Selective Differential Display of RNAs containing interspersed repeats: analysis of changes in the transcription of HERV-K LTRs in germ cell tumors

Mol Genet Genomics. 2002 Jan;266(5):796-805. doi: 10.1007/s00438-001-0596-7. Epub 2001 Oct 16.

Abstract

A technique for the Selective Differential Display of RNAs containing Interspersed Repeats (SDDIR) has been elaborated. SDDIR involves two main steps: (1) selective amplification by RT-PCR of a subset of the total cellular RNA containing a certain type of repetitive element, and (2) side-by-side display of the amplicons derived from the tissues under comparison by means of gel electrophoresis in parallel lanes. The technique was used to compare the expression of transcripts containing LTR (Long Terminal Repeat) sequences derived from human endogenous retrovirus K (HERV-K) in testicular germ cell tumors and in corresponding normal tissue. SDDIR enabled us to obtain an overview of LTRs represented in the total transcribed fraction and to reveal differences in transcription patterns of the LTRs in normal and tumor tissues. An unexpectedly large number of LTRs was found to be transcribed, and the levels of many of the transcripts differed between normal and tumor tissues.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • Endogenous Retroviruses / genetics*
  • Gene Expression
  • Gene Expression Profiling
  • Germinoma / genetics*
  • Germinoma / virology*
  • Humans
  • Interspersed Repetitive Sequences
  • Introns
  • Male
  • RNA, Neoplasm / genetics*
  • RNA, Viral / genetics*
  • Seminoma / genetics
  • Testicular Neoplasms / genetics*
  • Testicular Neoplasms / virology*
  • Transcription, Genetic

Substances

  • RNA, Neoplasm
  • RNA, Viral