Large DNA palindromes as a common form of structural chromosome aberrations in human cancers.

Human Cell
Hisashi TanakaStephen J Tapscott

Abstract

Breakage-fusion-bridge cycles contribute to chromosome aberrations and generate large DNA palindromes that facilitate oncogene amplification in cancer cells. At the molecular level, large DNA palindrome formation is initiated by chromosome breaks, and genomic architecture such as short inverted repeat sequences facilitates this process in mammalian cells. However, the prevalence of DNA palindromes in cancer cells is currently unknown. To determine the prevalence of DNA palindromes in human cancer cells, we have developed a new microarray-based approach called Genome-wide Analysis of Palindrome Formation (GAPF, Tanaka et al., Nat Genet 2005; 37: 320-7). This approach is based on a relatively simple and efficient method to purify "snap-back DNA" from large DNA palindromes by intramolecular base-pairing, followed by elimination of single-stranded DNA by nuclease S1. Comparison of Genome-wide Analysis of Palindrome Formation profiles between cancer and normal cells using microarray can identify genome-wide distributions of somatic palindromes. Using a human cDNA microarray, we have shown that DNA palindromes occur frequently in human cancer cell lines and primary medulloblastomas. Significant overlap of the loci containing DNA pali...Continue Reading

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Citations

Jul 15, 2009·Nature Reviews. Genetics·P J HastingsGrzegorz Ira
Aug 14, 2013·Genome Biology and Evolution·David Roy SmithRobert W Lee
Jun 3, 2014·BMC Genomics·Hui YangJeffrey Strathern
Jun 23, 2009·Journal of Biotechnology·Mark Nichols, Richard A Steinman
Jan 25, 2017·BMC Medical Genomics·Sandeep SubramanianMadhavi K Ganapathiraju
Dec 11, 2020·Human Genome Variation·Madhavi K GanapathirajuKalyani B Karunakaran
Apr 4, 2021·International Journal of Molecular Sciences·Marina Svetec Miklenić, Ivan Krešimir Svetec

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