• Title/Summary/Keyword: SINEs

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Two Novel Families of Short Interspersed Repetitive Elements from the Mud Loach (Misgurnus mizolepis)

  • Lim, Hak-Seob;Kim, Moo-Sang;Kim, Ok-Soon;Kim, Ji-Yeon;Choi, Young-Mi;Ahn, Sang Jung;Lee, Hyung-Ho
    • Journal of Marine Bioscience and Biotechnology
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    • v.1 no.3
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    • pp.186-192
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    • 2006
  • Short interspersed repetitive elements (SINEs) are dispersed throughout eukaryotic genomes. These SINEs have been shown to be excellent phylogenetic markers for the closed related species. In this report, we isolated two novel families of SINEs from the mud loach. The two SINE families, mlSINE-L and mlSINE-S, have genomic lengths of about 410bp and 270bp, respectively. 5' and 3' ends of the SINE families are well conserved and highly homologous to each of corresponding ends of RSg-1 and SmaI SINEs. Phylogenetic analysis shows that mlSINEs are unique to the mud loach. A dot blot hybridization experiment shows that mlSINE-L has an estimated copy number of $1{\times}10^3$ per $2{\times}10^9bp$ (2.8 pg) and is more frequently distributed at nuclear matrix attachment regions (MARs) than loop DNAs. The result suggests that mlSINEs may preferentially integrate in or near MARs.

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Reanalysis of Ohno's hypothesis on conservation of the size of the X chromosome in mammals

  • Kim, Hyeongmin;Lee, Taeheon;Sung, Samsun;Lee, Changkyu;Kim, Heebal
    • Animal cells and systems
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    • v.16 no.6
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    • pp.438-446
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    • 2012
  • In 1964, Susumu Ohno, an evolutionary biologist, hypothesized that the size of X chromosome was conserved in mammalian evolution, and that this was based on chromosomal length. Today, unlike Ohno's method which was based on estimated lengths, we know the exact lengths of some mammalian sequences. The aim of this study was to reanalyze Ohno's hypothesis. In mammalian species, variation in the length of the X chromosome is greater than in the autosomes; however, this variation is not statistically significant. This means that differences in chromosomal length occur equally in the X chromosome and in the autosomes. Interspersed nuclear elements and genetic rearrangements were analyzed to maintain the same variance between the length of the X chromosome and the autosomes. The X chromosome contained fewer short interspersed elements (SINEs) (0.90 on average); however, it did contain more long interspersed elements (LINEs) than did autosomes (1.56 on average). An overall correlation of LINEs and SINEs with genetic rearrangements was observed; however, synteny breaks were more closely associated with LINEs in the autosomes, and with SINEs in the X chromosome. These results suggest that the chromosome-specific activities of LINEs and SINEs result in the same variance between the lengths of the X chromosome and the autosomes. This is based on the function of interspersed nuclear elements, such as LINEs, which can inactivate the X chromosome and the reliance of non-autonomous SINEs on LINEs for transposition.

Comparative Analysis of Repetitive Elements of Imprinting Genes Reveals Eleven Candidate Imprinting Genes in Cattle

  • Kim, HyoYoung;Kim, Heebal
    • Asian-Australasian Journal of Animal Sciences
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    • v.22 no.6
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    • pp.893-899
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    • 2009
  • Few studies have reported the existence of imprinted genes in cattle compared to the human and mouse. Genomic imprinting is expressed in monoallelic form and it depends on a single parent-specific form of the allele. Comparative analysis of mammals other than the human is a valuable tool for explaining the genomic basis of imprinted genes. In this study, we investigated 34 common imprinted genes in the human and mouse as well as 35 known non-imprinted genes in the human. We found short interspersed nuclear elements (SINEs), long interspersed nuclear elements (LINEs), and long terminal repeats (LTRs) in imprinted (human and mouse) and control (cattle) genes. Pair-wise comparisons for the three species were conducted using SINEs, LINEs, and LTRs. We also calculated 95% confidence intervals of frequencies of repetitive sequences for the three species. As a result, most genes had a similar interval between species. We found 11 genes with conserved SINEs, LINEs, and LTRs in the human, mouse, and cattle. In conclusion, eleven genes (CALCR, Grb10, HTR2A, KCNK9, Kcnq1, MEST, OSBPL5, PPP1R9A, Sgce, SLC22A18, and UBE3A) were identified as candidate imprinted genes in cattle.

