Label-free genotyping of single-nucleotide polymorphisms for DNA and RNA targets using a cationic polythiophene derivate.
By using the specific primer extension reaction, a new assay for genotyping of single-nucleotide polymorphisms (SNPs) has been demonstrated. The assay relies on the conformational and colorimetric change of water-soluble polythiophene derivative, poly[3-(3'-N,N,N-triethylamino-1'-propyloxy)-4-methyl-2,5-thiophene hydrochloride] (PMNT), upon forming interpolyelectrolyte complex with extended double strand DNA and non-extended single strand DNA. All three kinds of SNP genotypes can be colorimetrically identified with one primer extension reaction in homogeneous solution. Moreover, combining with the specific digestion of RNA strands in the RNA/DNA hybrids, the proposed assay can also be applied to SNP genotyping for RNA templates. The SNP genotyping assay does not require chemical modification of oligonucleotide probes and nucleic acid targets and any separation step. It would be useful for routinely SNP detection in ordinary laboratories.
Zhang
Yali
Y
Key Laboratory of Medicine Chemistry and Molecular Diagnosis, Ministry of Education, College of Chemistry and Environmental Science, Hebei University, No. 180, East Wusi Road, Baoding 071002, Hebei Province, PR China.
Li
Zhengping
Z
Cheng
Yongqiang
Y
Wang
Yucong
Y
D002412:Cations; D003124:Colorimetry; D004247:DNA / Q000235:genetics*; D004252:DNA Mutational Analysis / Q000379:methods*; D005821:Genetic Techniques; D005838:Genotype; D015335:Molecular Probes / Q000737:chemistry; D011108:Polymers / Q000737:chemistry; D020641:Polymorphism, Single Nucleotide; D012313:RNA / Q000235:genetics*; D013876:Thiophenes / Q000737:chemistry
D002412:Cations; D015335:Molecular Probes; D011108:Polymers; D013876:Thiophenes; C066730:polythiophene; D012313:RNA; D004247:DNA