High-resolution FISH of the entire integrated Epstein-Barr virus genome on extended human DNA

Cytogenetics and Cell Genetics
V S LestouP F Ambros

Abstract

Here we report a high-resolution fluorescence in situ hybridization (FISH) analysis of the integrated Epstein-Barr virus (EBV) genome in chromosomes, decondensed interphase nuclear chromatin, and linearly extended chromatin fibers. We analyzed the EBV DNA integrated into the human genome in the well-characterized Burkitt's lymphoma cell line Namalwa, which contains two complete EBV genomes. The integration occurs via the terminal repeats of the virus and was always detectable at chromosome band 1p35. Using the biotinylated BamHIW fragment of the viral DNA, we observed distinct pairs of signals or small nuclear RNA "tracks" within interphase nuclei. FISH to stretched DNA fibers has a higher resolving power and; therefore, enables analysis of the structural organization of DNA. Application of this methodology to linearly extended chromatin of Namalwa cells using different EBV fragments allowed us to visualize the ordered arrangement of the integrated virus. Based on the predicted span of 0.34 nm per base pair for relaxed DNA, length measurements of 30 images showed a good correlation between the mean physical length of hybridized EBV DNA of 52.8 microns (158 kb) without the terminal repeats, and the EBV genomic length of 172 kb, ...Continue Reading

Citations

Aug 1, 1998·Mutation Research·A K Raap
Aug 19, 1999·Journal of the National Cancer Institute·M BonnetI Joab
Nov 17, 2004·Modern Pathology : an Official Journal of the United States and Canadian Academy of Pathology, Inc·Elena E LeenmanValia S Lestou
Jan 29, 2010·Biotechnic & Histochemistry : Official Publication of the Biological Stain Commission·M L S MelloB C Vidal
Apr 23, 2008·Current Protocols in Human Genetics·Henry H Q HengLap-Chee Tsui

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