서열을 갖는 펩타이드 단량체를 선택하였다. 다이타이로신 결합으로 자기조립 된 펩타이드 나노입자는 가시광선 하에서 Ru(BPY)3Cl2 촉매를 사용하여 단일공정 광가교를 통해 합성되었다. 펩타이드 나노 입자의 크기에 대한 각 성분의 농도 효과는 동적 광산란, UV-Vis 분광법 및 투과 전자 현미경을 사용하여 확인하였다. 이를 통해 130 nm~350 nm범위의 펩타이드 나노입자의 크기별 최적의 합성 조건을 제시하였다.

• 우주기술과 응용
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• 제3권1호
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• pp.72-85
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• 2023

대다수 나노위성은 발사관에 수납되어 발사되며 발사관 내부의 나노위성은 수납 중에는 전원이 꺼진 상태로 보관되다가 전개와 동시에 전원이 인가된다. 이를 위하여 나노위성은 전개스위치를 필수로 장착하고 있다. 대부분의 나노위성의 전개스위치는 위성의 부팅을 담당하는 전기 스위치와 그를 조작하는 기계적 조립체로 구성된다. 위성은 본체 내부에 전기 스위치를 갖추고 있으며, 이를 누르는 기계적 구조를 통해 외부에서 스위치를 조작한다. 이러한 설계는 기계적 복잡도를 높이고 누름쇠와 본체와의 마찰과 같은 문제로 확실한 작동을 보장하기 어렵다는 단점이 있다. 본문에서는 이의 대안으로 전기스위치를 본체 바깥에 장착하여 직접 외부와 접촉하는 방식과 그 구현 사례를 소개하며 나노위성 전개스위치 구현에 관한 새로운 방법론을 제안하고자 한다.

• 한국건축시공학회:학술대회논문집
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• 한국건축시공학회 2023년도 봄 학술논문 발표대회
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• pp.253-254
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• 2023

The production plan of Precast Concrete members is closely related to the assembly plan of Precast Concrete members, and is an important management factor for the process planning of Precast Concrete construction. This may cause a delay in the construction period due to manufacturing errors occurring in the production process of members and transportation errors according to the production sequence. Therefore, it is necessary to have an efficient production plan for Precast Concrete members that can produce the necessary quantity from the point of assembly of the members and supply them in a timely manner. This study is a basic study for establishing a production plan for Precast Concrete members, and the purpose of the study is to examine the factors that affect the establishment of a production plan for Precast Concrete members. In this study, the influencing factors according to the production method and conditions when establishing a production plan for Precast Concrete members were considered. In the future, correlation analysis among influencing factors will be carried out, and it is expected that it will be used as basic data for schedule management of Precast Concrete construction and derivation of construction period calculation standards.

• Journal of Microbiology and Biotechnology
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• 제34권7호
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• pp.1544-1549
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• 2024

This study presents a fluorescent mechanism for two-step amplification by combining two widely used techniques, exponential amplification reaction (EXPAR) and catalytic hairpin assembly (CHA). Pseudomonas aeruginosa (P. aeruginosa) engaged in competition with the complementary DNA in order to attach to the aptamer that had been fixed on the magnetic beads. The unbound complementary strand in the liquid above was utilized as a trigger sequence to initiate the protective-EXPAR (p-EXPAR) process, resulting in the generation of a substantial quantity of short single-stranded DNA (ssDNA). The amplified ssDNA can initiate the second CHA amplification process, resulting in the generation of many double-stranded DNA (dsDNA) products. The CHA reaction was initiated by the target/trigger DNA, resulting in the release of G-quadruplex sequences. These sequences have the ability to bond with the fluorescent amyloid dye thioflavin T (ThT), generating fluorescence signals. The method employed in this study demonstrated a detection limit of 16 CFU/ml and exhibited a strong linear correlation within the concentration range of 50 CFU/ml to 10⁵ CFU/ml. This method of signal amplification has been effectively utilized to create a fluorescent sensing platform without the need for labels, enabling the detection of P. aeruginosa with high sensitivity.

