• Journal of applied mathematics & informatics
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• 제26권3_4호
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• pp.811-818
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• 2008

Biological systems with both protein-protein and protein-gene interactions can be modeled by differential equations for concentrations of the proteins with time-delay terms because of the time needed for DNA transcription to mRNA and translation of mRNA to protein. Values of some parameters in the mathematical model can not be measured owing to the difficulty of experiments. Also values of some parameters obtained in a normal stress condition can be changed under pathological stress stimuli. Thus it is important to find the effective way of determining parameters values. One approach is to use optimization algorithms. Here we construct an optimal system used to find optimal parameters in the equations with nonnegative time delays and apply this optimization result to the Nuclear factor-${\kappa}B$ pathway.

• 한국체육학회지인문사회과학편
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• 제55권4호
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• pp.507-516
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• 2016

본 연구는 지구성 운동 후 안정시 PGC-1α mRNA와 단백질의 안정성이 PPARβ/δ의 영향을 받는지 확인하는 것이다. 전기 자극 유전자 전이법(electroporation; EPO)을 이용하여 PPARβ/δ와 empty vector(EV) 유전자를 각각 생쥐의 왼쪽과 오른쪽 tibialis anterior(TA)근육에 전이하였으며, 처치하지 않은 대조군(control)과 1회 지구성 운동 후 시간에 경과에 따른 mRNA와 단백질을 비교하였다. 생쥐는 5시간 수영 운동을 1회 실시하였으며, 운동 직후(0h), 24시간(24h) 및 54시간(h)이 경과한 후 TA근육을 적출하였다. 운동 직후(0h) 대조군, EV 및 PPARβ/δ가 과발현된 근육의 PGC-1α mRNA는 좌업 그룹보다 각각 6.8배(p<.001)배, 6.2배(p<.001) 및 7.1배(p<.001) 증가하였으나, 24h 및 54h에 좌업 그룹수준으로 회복되었다. 운동 후 24h에 EV가 처치된 근육은 PGC-1α 및 PGC-1α ubiquitination이 좌업 그룹보다 각각 2.2배 및 1.74배 증가하였으나, 운동 후 54h에 좌업 그룹수준으로 회복되었다. PPARβ/δ 처치 그룹의 PGC-1α는 운동 후 24h와 54h에 좌업 그룹보다 각각 2.5배와 2.2배 증가하였으나 PGC-1α ubiquitination은 증가하지 않았다. 따라서 PPARβ/δ 과발현은 지구성 운동에 의한 PGC-1α mRNA 단백질 안정성에 영향을 미치지 않는다. 그러나 PPARβ/δ 과발현은 지구성 운동으로 증가된 PGC-1α mRNA가 단백질로 전환된 후 PGC-1α의 안정성을 증가시킨다.

• Journal of Animal Science and Technology
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• 제60권10호
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• pp.25.1-25.10
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• 2018

The central dogma of gene expression propounds that DNA is transcribed to mRNA and finally gets translated into protein. Only 2-3% of the genomic DNA is transcribed to protein-coding mRNA. Interestingly, only a further minuscule part of genomic DNA encodes for long non-coding RNAs (lncRNAs) which are characteristically more than 200 nucleotides long and can be transcribed from both protein-coding (e.g. H19 and TUG1) as well as non-coding DNA by RNA polymerase II. The lncRNAs do not have open reading frames (with some exceptions), 3`-untranslated regions (3'-UTRs) and necessarily these RNAs lack any translation-termination regions, however, these can be spliced, capped and polyadenylated as mRNA molecules. The flexibility of lncRNAs confers them specific 3D-conformations that eventually enable the lncRNAs to interact with proteins, DNA or other RNA molecules via base pairing or by forming networks. The lncRNAs play a major role in gene regulation, cell differentiation, cancer cell invasion and metastasis and chromatin remodeling. Deregulation of lncRNA is also responsible for numerous diseases in mammals. Various studies have revealed their significance as biomarkers for prognosis and diagnosis of cancer. The aim of this review is to overview the salient features, evolution, biogenesis and biological importance of these molecules in the mammalian system.

