Identification of a suitable qPCR reference gene in metastatic clear cell renal cell carcinoma
| Autor: | Agnieszka Rybarczyk, Marcin Matuszewski, Piotr M. Wierzbicki, Agata Wronska, Tomasz J. Slebioda, Zbigniew Kmieć, Marcin Stanisławowski, Jakub Klacz, Anna Kowalczyk |
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| Jazyk: | angličtina |
| Předmět: |
Male
Cancer Research Biopsy Biology Real-Time Polymerase Chain Reaction Metastasis RPL13 Quantitative PCR Renal cell carcinoma Gene expression medicine Humans Neoplasm Metastasis Carcinoma Renal Cell Aged Neoplasm Staging medicine.diagnostic_test Reverse Transcriptase Polymerase Chain Reaction Gene Expression Profiling ccRCC Reference gene General Medicine Middle Aged medicine.disease Primary tumor Molecular biology Kidney Neoplasms Gene expression profiling Gene Expression Regulation Neoplastic Clear cell renal cell carcinoma Real-time polymerase chain reaction GUSB Female RNA extraction Neoplasm Grading Research Article |
| Zdroj: | Tumour Biology |
| ISSN: | 1010-4283 |
| DOI: | 10.1007/s13277-014-2566-9 |
| Popis: | There is no data on reference gene (RG) selection in metastatic clear-cell renal cell carcinoma (mccRCC) for quantitative PCR (qPCR) data normalization. We aimed at selecting the most stable RG for further determination of new prognostic markers. Thirty-five nonmetastatic and 35 mccRCC patients undergoing radical nephrectomy were included. Paired primary tumor (T, n = 70) and normal (C, n = 70) kidney fragments were collected; from 12 out of 35 mccRCC cases, we also collected metastasized regional lymph nodes and adrenal gland tissues (M, n = 12). After RNA extraction, reverse transcription and qPCR were performed. Samples were divided into four analyzed groups. Fifteen candidate RGs were tested by RefFinder tool and manual statistics. To present the importance of RG selection, TP53 gene expression levels in samples were normalized with the use of RG data. RPL13 gene was the most stable RG in analysis of 35 primary tumor nonmetastatic versus 35 mccRCC samples and matched metastasized T/C/M samples (n = 12, each group). GUSB was the most suitable RG in total 152 samples and in paired T and C (n = 140) kidney samples. Expression of GUSB, RPL13, and the RPL13 + RPLP0 pair were independent of clinical/sample variables. Normalization of TP53 expression levels showed variability of GAPDH and ACTB assays. GUSB or RPL13 assays should be used in mccRCC for qPCR data normalization whereas GAPDH and ACTB assays should be avoided. Prior RG studies should precede each qPCR gene expression study since RG selection is associated with the origin and proportion of specimens. Electronic supplementary material The online version of this article (doi:10.1007/s13277-014-2566-9) contains supplementary material, which is available to authorized users. |
| Databáze: | OpenAIRE |
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