On Spherical Trigonometry (구면삼각법에 관한 소고)

  • KOH Youngmee
    • Journal for History of Mathematics
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    • v.36 no.2
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    • pp.21-34
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    • 2023
  • Spherical trigonometry refers to the geometry related to spherical triangles. It has been an important tool for studying astronomy since ancient times. In trigonometry, concepts such as trigonometric functions naturally emerge from the relationship between arcs and chords of a circle. In this paper, we briefly examine the origin of spherical trigonometry. To introduce the basics of spherical trigonometry, we present fundamental and important theorems such as Menelaus's theorem, the law of sines and the law of cosines on a sphere, along with their proofs. Furthermore, we discuss the educational value and potential applications of spherical trigonometry.

Didactical Analysis on Triangle-Determining Conditions and Triangle-Congruence Conditions (삼각형의 결정조건과 합동조건에 대한 교수학적 분석)

  • Yim Jaehoon
    • Journal of Educational Research in Mathematics
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    • v.15 no.2
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    • pp.131-145
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    • 2005
  • This study intends to analyze didactically on triangle-determining conditions and triangle-congruence conditions. The result of this study revealed the followings: Firstly, many pre-service mathematics teachers and secondary school students have insufficient understanding or misunderstanding on triangle-determining conditions and triangle-congruence conditions. Secondly, the term segment instead of edge may show well the concern of triangle-determining conditions. Thirdly, when students learn the method of finding six elements of triangle using the law of sines and cosines in high school, they should be given the opportunity to reflect the relation and the difference between triangle-determining situation and the situation of finding six elements of triangle. Fourthly, accepting some conditions like SSA-obtuse as a triangle-determining condition or not is not just a logical problem. It depends on the specific contexts investigating triangle-determining conditions. Fifthly, textbooks and classroom teaching need to guide students to discover triangle-deter-mining conditions in the process of inquiry from SSS, SSA, SAS, SAA, ASS, ASA, AAS, AAA to SSS, SAS, ASA, SAA. Sixthly, it is necessary to have students know the significance of 'correspondence' in congruence conditions. Finally, there are some problems of using the term 'correspondent' in describing triangle-congruence conditions.

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A fast and reliable polymerase chain reaction method based on short interspersed nuclear elements detection for the discrimination of buffalo, cattle, goat, and sheep species in dairy products

  • Cosenza, Gianfranco;Iannaccone, Marco;Gallo, Daniela;Pauciullo, Alfredo
    • Asian-Australasian Journal of Animal Sciences
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    • v.32 no.6
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    • pp.891-895
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    • 2019
  • Objective: Aim of present study was the set up of a fast and reliable protocol using species-specific markers for the quali-quantitative analysis of DNA and the detection of ruminant biological components in dairy products. For this purpose, the promoter of the gene coding for the ${\alpha}$-lactoalbumin (LALBA) was chosen as possible candidate for the presence of short interspersed nuclear elements (SINEs). Methods: DNA was isolated from somatic cells of 120 individual milk samples of cattle (30), Mediterranean river buffalo (30), goat (30), and sheep (30) and the gene promoter region (about 600/700 bp) of LALBA (from about 600 bp upstream of exon 1) has been sequenced. For the development of a single polymerase chain reaction (PCR) protocol that allows the simultaneous identification of DNA from the four species of ruminants, the following internal primers pair were used: 5'-CACTGATCTTAAAGCTCAGGTT-3' (forward) and 5'-TCAGA GTAGGCCACAGAAG-3' (reverse). Results: Sequencing results of LALBA gene promoter region confirmed the presence of SINEs as monomorphic "within" and variable in size "among" the selected species. Amplicon lengths were 582 bp in cattle, 592 bp in buffalo, 655 in goat and 729 bp in sheep. PCR specificity was demonstrated by the detection of trace amounts of species-specific DNA from mixed sources ($0.25ng/{\mu}L$). Conclusion: We developed a rapid PCR protocol for the quali-quantitative analysis of DNA and the traceability of dairy products using a species-specific marker with only one pair of primers. Our results validate the proposed technique as a suitable tool for a simple and inexpensive (economic) detection of animal origin components in foodstuffs.

A Study on Variation of Counterplan in Harmonics Interference Equipment (고초파 장해기기의 저감 대책의 변화에 관한 연구)

  • 성은하;오무송;이은학;김태성
    • Proceedings of the Korean Institute of Electrical and Electronic Material Engineers Conference
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    • 1999.05a
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    • pp.414-417
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    • 1999
  • According to development of power electric technology from industrial field to electronic home appliances, recent SMPS using semiconductor is spread widely. Electric converting instrument uses a sine wave voltage source, namely an usual power source, and it gets a non-sines power source from power source because current flows through one part in waveform of one cycle. This injects higher harmonic source in source part, absorb pollution source. And this cause quality deterioration, durability shortage of electric power instrument, spreading accident of electric solver system, and so on. It can't supply an electric source of good quality in industry, so become an impedimental element in improving productivity and reliance. This study can be used in prediction of hindrance and diagnosis material and intends to suggest a countermeasure about measurement data.