• International Journal of Oral Biology
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• 제40권4호
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• pp.197-204
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• 2015

MicroRNA (miRNA, miR) is essential in regulating cell differentiation either by inhibiting mRNA translation or by inducing its degradation. However, the role of miRNA in odontoblastic cell differentiation is still unclear. In this study, we examined the molecular mechanism of miR-27-mediated regulation of odontoblast differentiation in MDPC-23 mouse odontoblastic cells derived from mouse dental papilla cells. The results of the present study demonstrated that the miR-27 expression increases significantly during MDPC-23 odontoblastic cell differentiation. Furthermore, miR-27 up-regulation promotes the differentiation of MDPC-23 cells and accelerates mineralization without cell proliferation. The over-expression of miR-27 significantly increased the expression levels of Wnt1 mRNA and protein. In addition, the results of target gene prediction revealed that Wnt1 mRNA has an miR-27 binding site in its 3'UTR, and is increased by miR-27. These results suggested that miR-27 promotes MDPC-23 odontoblastic cell differentiation by targeting Wnt1 signaling. Therefore, miR-27 is a critical odontoblastic differentiation molecular target for the development of miRNA based therapeutic agents in dental medicine.

• 한국미생물·생명공학회지
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• 제38권1호
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• pp.64-69
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• 2010

본 실험은 Propolis ethanol 추출물과, chloroform, ethyl acetate, butanol 등 4가지 용매로 더 추출한 분획틀을 이용하여 DPPH radical 소거능 실험과 항진균활성을 알아보았고, 고체배지 및 액체배지에서 항진균활성을 측정하였다. 또한 luciferase mRNA를 이용한 in vitro translation으로 이들 추출물에 의한 단백질합성에의 영향을 검토하였다. 첫 번째로, 액체배지에서의 항진균 활성을 실험한 결과 Candida glabrata, Candida lusitaniae 그리고 Cryptococcos neoformans 등의 성장저해율이 chloroform 분획 존재하에서 각각 39%, 41%, 48% 이었으며 ethyl acetate 분획 존재하에서 각각 25%, 24%, 13%로 측정되었다. 이 결과는 ethyl acetate 분획에 비해 chloroform 분획에 진균 성장 저해물질이 가장 많이 존재함을 나타낸다. 두 번째로, 동일한 비율로 희석한 프로폴리스 분획물들과 합성 항산화제인 BHT의 수소공여능을 비교하였을 때 Ethanol 추출물의 수소공여능은 합성항산화제인 0.1% BHT의 수소공여능보다 높았으며, 분획들 중에서 chloroform 분획이 가장 수소공여능이 높았다. 세 번째로, luciferase mRNA를 이용한 in vitro, translation 실험에서는 Propoliis ethanol 추출물이 단백질합성을 저해하는 것으로 관찰되었다. Propolis 분획물들 중에서 chloroform 분획이 단백질 합성을 가장 많이 저해하였다. 이와 같은 결과는 chloroform 분획물이 다른 분획에 비해 수소공여능, 진균성장 저해율 및 단백질합성 저해활성이 가장 큰 것으로 보여지므로 이 분획물에 대한 생화학적인 연구가 요구된다.

• BMB Reports
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• 제43권6호
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• pp.438-444
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• 2010

Dnd (dead end) gene encodes an RNA binding protein and is specifically expressed in primordial germ cells (PGCs) as a vertebrate-specific component of the germ plasma throughout embryogenesis. By utilizing a technique of specific nucleic acids associated with proteins (SNAAP), 13 potential target mRNAs of zebrafish Dnd (ZDnd) protein were identified from 8-cell embryo, and 8 target mRNAs have been confirmed using an RT-PCR analysis. Of the target mRNAs, the present study is focused on the regulation of geminin, which is an inhibitor of DNA replication. Using electrophoretic mobility shift assay (EMSA), we demonstrated that ZDND protein bound the 67-nucleotide region from 864 to 931 in the 3'UTR of geminin mRNA, a sequence containing 60.29% of uridine. Results from a dual-luciferase assay in HEK293 cells showed that ZDND increases the translation of geminin. Taken together, the identification of target mRNA for ZDnd will be helpful to further explore the biological function of Dnd in zebrafish germ-line development as well as in cancer cells.

