Abstract
Deletions of chromosome 6 are a common abnormality in diverse human malignancies including astrocytic tumours, suggesting the presence of tumour suppressor genes (TSG). In order to help identify candidate TSGs, we have constructed a chromosome 6 tile path microarray. The array contains 1780 clones (778 P1-derived artificial chromosome and 1002 bacterial artificial chromosome) that cover 98.3% of the published chromosome 6 sequences. A total of 104 adult astrocytic tumours (10 diffuse astrocytomas, 30 anaplastic astrocytomas (AA), 64 glioblastomas (GB)) were analysed using this array. Single copy number change was successfully detected and the result was in general concordant with a microsatellite analysis. The pattern of copy number change was complex with multiple interstitial deletions/gains. However, a predominance of telomeric 6q deletions was seen. Two small common and overlapping regions of deletion at 6q26 were identified. One was 1002?kb in size and contained PACRG and QKI, while the second was 199?kb and harbours a single gene, ARID1B. The data show that the chromosome 6 tile path array is useful in mapping copy number changes with high resolution and accuracy. We confirmed the high frequency of chromosome 6 deletions in AA and GB, and identified two novel commonly deleted regions that may harbour TSGs.
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Abbreviations
- CGH:
-
comparative genomic hybridization
- TSG:
-
tumour suppressor gene
- MSA:
-
microsatellite analysis
- PAC:
-
P1-derived artificial chromosome
- BAC:
-
bacterial artificial chromosome
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Acknowledgements
We thank the Mapping Core, Map Finishing and Microarray Facility groups of the Wellcome Trust Sanger Institute, Hinxton, UK, for initial clone supply and verification, the Centre for Microarray resources in the Department of Pathology, University of Cambridge, for printing of the arrays, and David A Carter for excellent technical assistance. This work was supported by grants from Cancer Research UK, The Jacqueline Seroussi Memorial Foundation for Cancer Research, Samantha Dickson Research Trust, CAMPOD, the Ludwig Institute for Cancer Research and the Wellcome Trust.
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Ichimura, K., Mungall, A., Fiegler, H. et al. Small regions of overlapping deletions on 6q26 in human astrocytic tumours identified using chromosome 6 tile path array-CGH. Oncogene 25, 1261–1271 (2006). https://doi.org/10.1038/sj.onc.1209156
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DOI: https://doi.org/10.1038/sj.onc.1209156
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