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Evaluation of Fracture Strength of WA-Vitrified and Resinoid Bond Grinding Wheels by Acoustic Emission (AE에 의한 WA계 비트리파이드 및 레지노이드 結合劑硏削숫돌의 破壞强度評價)

  • 강명순;한응교;권동호
    • Transactions of the Korean Society of Mechanical Engineers
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    • v.12 no.2
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    • pp.241-251
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    • 1988
  • The purpose of this paper is to evaluate fracture strength of WA-vitrified and resinoid bond grinding wheels by means of acoustic emission. The paper conducts tension test, compression test, splitting tensile test and bending test with AE measuring system. These tests have been carried out in accordance with the grain sizes and grades of grinding wheels. The fracture strength of grinding wheels is evaluated by the clarification of biaxal fracture criterion of Babel and Sines. It clarifies the influence of factors of grinding wheel upon AE characteristics and evaluates the predictability of life of grinding wheels and the perception of fracture.

Traitements sur $R\'{e}sines$ des Euax de Purge de $G\'{e}n\'{e}rateur$ de P. W. R. $Condition\'{e}es$ $\`{a}$ L' Ammoniaque (P.W.R 형(型) 원자로(原子爐)의 증기발생기배수(蒸氣發生器排水)의 Ion 교환처리(交換處理) 연구(硏究))

  • Lee, Sang-Hoon;Park, Sang-Hoon
    • Journal of Radiation Protection and Research
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    • v.2 no.1
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    • pp.24-30
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    • 1977
  • Les eaux de $g\'{e}n\'{e}rateur$ de vapeur d'un $r\'{e}acteur$ P. W. R peuvent $\^{e}tre$ $contamin\'{e}es$ par des $radio-\'{e}lements$. Ces eaux sont habituellement $condition\'{e}es$ 'phosphate' pour limiter leur $agressivit\'{e}$ et la tendence actuelle est de remplacer les phosphate par un conditionment 'Amoniaques'. La $pr\'{e}sente$ $\'{e}tude$ a pour but de definir la $possibilit\'{e}$ $d'{\'{e}}purer$ des eaux $condition\'{e}es$ $\'{a}$ l'ammoniaque $\'{a}$ l'aide $d'{\'{e}}changeurs$ d'ion organiques. Des Facteurs de $D\'{e}contamination$ (F. D) en Cesium 137 et Strontium 90 et la $dur\'{e}e$ du cycle $d'{\'{e}}puration$ ont $d\^{u}$ $\^{e}tre$ bien meilleurs avec une colonne de 10 ml de $r\'{e}sine$ Carborylique Duolite $CC_4$ mise sous forme acide, suivie d'une colonne de 10 ml de $r\'{e}sine$ cationique Amberlite IR 120 mise sous forme acide et suivie d'une colonne de 10 ml de $r\'{e}sine$ anionique Amberlite IRA 400 mise sous forme hydroxyde.

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CHD4 Conceals Aberrant CTCF-Binding Sites at TAD Interiors by Regulating Chromatin Accessibility in Mouse Embryonic Stem Cells

  • Han, Sungwook;Lee, Hosuk;Lee, Andrew J.;Kim, Seung-Kyoon;Jung, Inkyung;Koh, Gou Young;Kim, Tae-Kyung;Lee, Daeyoup
    • Molecules and Cells
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    • v.44 no.11
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    • pp.805-829
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    • 2021
  • CCCTC-binding factor (CTCF) critically contributes to 3D chromatin organization by determining topologically associated domain (TAD) borders. Although CTCF primarily binds at TAD borders, there also exist putative CTCF-binding sites within TADs, which are spread throughout the genome by retrotransposition. However, the detailed mechanism responsible for masking the putative CTCF-binding sites remains largely elusive. Here, we show that the ATP-dependent chromatin remodeler, chromodomain helicase DNA-binding 4 (CHD4), regulates chromatin accessibility to conceal aberrant CTCF-binding sites embedded in H3K9me3-enriched heterochromatic B2 short interspersed nuclear elements (SINEs) in mouse embryonic stem cells (mESCs). Upon CHD4 depletion, these aberrant CTCF-binding sites become accessible and aberrant CTCF recruitment occurs within TADs, resulting in disorganization of local TADs. RNA-binding intrinsically disordered domains (IDRs) of CHD4 are required to prevent this aberrant CTCF binding, and CHD4 is critical for the repression of B2 SINE transcripts. These results collectively reveal that a CHD4-mediated mechanism ensures appropriate CTCF binding and associated TAD organization in mESCs.