Calibration of the change in thermal stability of DNA duplexes and degree of base pair mismatch

1988 ◽  
Vol 27 (3) ◽  
pp. 212-216 ◽  
Author(s):  
Adalgisa Caccone ◽  
Rob DeSalle ◽  
Jeffrey R. Powell
Keyword(s):  
Thermal Stability ◽  
Base Pair ◽  
Dna Duplexes ◽  
Base Pair Mismatch ◽  
Thermal Stability Of

scholarly journals Thermal Stability Changes in Telomeric G-Quadruplex Structures Due to N6-Methyladenine Modification

Epigenomes ◽  
2021 ◽  
Vol 5 (1) ◽  
pp. 5 ◽  
Author(s):  
Ryohei Wada ◽  
Wataru Yoshida
Keyword(s):  
Thermal Stability ◽  
Base Pair ◽  
Genomic Dna ◽  
Biological Functions ◽  
Duplex Structure ◽  
Stacking Interaction ◽  
Hybrid Type ◽  
G Quadruplex ◽  
Melting Analysis ◽  
Thermal Stability Of

N6-methyladenine modification (m6dA) has recently been identified in eukaryote genomic DNA. The methylation destabilizes the duplex structure when the adenine forms a Watson–Crick base pair, whereas the methylation on a terminal unpaired adenine stabilizes the duplex structure by increasing the stacking interaction. In this study, the effects of m6dA modification on the thermal stability of four distinct telomeric G-quadruplex (G4) structures were investigated. The m6dA-modified telomeric oligonucleotide d[AGGG(TTAGGG)3] that forms a basket-type G4 in Na+, d[(TTAGGG)4TT] that forms a hybrid-type G4 in K+ (Form-2), d[AAAGGG(TTAGGG)3AA] that forms a hybrid-type G4 in K+ (Form-1), and d[GGG(TTAGGG)3T] that forms a basket-type G4 with two G-tetrads in K+ (Form-3) were analyzed. Circular dichroism melting analysis demonstrated that (1) A7- and A19-methylation destabilized the basket-type G4 structure that formed in Na+, whereas A13-methylation stabilized the structure; (2) A15-methylation stabilized the Form-2 G4 structure; (3) A15- and A21-methylations stabilized the Form-1 G4 structure; and (4) A12-methylation stabilized the Form-3 G4 structure. These results suggest that m6dA modifications may affect the thermal stability of human telomeric G4 structures in regulating the biological functions.

Effects of molecular motion on charge transfer/transport through DNA duplexes with and without base pair mismatch

2006 ◽  
Vol 32 (9) ◽  
pp. 759-764 ◽  
Author(s):  
E. B. Starikov ◽  
T. Fujita ◽  
H. Watanabe ◽  
Y. Sengoku ◽  
S. Tanaka ◽  
...  
Keyword(s):  
Charge Transfer ◽  
Base Pair ◽  
Molecular Motion ◽  
Dna Duplexes ◽  
Base Pair Mismatch

Effects of formamide on the thermal stability of DNA duplexes on biochips

2010 ◽  
Vol 397 (1) ◽  
pp. 132-134 ◽  
Author(s):  
Julia Fuchs ◽  
Daniela Dell’Atti ◽  
Arnaud Buhot ◽  
Roberto Calemczuk ◽  
Marco Mascini ◽  
...  
Keyword(s):  
Thermal Stability ◽  
Dna Duplexes ◽  
Thermal Stability Of

scholarly journals Second generation silver(I)-mediated imidazole base pairs

2014 ◽  
Vol 10 ◽  
pp. 2139-2144 ◽  
Author(s):  
Susanne Hensel ◽  
Nicole Megger ◽  
Kristina Schweizer ◽  
Jens Müller
Keyword(s):  
Thermal Stability ◽  
Melting Temperature ◽  
Base Pair ◽  
Metal Ion ◽  
Second Generation ◽  
Dna Duplex ◽  
Base Pairs ◽  
Double Helices ◽  
Thermal Stability Of

The imidazole–Ag(I)–imidazole base pair is one of the best-investigated artificial metal-mediated base pairs. We show here that its stability can be further improved by formally replacing the imidazole moiety by a 2-methylimidazole or 4-methylimidazole moiety. A comparison of the thermal stability of several double helices shows that the addition of one equivalent of Ag(I) leads to a 50% larger increase in the melting temperature when a DNA duplex with methylated imidazole nucleosides is applied. This significant effect can likely be attributed to a better steric shielding of the metal ion within the metal-mediated base pair.

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