R.N. and R.D.W. contributed equally this work.
Delineation of a 1Mb breakpoint region at 1p13 in Wilms tumors by fine-tiling oligonucleotide array CGH
Version of Record online: 16 MAR 2007
Copyright © 2007 Wiley-Liss, Inc.
Genes, Chromosomes and Cancer
Volume 46, Issue 6, pages 607–615, June 2007
How to Cite
Natrajan, R., Williams, R. D., Grigoriadis, A., Mackay, A., Fenwick, K., Ashworth, A., Dome, J. S., Grundy, P. E., Pritchard-Jones, K. and Jones, C. (2007), Delineation of a 1Mb breakpoint region at 1p13 in Wilms tumors by fine-tiling oligonucleotide array CGH. Genes Chromosom. Cancer, 46: 607–615. doi: 10.1002/gcc.20446
- Issue online: 28 MAR 2007
- Version of Record online: 16 MAR 2007
- Manuscript Accepted: 27 FEB 2007
- Manuscript Received: 3 JAN 2007
- Cancer Research UK
- Breakthrough Breast Cancer
- Lisa Thaxter Trust
Wilms tumor karyotypes frequently exhibit recurrent, large-scale chromosomal imbalances, among the most common of which are concurrent loss of 1p and gain of 1q. We have previously identified a novel breakpoint at 1p13 by 1 Mb-spaced array CGH, and have now undertaken a fine-tiling oligonucleotide array approach to map the region accurately in four tumors exhibiting rearrangements at this locus. The use of a 10 bp-spaced platform revealed that all four tumors in fact harbored different breakpoints, which targeted intragenic sequences in PHTF1, DCLRE1B, and NRAS, and an intergenic region immediately downstream of TRIM33. All four genes and breakpoints were within the 1.78 Mb intervals identified by the genome-wide BAC arrays. The precise breakpoint interval was in each case mapped to a 200–1,200 bp region and was confirmed for one case to lie within intron 3 of DCLRE1B by quantitative PCR. Analysis of local genome architecture revealed no convincing conservation of repetitive sequences or specific translocation/recombination-associated elements within the breakpoint regions. This study highlights the power of fine-tiling oligonucleotide arrays to delineate breakpoint regions identified by genome-wide screens. © 2007 Wiley-Liss, Inc.