Abstract
To find single-nucleotide polymorphisms (SNPs) in the human genome, three modern technologies of molecular genetic analysis were combined: the ligase detection reaction (LDR), rolling circle amplification (RCA), and immobilized microarray of gel elements (IMAGE). SNPs were detected in target DNA by selective ligation of allele-specific nucleotides in microarrays. The ligation product was assayed in microarray gel pads by RCA. Two variants of microarray analysis were compared. One included selective ligation of short oligonu-cleotides immobilized in a microarray with subsequent amplification with a preformed circular probe (a common circle). The probe was especially designed for human genome research. The other variant employed immobilized allele-specific padlock probes, which could be circularized as a result of selective ligation. Codon 72 SNP of the human p53 gene was used as a model. RCA in microarrays proved to be a quantitative assay and, in combination with LDR, allowed efficient discrimination of alleles. The principles and prospects of LDR/RCA in microarrays are discussed.
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Translated from Molekulyarnaya Biologiya, Vol. 39, No. 1, 2005, pp. 30–39.
Original Russian Text Copyright © 2005 by Kashkin, Strizhkov, Gryadunov, Surzhikov, Grechishnikova, Kreindlin, Chupeeva, Evseev, Turygin, Mirzabekov.
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Kashkin, K.N., Strizhkov, B.N., Gryadunov, D.A. et al. Detection of single-nucleotide polymorphisms in the p53 gene by LDR/RCA in hydrogel microarrays. Mol Biol 39, 26–34 (2005). https://doi.org/10.1007/s11008-005-0004-1
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DOI: https://doi.org/10.1007/s11008-005-0004-1