scholarly journals The 2.1-kb Inverted Repeat DNA Sequences Flank themat2,3Silent Region in Two Species of Schizosaccharomyces and Are Involved in Epigenetic Silencing inSchizosaccharomyces pombe

Genetics ◽  
2002 ◽  
Vol 162 (2) ◽  
pp. 591-602 ◽  
Author(s):  
Gurjeet Singh ◽  
Amar J S Klar
Keyword(s):  
Dna Sequences ◽  
Inverted Repeat ◽  
Transcriptional Silencing ◽  
Epigenetic Silencing ◽  
Inverted Orientation ◽  
Repeat Dna ◽  
Sequence Elements ◽  
Left And Right ◽  
The Right ◽  
Silent Region

AbstractThe mat2,3 region of the fission yeast Schizosaccharomyces pombe exhibits a phenomenon of transcriptional silencing. This region is flanked by two identical DNA sequence elements, 2.1 kb in length, present in inverted orientation: IRL on the left and IRR on the right of the silent region. The repeats do not encode any ORF. The inverted repeat DNA region is also present in a newly identified related species, which we named S. kambucha. Interestingly, the left and right repeats share perfect identity within a species, but show ∼2% bases interspecies variation. Deletion of IRL results in variegated expression of markers inserted in the silent region, while deletion of the IRR causes their derepression. When deletions of these repeats were genetically combined with mutations in different trans-acting genes previously shown to cause a partial defect in silencing, only mutations in clr1 and clr3 showed additive defects in silencing with the deletion of IRL. The rate of mat1 switching is also affected by deletion of repeats. The IRL or IRR deletion did not cause significant derepression of the mat2 or mat3 loci. These results implicate repeats for maintaining full repression of the mat2,3 region, for efficient mat1 switching, and further support the notion that multiple pathways cooperate to silence the mat2,3 domain.

scholarly journals Solution Formation of Holliday Junctions in Inverted-Repeat DNA Sequences†

Biochemistry ◽  
2006 ◽  
Vol 45 (8) ◽  
pp. 2467-2471 ◽  
Author(s):  
Franklin A. Hays ◽  
Virgil Schirf ◽  
P. Shing Ho ◽  
Borries Demeler
Keyword(s):  
Dna Sequences ◽  
Inverted Repeat ◽  
Holliday Junctions ◽  
Solution Formation ◽  
Repeat Dna

Sequence structures of two developmentally regulated, alternative DNA deletion junctions in Tetrahymena thermophila

1988 ◽  
Vol 8 (9) ◽  
pp. 3947-3950
Author(s):  
C F Austerberry ◽  
M C Yao
Keyword(s):  
Dna Sequences ◽  
Base Pair ◽  
Tetrahymena Thermophila ◽  
Developmental Regulation ◽  
Direct Repeat ◽  
Similar Sequence ◽  
Developmentally Regulated ◽  
Dna Deletion ◽  
Inverted Orientation ◽  
The Right

Deletions of specific DNA sequences are known to occur in Tetrahymena thermophila as a developmentally regulated process. Deletions of a particular region (region M) were previously shown to be of two alternative sizes, 0.6 or 0.9 kilobases (kb) (C.F. Austerberry, C.D. Allis, and M.-C. Yao, Proc. Natl. Acad. Sci. USA 81: 7383-7387). In this study, the nucleotide sequences for both deletions were determined. These two deletions share the same right junction, but their left junctions are 0.3 kb apart. An 8-base-pair (bp) sequence is present at both junctions of the 0.6-kb deletion, but only 5 bp of this direct repeat are present at the left junction of the 0.9-kb deletion. Further comparison revealed a common 10-bp sequence near each of the two left junctions and a similar sequence in inverted orientation near the right junction. These sequences may play a role in the developmental regulation of the deletion process.

scholarly journals The silence RNA keeps: cis mechanisms of RNA mediated epigenetic silencing in mammals

2005 ◽  
Vol 361 (1465) ◽  
pp. 67-79 ◽  
Author(s):  
Cristina Tufarelli
Keyword(s):  
Gene Silencing ◽  
Dna Sequences ◽  
Molecular Basis ◽  
Experimental Testing ◽  
Dynamic Balance ◽  
Transcriptional Silencing ◽  
Transcriptional Gene Silencing ◽  
Modern Biology ◽  
The Right ◽  
Disease Understanding