• 한국식물병리학회:학술대회논문집
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• 한국식물병리학회 2003년도 정기총회 및 추계학술발표회
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• pp.125.3-126
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• 2003

A near full-length sequence of a new tobamovirus infecting Hibiscus rosa-sinensis L. was determined. The genome consists of 58 nucleotides (nt) 5' UTR, followed by a 4.9 kb ORF which methyl transferase helicase domain (128 kDa), readthrough protein RNA dependent RNA polymerase (RdRp) 185 kDa and a 52 kDa protein. The 128 kDa protein had a maximum homology of 51.4 ％ to TMGMV and amino acids (an) were 54.3 ％ identical to TMV- vulgare strain. The 185 kDa RdRp had a maximum homology of 53.5％ to TMV-Ob and KGMMV-Y and a 59.6％ homology at the an level to CGMMV-SH. The MP gene encodes 282 aa and its theoretical molecular weight is 30.4 kDa. The nt and an sequence identities of MP ranged from 38.8％ to 43.9％ and 30.9％ to 37.9％, respectively. The CP gene encodes 163 residues and with a theoretical molecular weight of 18.2 kDa The (nt) and aa sequences of the CP were 46.9 ％ to 51.6％ and 45.3％ to 57.1％ identical to other tobamoviruses, respectively. The predicted virion origin of assembly (OAS) was located in the CP gene. Phylogenetic trees generated based on the nt and as sequences of RdRp, MP and CP genes indicated that this new virus clustered with subgroup II tobamoviruses. Although the CP ORF of this virus shared a high nt and aa sequence identity with Sunn-hemp mosaic virus (SHMV), Western analysis showed that it is serologically unrelated to SHMV. We propose the name Hibiscus virus S (HVS) for this Singapore isolate. This is the first report on a near full-length sequence of a Tobamovirus that infects hibiscus.

• 한국축산식품학회지
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• 제33권6호
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• pp.715-722
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• 2013

Heugu (Korea Black Cattle) is one of the indigenous cattle breeds in Korea; however there has been severe lack of genomic studies on the breed. In this study, we report the first whole genome resequencing of Heugu at higher sequence coverage using Illumina HiSeq 2000 platform. More than 153.6 Giga base pairs sequence was obtained, of which 97% of the reads were mapped to the bovine reference sequence assembly (UMD 3.1). The number of non-redundantly mapped sequence reads corresponds to approximately 28.9-fold coverage across the genome. From these data, we identified a total of over six million single nucleotide polymorphisms (SNPs), of which 29.4% were found to be novel using the single nucleotide polymorphism database build 137. Extensive annotation was performed on all the detected SNPs, showing that most of SNPs were located in intergenic regions (70.7%), which is well corresponded with previous studies. Of the total SNPs, we identified substantial numbers of non-synonymous SNPs (13,979) in 5,999 genes, which could potentially affect meat quality traits in cattle. These results provide genome-wide SNPs that can serve as useful genetic tools and as candidates in searches for phenotype-altering DNA difference implicated with meat quality traits in cattle. The importance of this study can be further pronounced with the first whole genome sequencing of the valuable local genetic resource to be used in further genomic comparison studies with diverse cattle breeds.

• Mycobiology
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• 제50권4호
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• pp.254-257
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• 2022

Wolfiporia cocos is a wood-decay brown rot fungus belonging to the family Polyporaceae. While the fungus grows, the sclerotium body of the strain, dubbed Bokryeong in Korean, is formed around the roots of conifer trees. The dried sclerotium has been widely used as a key component of many medicinal recipes in East Asia. Wolfiporia cocos strain KMCC03342 is the reference strain registered and maintained by the Korea Seed and Variety Service for commercial uses. Here, we present the first draft genome sequence of W. cocos KMCC03342 using a hybrid assembly technique combining both short- and long-read sequences. The genome has a total length of 55.5 Mb comprised of 343 contigs with N50 of 332 kb and 95.8% BUSCO completeness. The GC ratio was 52.2%. We predicted 14,296 protein-coding gene models based on ab initio gene prediction and evidence-based annotation procedure using RNAseq data. The annotated genome was predicted to have 19 terpene biosynthesis gene clusters, which was the same number as the previously sequenced W. cocos strain MD-104 genome but higher than Chinese W. cocos strains. The genome sequence and the predicted gene clusters allow us to study biosynthetic pathways for the active ingredients of W. cocos.