Estimation of the optimal electrophoretic temperature of DNA single-strand conformation polymorphism by DNA base composition

• Published in: Electrophoresis Vol. 24; no. 14; pp. 2283 - 2289
• Main Authors: Li, Wei, Gao, Feng, Liang, Junlin, Li, Chensheng, Zhang, Haitian, Tang, Zongjiang, Chen, Lisheng, Jin, Qi, Tang, Weizhong
• Format: Journal Article
• Language: English
• Published: Weinheim WILEY-VCH Verlag 01.07.2003; WILEY‐VCH Verlag
• Subjects: Base Composition; DNA - analysis; DNA - chemistry; DNA base composition; DNA Primers; Electrophoresis, Polyacrylamide Gel - methods; Polymorphism, Single-Stranded Conformational; Single-strand confirmation polymorphism; Temperature
• ISSN: 0173-0835; 1522-2683
• DOI: 10.1002/elps.200305506

To explore the relation between DNA base composition and the optimal single‐strand conformation polymorphism (SSCP) electrophoretic temperature (Ts), we analyzed DNA base composition and Ts of 24 DNA fragments from different genes and found that Ts was positively correlative with the ratio of base C/base A. Ts could be estimated by the formula Ts = [80×C/(A+1)]/{2.71 + [C/(A+1)]}. Ts could be increased dramatically by the complementary sequences in both 5'‐and 3'‐ends of a DNA single‐strand.