Use of Real-Time Quantitative PCR to Validate the Results of cDNA Array and Differential Display PCR Technologies

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• 作者：Rajeevan ; Mangalathu S. ; Ranamukhaarachchi ; Daya G. ; Vernon ; Suzanne D. ; Unger ; Elizabeth R.
• 刊名：Methods
• 出版年：2001
• 出版时间：December, 2001
• 年：2001
• 卷：25
• 期：4
• 页码：443-451
• 全文大小：258 K

文摘

Real-time reverse transcription polymerase chain reaction (RT-PCR) methods that monitor product accumulation were adapted for the validation of differentially expressed genes. We describe a real-time quantitative PCR assay that uses SYBR Green I dye-based detection and product melting curve analysis to validate differentially expressed genes identified by gene expression profiling technologies. Since SYBR Green I dye is a nonspecific intercalating dye, the reaction is made specific by using “hot-start” PCR and empirically determined annealing and signal acquisition temperatures for each gene-specific primer. Relative expression levels were quantified by constructing a standard curve using cDNA dilutions of a highly expressed gene. Using this approach, real-time PCR validated 17 of 21 (71 % ) genes identified by DNA arrays, and all but 1 of 13 (91 % ) genes identified by differential display PCR (DD-PCR). Validation of differentially expressed genes detected by array analysis was related to hybridization intensity. Real-time RT-PCR results suggest that genes identified by DNA arrays with a two to fourfold difference in expression cannot be accepted as true or false without validation. Validation of differentially expressed genes detected by DD-PCR was not affected by band intensities. Regardless of the gene expression profiling technology (microarrays, DD-PCR, serial analysis of gene expression and subtraction hybridization), once the sequence of gene of interest is known, the real-time RT-PCR approach is well suited for validation of differential expression since it is quantitative and rapid and requires 1000-fold less RNA than conventional assays.