One of the fundamental questions of modern biology is to unravel how genes are switched on and off at the right time and in the correct tissues. It is well recognized that gene regulation depends on a dynamic balance between activating and repressing forces, and multiple mechanisms are involved in both gene silencing and activation. Work over the last decade has revealed that in some cases transcriptional silencing of specific genes is mediated by RNAs that specifically recruit repressing complexes to homologous DNA sequences. Examples of both cis and trans RNA driven transcriptional silencing have been reported. This review focuses on those examples of transcriptional gene silencing in which the RNA component seems to act uniquely in cis . Speculative models of how such cis acting transcripts may trigger transcriptional silencing are proposed. Future experimental testing of these and other mechanisms is important to gain a fuller understanding of how genes are regulated and to identify instances in which such mechanisms are defective, leading to disease. Understanding the basic molecular basis of these phenomena will provide us with invaluable tools for the future development of targeted therapies and drugs for those diseases in which they are faulty.

scholarly journals Cell-cycle-associated rearrangement of inverted repeat DNA sequences.

1979 ◽  
Vol 76 (12) ◽  
pp. 6240-6244 ◽  
Author(s):  
P. Nisen ◽  
R. Medford ◽  
J. Mansour ◽  
M. Purucker ◽  
A. Skalka ◽  
...  
Keyword(s):  
Cell Cycle ◽  
Dna Sequences ◽  
Inverted Repeat ◽  
Repeat Dna

scholarly journals Sequence structures of two developmentally regulated, alternative DNA deletion junctions in Tetrahymena thermophila.

1988 ◽  
Vol 8 (9) ◽  
pp. 3947-3950 ◽  
Author(s):  
C F Austerberry ◽  
M C Yao
Keyword(s):  
Dna Sequences ◽  
Base Pair ◽  
Tetrahymena Thermophila ◽  
Developmental Regulation ◽  
Direct Repeat ◽  
Similar Sequence ◽  
Developmentally Regulated ◽  
Dna Deletion ◽  
Inverted Orientation ◽  
The Right

Deletions of specific DNA sequences are known to occur in Tetrahymena thermophila as a developmentally regulated process. Deletions of a particular region (region M) were previously shown to be of two alternative sizes, 0.6 or 0.9 kilobases (kb) (C.F. Austerberry, C.D. Allis, and M.-C. Yao, Proc. Natl. Acad. Sci. USA 81: 7383-7387). In this study, the nucleotide sequences for both deletions were determined. These two deletions share the same right junction, but their left junctions are 0.3 kb apart. An 8-base-pair (bp) sequence is present at both junctions of the 0.6-kb deletion, but only 5 bp of this direct repeat are present at the left junction of the 0.9-kb deletion. Further comparison revealed a common 10-bp sequence near each of the two left junctions and a similar sequence in inverted orientation near the right junction. These sequences may play a role in the developmental regulation of the deletion process.

Comparison of the efficiency of the indexes of Pont and Korkhause with Kernott technique in patients with narrowing of maxilla

2020 ◽  
Vol 20 (3) ◽  
pp. 199-203
Author(s):  
O. I. Admakin ◽  
I. A. Solop ◽  
A. D. Oksentyuk
Keyword(s):  
Dental Treatment ◽  
Standard Analysis ◽  
Clinical Hospital ◽  
Control Models ◽  
Diagnostic Models ◽  
Left And Right ◽  
The Asymmetry ◽  
The Right ◽  
The University ◽  
Medical University

