Identification of suitable reference genes for hepatic microRNA quantitation

Vishal Lamba, Yogita Ghodke-Puranik, Weihua Guan, Jatinder K. Lamba

Research output: Contribution to journalArticle

36 Scopus citations

Abstract

Background: MicroRNAs (miRNAs) are short (∼22 nt) endogenous RNAs that play important roles in regulating expression of a wide variety of genes involved in different cellular processes. Alterations in microRNA expression patterns have been associated with a number of human diseases. Accurate quantitation of microRNA levels is important for their use as biomarkers and in determining their functions. Real time PCR is the gold standard and the most frequently used technique for miRNA quantitation. Real time PCR data analysis includes normalizing the amplification data to suitable endogenous control/s to ensure that microRNA quantitation is not affected by the variability that is potentially introduced at different experimental steps. U6 (RNU6A) and RNU6B are two commonly used endogenous controls in microRNA quantitation. The present study was designed to investigate inter-individual variability and gender differences in hepatic microRNA expression as well as to identify the best endogenous control/s that could be used for normalization of real-time expression data in liver samples. Methods. We used Taqman based real time PCR to quantitate hepatic expression levels of 22 microRNAs along with U6 and RNU6B in 50 human livers samples (25 M, 25 F). To identify the best endogenous controls for use in data analysis, we evaluated the amplified candidates for their stability (least variability) in expression using two commonly used software programs: Normfinder and GeNormplus,. Results: Both Normfinder and GeNormplus identified U6 to be among the least stable of all the candidates analyzed, and RNU6B was also not among the top genes in stability. mir-152 and mir-23b were identified to be the two most stable candidates by both Normfinder and GeNormplus in our analysis, and were used as endogenous controls for normalization of hepatic miRNA levels. Conclusion: Measurements of microRNA stability indicate that U6 and RNU6B are not suitable for use as endogenous controls for normalizing microRNA relative quantitation data in hepatic tissue, and their use can led to possibly erroneous conclusions.

Original languageEnglish (US)
Article number129
JournalBMC Research Notes
Volume7
Issue number1
DOIs
StatePublished - Mar 7 2014

Keywords

  • Endogenous controls
  • Hepatic
  • Normalization
  • Real-time quantification
  • miRNA expression
  • microRNAs

Fingerprint Dive into the research topics of 'Identification of suitable reference genes for hepatic microRNA quantitation'. Together they form a unique fingerprint.

Cite this