• Genomics & Informatics
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• 제11권4호
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• pp.200-210
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• 2013

Studying biological networks, such as protein-protein interactions, is key to understanding complex biological activities. Various types of large-scale biological datasets have been collected and analyzed with high-throughput technologies, including DNA microarray, next-generation sequencing, and the two-hybrid screening system, for this purpose. In this review, we focus on network-based approaches that help in understanding biological systems and identifying biological functions. Accordingly, this paper covers two major topics in network biology: reconstruction of gene regulatory networks and network-based applications, including protein function prediction, disease gene prioritization, and network-based genome-wide association study.

• 한국동물생명공학회지
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• 제36권4호
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• pp.189-193
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• 2021

Jak-STAT pathway is required for embryogenesis, female gametogenesis, cytokine-mediated neuroprotection, diabetes, obesity, cancer, stem cell, and various tissues. The noncanonical role of Jak-STAT in mitochondria function was supported by the detection of STAT protein in mitochondria, however, several studies show that STAT protein is detected in the endoplasmic reticulum (ER), and not in mitochondria. STAT protein may alter mitochondria function without entering mitochondria, this involves regulation of fission and fusion proteins to change mitochondria morphology. However, how changes in mitochondria morphology lead to changes in mitochondria metabolism needs further investigation.

• Mass Spectrometry Letters
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• 제12권3호
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• pp.60-65
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• 2021

As a part of the Chromosome-centric Human Proteome Project (C-HPP), we have developed a few algorithms for accurate identification of missing proteins, alternative splicing variants, single amino acid variants, and characterization of function unannotated proteins. We have found missing proteins, novel and known ASVs, and SAAVs using LC-MS/MS data from human brain and olfactory epithelial tissue, where we validated their existence using synthetic peptides. According to the neXtProt database, the number of missing proteins in chromosome 11 shows a decreasing pattern. The development of genomic and transcriptomic sequencing techniques make the number of protein variants in chromosome 11 tremendously increase. We developed a web solution named as SAAvpedia for identification and function annotation of SAAVs, and the SAAV information is automatically transformed into the neXtProt web page using REST API service. For the 73 uPE1 in chromosome 11, we have studied the function annotaion of CCDC90B (NX_Q9GZT6), SMAP (NX_O00193), and C11orf52 (NX_Q96A22).

• Journal of Microbiology and Biotechnology
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• 제6권6호
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• pp.468-473
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• 1996

The genome of tomato spotted wilt virus (TSWV) is composed of three RNA segments, S, M, and L RNA and the 5.0 kb M RNA encodes two glycoproteins Gl, G2 and NSm protein of unknown function. In an effort to investigate the function of the NSm protein, antibody was raised against NSm fusion protein overexpressed in Escherichia coli. This antibody was used to detect the NSm protein by using western blot analysis and electron microscopic observation after immunogold labelling. For the cloning of the NSm gene, total RNA extracted from a TSWV infected plant was used for cDNA synthesis and polymerase chain reaction (PCR) instead of going through time-consuming virus purification. A protein band specifically reacting to the NSm antibody was detected from TSWV inoculated plants. The NSm protein was detected in the cell wall fraction and in pellet from low speed centrifugation when the infected plant tissue was fractionated into 4 fractions. In the immuno-electron microscopic observation, gold particles were found around the plasmodesmata of infected plant tissue. These results suggest that the NSm protein of TSWV plays some role in cell-to-cell movement of this virus.

• 생명과학회지
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• 제22권1호
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• pp.92-97
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• 2012

본 연구는 4주간의 유산소운동과 단백질 섭취가 흰쥐의 혈중지질, 간기능 및 면역글로불린에 미치는 영향을 구명하기 위하여 실시하였다. 실험동물은 총 24마리를 대상으로 4주간 20-30분씩 14~17 m/min의 속도로 트레드밀을 이용하여 유산소 운동을 실시하였으며, 운동단백식이군(A, n=6), 단백식이군(B, n=6), 운동군(C, n=6), 대조군(D, n=6)으로 분류하였고, 유산소 운동 4주후 혈중지질, 간기능 및 면역글로불린 농도를 측청하여 비교 분석하였다. 본 연구 결과 유산소 운동과 단백질식이를 실시 후 총콜레스테롤(TC)는 운동단백식이군이 유의하게 낮은 것으로 나타났으며, 중성지방(TG)는 운동군이 유의하게 낮았다. 고밀도지단백 콜레스테롤(HDL-C)는 운동단백식이군이 유의하게 높았으며, 저밀도지단백 콜레스테롤(LDL-C)는 운동단백식이군과 운동군이 유의하게 낮게 나타났다. 간기능에서는 운동단백식이군과 단백식이군이 유의하게 높았으며, GPT는 차이가 없었다. 면역글로불린 IgG는 운동단백식이군이 대조군보다 유의하게 높았나, IgA, IgM은 차이가 없었다. 따라서 유산소 운동과 단백섭취는 혈중지질 개선과 간기능 및 면역글로불린 IgG에 긍정적인 영향을 미쳐 심혈관 질환을 예방하고 항체 형성 인자에 영향을 주어 인체의 면역항체 형성에 효과가 있을 것으로 사료된다.

• Molecules and Cells
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• 제20권2호
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• pp.173-182
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• 2005

Heat shock protein gp96 is an endoplasmic reticulum chaperone, belonging to the HSP90 family. The function of gp96 as a molecular chaperone was discovered more than 10 years ago, but its importance has been overshadowed by the brilliance of its role in immune responses. It is now clear that gp96 is instrumental in the initiation of both the innate and adaptive immunity. Recently, the roles of gp96 in protein homeostasis, as well as in cell differentiation and development, are beginning to draw more attention due to rapid development in the structural study of HSP90 and some surprising new discoveries from genetic studies of gp96. In this review, we focus on the aspect of gp96 as an ER molecular chaperone in protein maturation, peptide binding and the regulation of its activity.