Relevance. The narrowing of the maxilla is one of the most common pathologies in orthodontics. Recent studies show that the narrowing is always asymmetric which is connected to the rotation of the maxilla. To choose the treatment correctly one need a calculation that reveals the asymmetry, which is impossible with using standard indexes.Purpose – to compare efficiency of indexes of Pont and Korkhause with the Kernott's method in patients with narrowing of the maxilla.Materials and methods. The study involved 35 children aged from 8 to 12 years old undergoing dental treatment in the University Children's Clinical Hospital of the First Moscow State Medical University with no comorbidities. For every patient a gypsum model was prepared and after that to carry out the biometrical calculation. In this study two indexes were used: Pont's index and Korkhause's; using this standard analysis the narrowing of the maxilla was revealed. After using Pont's Index and Korkhaus analysis all the models were calculated by the method of Kernott with Kernott's dynamic pentagon.Results. As a result of the analysis of the control diagnostic models a narrowing of the maxilla in 69% of cases (n = 24) was revealed in all cases, the deviation of the size of the dentition was asymmetric. Thus, 65% of the surveyed models showed a narrowing on the right. This narrowing was of a different severity and averaged 15 control models.Conclusions. This shows that for the biometrics of diagnostic models it is necessary to use methods that allow to estimate the width of the dentition rows on the left and on the right separately. To correct the asymmetric narrowing of the dentition, it is preferable to use non-classical expanding devices that act equally on the left and right sides separetly.

scholarly journals Transcriptomic uniqueness and commonality of the ion channels and transporters in the four heart chambers

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Sanda Iacobas ◽  
Bogdan Amuzescu ◽  
Dumitru A. Iacobas
Keyword(s):  
Ion Channels ◽  
Cycle Phase ◽  
Functional Roles ◽  
Expression Control ◽  
Gene Expression Control ◽  
Left And Right ◽  
The Right ◽  
Phase Out ◽  
Right Atria ◽  
Agilent Microarrays

AbstractMyocardium transcriptomes of left and right atria and ventricles from four adult male C57Bl/6j mice were profiled with Agilent microarrays to identify the differences responsible for the distinct functional roles of the four heart chambers. Female mice were not investigated owing to their transcriptome dependence on the estrous cycle phase. Out of the quantified 16,886 unigenes, 15.76% on the left side and 16.5% on the right side exhibited differential expression between the atrium and the ventricle, while 5.8% of genes were differently expressed between the two atria and only 1.2% between the two ventricles. The study revealed also chamber differences in gene expression control and coordination. We analyzed ion channels and transporters, and genes within the cardiac muscle contraction, oxidative phosphorylation, glycolysis/gluconeogenesis, calcium and adrenergic signaling pathways. Interestingly, while expression of Ank2 oscillates in phase with all 27 quantified binding partners in the left ventricle, the percentage of in-phase oscillating partners of Ank2 is 15% and 37% in the left and right atria and 74% in the right ventricle. The analysis indicated high interventricular synchrony of the ion channels expressions and the substantially lower synchrony between the two atria and between the atrium and the ventricle from the same side.

The role of visual experience for spatial numerical associations

2012 ◽  
Vol 25 (0) ◽  
pp. 222 ◽  
Author(s):  
Michael J. Proulx ◽  
Achille Pasqualotto ◽  
Shuichiro Taya
Keyword(s):  
Visual Experience ◽  
Opposite Effect ◽  
Random Number Generation ◽  
Number Line ◽  
Mental Number Line ◽  
Generation Task ◽  
Congenitally Blind ◽  
Left And Right ◽  
The Right

The topographic representation of space interacts with the mental representation of number. Evidence for such number–space relations have been reported in both synaesthetic and non-synaesthetic participants. Thus far most studies have only examined related effects in sighted participants. For example, the mental number line increases in magnitude from left to right in sighted individuals (Loetscher et al., 2008, Curr. Biol.). What is unclear is whether this association arises from innate mechanisms or requires visual experience early in life to develop in this way. Here we investigated the role of visual experience for the left to right spatial numerical association using a random number generation task in congenitally blind, late blind, and blindfolded sighted participants. Participants orally generated numbers randomly whilst turning their head to the left and right. Sighted participants generated smaller numbers when they turned their head to the left than to the right, consistent with past results. In contrast, congenitally blind participants generated smaller numbers when they turned their head to the right than to the left, exhibiting the opposite effect. The results of the late blind participants showed an intermediate profile between that of the sighted and congenitally blind participants. Visual experience early in life is therefore necessary for the development of the spatial numerical association of the mental number line.

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