Assessment of ribozyme cleavage efficiency using reverse transcriptase real-time PCR

Dagmar Klein, Melvin Denis, Camillo Ricordi, Ricardo Pastori

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

Real-time PCR is a novel technology recently described to perform quantitative analysis of amplified products. Unlike classical quantitative PCR, this method is easy to standardize, does not required extensive manipulation, and is not reagent intensive, so that the risk of contamination is minimized. Therefore, we have chosen reverse transcriptase real-time PCR to quantitate CD95 (Fas) transcripts to test the cleavage efficiency of anti- Fas ribozymes in the mouse insulinoma cell line βTC-3. Based on the melting- curve analysis of the amplified products, we determined the temperature at which to collect the fluorescent data used for quantification. After constructing a standard curve by plotting the log of the standards' copy number versus their fractional cycle number, the copy numbers of the unknown samples were automatically determined by interpolation of this curve. As we illustrate in this study, it is important, particularly while setting up the technique, to validate the melting-curve profile with standard gel electrophoresis analysis, achieved by matching melting temperature and size of the amplified product. The method is fast and reproducible: Excluding the isolation of RNA and synthesis of cDNA, the results can be obtained in less than 1 hr. The coefficient of variance is 15% in the range of 104-106 gene copies. Accordingly, reverse transcriptase (RT) real-time PCR is a technique suitable for screening a large number of ribozymes.

Original languageEnglish
Pages (from-to)189-195
Number of pages7
JournalApplied Biochemistry and Biotechnology - Part B Molecular Biotechnology
Volume14
Issue number3
StatePublished - Jul 24 2000

Fingerprint

Catalytic RNA
RNA-Directed DNA Polymerase
Reverse Transcriptase Polymerase Chain Reaction
Freezing
Real-Time Polymerase Chain Reaction
Melting
Insulinoma
Temperature
Electrophoresis
RNA
Melting point
Interpolation
Screening
Contamination
Gels
Complementary DNA
Genes
Cells
Technology
Cell Line

Keywords

  • βTC-3 cells
  • CD95 (Fas)
  • Insulinoma cell lines
  • Real-time PCR
  • Ribozymes

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry
  • Biotechnology
  • Applied Microbiology and Biotechnology
  • Bioengineering

Cite this

Assessment of ribozyme cleavage efficiency using reverse transcriptase real-time PCR. / Klein, Dagmar; Denis, Melvin; Ricordi, Camillo; Pastori, Ricardo.

In: Applied Biochemistry and Biotechnology - Part B Molecular Biotechnology, Vol. 14, No. 3, 24.07.2000, p. 189-195.

Research output: Contribution to journalArticle

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