• 한국미생물학회:학술대회논문집
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• 한국미생물학회 2000년도 추계학술발표대회
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• pp.66-77
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• 2000

For a variety of viruses, the primary virus infection has been shown to prevent superinfection with a homologous secondary virus; however, the mechanism of exclusion has not been clearly understood. In this work, we demonstrated that BVDV -infected MDBK cells were protected from superinfection with a homologous superinfecting BVDV, one of the positive-sense RNA pestiviruses, but not with an unrelated rhabdovirus, such as vesicular stomatitis virus. Once superinfection exclusion was established by a primary infection with BVDV, the transfected infectious BVD viral RNA genome was shown to be competent for viral translation, but not viral replication. In addition, our results also demonstrated that upon superinfection, the. viral RNA genome of viral particles was not transferred into the cytoplasm of BVDV -infected cells. Using newly developed system involving rapid generation of the MDBK cells expressing BVD viral proteins, we subsequently found that expression of the viral structural proteins was dispensable for the block occurring at the level of viral RNA replication, but required for the exclusion at the level of viral entry step. Altogether, these findings provide evidence that the superinfection exclusion of BVDV occurs not only at the level of viral replication in which the viral replicase are involved, but also at the level of viral entry with which the viral structural proteins are associated, and that a cellular factor(s) play an essential role in this process.

• The Korean Journal of Physiology and Pharmacology
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• 제9권1호
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• pp.1-8
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• 2005

Myotonic Dystrophies type 1 and 2 (DM1/2) are neuromuscular disorders which belong to a group of genetic diseases caused by unstable CTG triplet repeat (DM1) and CCTG tetranucleotide repeat (DM2) expansions. In DM1, CTG repeats are located within the 3' untranslated region of myotonin protein kinase (DMPK) gene on chromosome 19q. DM2 is caused by expansion of CCTG repeats located in the first intron of a gene coding for zinc finger factor 9 on chromosome 3q. The CTG and CCTG expansions are located in untranslated regions and are expressed as pre-mRNAs in nuclei (DM1 and DM2) and as mRNA in cytoplasm (DM1). Investigations of molecular alterations in DM1 discovered a new molecular mechanism responsible for this disease. Expansion of un-translated CUG repeats in the mutant DMPK mRNA disrupts biological functions of two CUG-binding proteins, CUGBP and MNBL. These proteins regulate translation and splicing of mRNAs coding for proteins which play a key role in skeletal muscle function. Expansion of CUG repeats alters these two stages of RNA metabolism in DM1 by titrating CUGBP1 and MNBL into mutant DMPK mRNA-protein complexes. Mouse models, in which levels of CUGBP1 and MNBL were modulated to mimic DM1, showed several symptoms of DM1 disease including muscular dystrophy, cataracts and myotonia. Mis-regulated levels of CUGBP1 in newborn mice cause a delay of muscle development mimicking muscle symptoms of congenital form of DM1 disease. Since expansion of CCTG repeats in DM2 is also located in untranslated region, it is predicted that DM2 mechanisms might be similar to those observed in DM1. However, differences in clinical phenotypes of DM1 and DM2 suggest some specific features in molecular pathways in both diseases. Recent publications suggest that number of pathways affected by RNA CUG and CCUG repeats could be larger than initially thought. Detailed studies of these pathways will help in developing therapy for patients affected with DM1 and DM2.

• BMB Reports
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• 제42권3호
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• pp.131-135
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• 2009

MicroRNAs control gene expression by inhibiting translation or promoting degradation of their target mRNAs. Since the discovery of the first microRNAs, lin-4 and let-7, in C. elegans, hundreds of microRNAs have been identified as key regulators of cell fate determination, lifespan, and cancer in species ranging from plants to humans. However, while microRNAs have been shown to be particularly abundant in the brain, their role in the development and activity of the nervous system is still largely unknown. In this review, we describe recent advances in our understanding of microRNA function at synapses, the specialized structures required for communication between neurons and their targets. We also propose how these advances might inform the molecular model of memory.

• BMB Reports
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• 제53권11호
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• pp.551-564
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• 2020

Proper development of the nervous system is critical for its function, and deficits in neural development have been implicated in many brain disorders. A precise and predictable developmental schedule requires highly coordinated gene expression programs that orchestrate the dynamics of the developing brain. Especially, recent discoveries have been showing that various mRNA chemical modifications can affect RNA metabolism including decay, transport, splicing, and translation in cell type- and tissue-specific manner, leading to the emergence of the field of epitranscriptomics. Moreover, accumulating evidences showed that certain types of RNA modifications are predominantly found in the developing brain and their dysregulation disrupts not only the developmental processes, but also neuronal activities, suggesting that epitranscriptomic mechanisms play critical post-transcriptional regulatory roles in development of the brain and etiology of brain disorders. Here, we review recent advances in our understanding of molecular regulation on transcriptome plasticity by RNA modifications in neurodevelopment and how alterations in these RNA regulatory programs lead to human brain disorders.