Effects of mismatches and insertions on discrimination accuracy of nucleic acid probes

• Authors: Xianyu Piao , Liancheng Sun , Tianbiao Zhang , Youlin Gan , Yifu Guan
• Languages of publication: EN

Abstracts

EN

Effective discrimination of non-complementary nucleotides is an important factor to ensure the accuracy of hybridization-based nucleic acid analyses. The current study investigates the effects of the chemical nature, the positions, the numbers, and the cooperative behavior of mismatches as well as insertions on 20-mer and 30-mer duplexes. We observed the hybridization stability trend affected by mismatches: G:T ≈ G:G > G:A > A:A ≈ T:T > A:C ≈ T:C > C:C. The experimental data show that mismatches at the center of the oligonucleotide probes have a more profound destabilizing effect on the hybridization stability than those at either ends. Insertions also demonstrate a similar destabilizing effect as mismatches. These results provide useful information for designing DNA microarray nucleotide probes and for improving the discrimination accuracy of hybridization-based detections.

Keywords

EN

insertion; mismatch; melting temperature; hybridization stability

• Publisher: Polish Biochemical Society
• Journal: Acta Biochimica Polonica
• Year: 2008
• Volume: 55
• Issue: 4
• Pages: 713-720

Dates

published

2008

received

2008-06-06

revised

2008-10-20

accepted

2008-11-19

(unknown)

2008-11-28

Contributors

author

Xianyu Piao

• Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China

author

Liancheng Sun

• Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China

author

Tianbiao Zhang

• Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China

author

Youlin Gan

• Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China

author

Yifu Guan

• Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China

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