• 약학회지
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• 제52권3호
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• pp.225-231
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• 2008

To clarify effects of the structural changes of Fur protein on the resistance to metronidazole (Mtz), the mutational analysis of structure and function of the protein in Helicobacter pylori (Hp) was undertaken. It was identified that some changes in Hp Fur protein resulted in increase of resistance to Mtz, and other changes resulted in decrease of resistance. Increase of Mtz resistance came from the enzyme's decreased ability of reducing prodrug Mtz to the form of bactericidal agent. Some sites that affects Mtz resistance (i) in Fur's N terminal extension, and (ii) in its central region, which links DNA binding and Fe-binding modules were identified. It was also found that the addition of FLAG tag to Fur's C terminus also significantly impairs Fur function.

• 한국식품영양과학회지
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• 제22권1호
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• pp.15-18
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• 1993

식이성단백이 methanethiol에 의한 간기능에 어떠한 영향을 미치는지를 검토코자 흰쥐를 저단백식이(LP : casein 7%) 및 고단백식이 (HP : casein 20%)로 1개월간 성장시킨 뒤 methanethiol을 투여한 다음, 간무게, 혈청 ALT 활성을 측정하여 간기능 정도를 두 군간에 비교하였다. 동시에 이에 대한 원인을 규명하는 일환으로 간조직 중 glutahione함량과 glutathione 포함효소의 일종인 glutathione S-transferase (GST)활성을 측정하여 다음과 같은 실험 결과를 얻었다. Methanethiol 투여로 인한 대조군에 대한 간무게와 혈청 ALT활성 증가율은 LP군이 HP군보다 높았으며, 간 glutathione함량과 간 GST활성이 HP군 보다 LP군이 낮게 나타났다. 이상 성적을 종합해 볼 때 methanethiol에 의한 간 독성은 식이 중 단백함량감소에 비례해서 증가되며 이는 LP군이 HP군 보다 methanethiol해독에 관여하는 간 glutathione함량과 GST활성의 감소에 기인되기 때문인 것으로 생각된다.

• Journal of Microbiology
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• 제44권6호
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• pp.641-648
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• 2006

We previously reported that Skp1, a component of the Skp1-Cullin-F-box protein (SCF) complex essential for the timely degradation of cell cycle proteins by ubiquitination, physically interacts with Bfa1, which is a key negative regulator of the mitotic exit network (MEN) in response to diverse checkpoint-activating stresses in budding yeast. In this study, we initially investigated whether the interaction of Skp1 and Bfa1 is involved in the regulation of the Bfa1 protein level during the cell cycle, especially by mediating its degradation. However, the profile of the Bfa1 protein did not change during the cell cycle in skp1-11, which is a SKP1 mutant allele in which the function of Skp1 as a part of SCF is completely impaired, thus indicating that Skp1 does not affect the degradation of Bfa1. On the other hand, we found that the skp1-12 mutant allele, previously reported to block G2-M transition, showed defects in mitotic exit and cytokinesis. The skp1-12 mutant allele also revealed a specific genetic interaction with ${\Delta}bfa1$. Bfa1 interacted with Skp1 via its 184 C-terminal residues (Bfa1-D8) that are responsible for its function in mitotic exit. In addition, the interaction between Bfa1 and the Skp1-12 mutant protein was stronger than that of Bfa1 and the wild type Skp1. We suggest a novel function of Skp1 in mitotic exit and cytokinesis, independent of its function as a part of the SCF complex. The interaction of Skp1 and Bfa1 may contribute to the function of Skp1 in the mitotic exit.

• Fisheries and Aquatic Sciences
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• 제26권6호
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• pp.406-422
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• 2023

Sarcopenia is an age-related, progressive skeletal muscle disorder involving the loss of muscle mass and strength. Previous studies have shown that γ-aminobutyric acid (GABA) from fermented oysters aids in regulatory T cells (Tregs) cell expansion and function by enhancing autophagy, and concomitantly mediate muscle regeneration by modulating muscle inflammation and satellite cell function. The fermentation process of oysters not only increases the GABA content but also enhances the content of branched amino acids and free amino acids that aid the level of protein absorption and muscle strength, mass, and repair. In this study, the effect of GABA-enriched fermented sarco oyster extract (FSO) on reduced muscle mass and functions via Treg modulation and enhanced autophagy in aged mice was investigated. Results showed that FSO enhanced the expression of autophagy markers (autophagy-related gene 5 [ATG5] and GABA receptor-associated protein [GABARAP]), forkhead box protein 3 (FoxP3) expression, and levels of anti-inflammatory cytokines (interleukin [IL]-10 and transforming growth factor [TGF]-β) secreted by Tregs while reducing pro-inflammatory cytokine levels (IL-17A and interferon [IFN]-γ). Furthermore, FSO increased the expression of IL-33 and its receptor IL-1 receptor-like 1 (ST2); well-known signaling pathways that increase amphiregulin (Areg) secretion and expression of myogenesis markers (myogenic factor 5, myoblast determination protein 1, and myogenin). Muscle mass and function were also enhanced via FSO. Overall, the current study suggests that FSO increased autophagy, which enhanced Treg accumulation and function, decreased muscle inflammation, and increased satellite cell function for muscle regeneration and therefore could decrease the loss of muscle mass and function with aging.