Detection of guanine-adenine mismatches by surface plasmon resonance sensor carrying naphthyridine-azaquinolone hybrid on the surface.
We have discovered a new molecule naphthyridine-azaquinolone hybrid (Npt-Azq) that strongly stabilized the guanine-adenine (G-A) mismatch in duplex DNA. In the presence of Npt-Azq, the melting temperature (T(m)) of 5'-d(CTA ACG GAA TG)-3'/3'-d(GAT TGA CTT AC)-5' containing a single G-A mismatch increased by 15.4 degrees C, whereas fully matched duplex increased its T(m) only by 2.2 degrees C. Npt-Azq was immobilized on the sensor surface for the surface plasmon resonance (SPR) assay to examine SPR detection of duplexes containing a G-A mismatch. Distinct SPR signals were observed when 27mer DNA containing a G-A mismatch was analyzed by the Npt-Azq immobilized sensor surfaces, whereas the signal of the fully matched duplex was approximately 6-fold weaker in intensity. The SPR signals for the G-A mismatch were proportional to the concentration of DNA in a range up to 1 microM, confirming that the SPR signal is in fact due to the binding of the G-A mismatch to Npt-Azq immobilized on the surface. Examination of all 16 G-A mismatches regarding the flanking sequence revealed that the sensor surface reported here is applicable to eight flanking sequences, covering 50% of all possible G-A mismatches.
Hagihara
Shinya
S
Department of Synthetic Chemistry and Biological Chemistry, Faculty of Engineering, Kyoto University, Kyoto, Japan.
Kumasawa
Hiroyuki
H
Goto
Yuki
Y
Hayashi
Gosuke
G
Kobori
Akio
A
Saito
Isao
I
Nakatani
Kazuhiko
K
D000225:Adenine / Q000378:metabolism*; D020137:Base Pair Mismatch; D001483:Base Sequence; D002942:Circular Dichroism; D004247:DNA / Q000032:analysis* / Q000737:chemistry* / Q000235:genetics; D006147:Guanine / Q000378:metabolism*; D006860:Hydrogen Bonding; D009287:Naphthyridines / Q000138:chemical synthesis / Q000737:chemistry*; D009691:Nucleic Acid Denaturation / Q000528:radiation effects; D015363:Quinolones / Q000138:chemical synthesis / Q000737:chemistry*; D020349:Surface Plasmon Resonance; D013696:Temperature; D013816:Thermodynamics; D014466:Ultraviolet Rays
D009287:Naphthyridines; D015363:Quinolones; D006147:Guanine; D004247:DNA; D000225:Adenine