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

Content Provider	Springer Nature Link
Author	Tanaka, Hisashi Bergstrom, Donald A. Yao, Meng Chao Tapscott, Stephen J.
Copyright Year	2006
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 palindromes between Colo320DM and MCF7 cancer cell lines suggests regions in the genome susceptible to chromosome breaks and palindrome formation. A subset of loci containing palindromes is associated with gene amplification in Colo320DM, indicating that the location of palindromes in the cancer genome serves as a structural platform that supports subsequent gene amplification.
Starting Page	17
Ending Page	23
Page Count	7
File Format	PDF
ISSN	09147470
Journal	Human Cell
Volume Number	19
Issue Number	1
e-ISSN	17490774
Language	English
Publisher	Springer-Verlag
Publisher Date	2006-01-01
Publisher Place	Tokyo
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	DNA palindrome GAPF gene amplification genome instability Cell Biology Embryology Oncology Stem Cells Reproductive Medicine Cell Culture
Content Type	Text
Resource Type	Article
Subject	Cell Biology Medicine Cancer Research

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