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Narrowing of the regions of allelic losses of chromosome 1p36 in meningioma tissues by an improved SSCP analysis
Author(s) -
Guan Yanlei,
Hata Nobuhiro,
Kuga Daisuke,
Yoshimoto Koji,
Mizoguchi Masahiro,
Shono Tadahisa,
Suzuki Satoshi O.,
Tahira Tomoko,
Kukita Yoji,
Higasa Koichiro,
Yokoyama Nobuhiko,
Nagata Shinji,
Iwaki Toru,
Sasaki Tomio,
Hayashi Kenshi
Publication year - 2007
Publication title -
international journal of cancer
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.475
H-Index - 234
eISSN - 1097-0215
pISSN - 0020-7136
DOI - 10.1002/ijc.23297
Subject(s) - loss of heterozygosity , biology , single strand conformation polymorphism , carcinogenesis , single nucleotide polymorphism , microsatellite , genetics , meningioma , snp , allele , chromosome , microbiology and biotechnology , gene , genotype , pathology , polymerase chain reaction , medicine
Mapping loss of heterozygosity (LOH) regions in the genomes of tumor tissues is a practical approach for identifying genes whose loss is related to tumorigenesis. Conventional LOH analyses using microsatellite or single nucleotide polymorphism (SNP) markers require the simultaneous examination of tumor‐ and matched normal‐DNA. Here, we improved the previously developed SNP‐based LOH assay using single strand conformation polymorphism (SSCP) analysis, so that LOH in tumor samples heavily contaminated with normal DNA can now be precisely estimated, even when matched normal DNA is not available. We demonstrate the reliability of the improved SSCP‐based LOH detection method, called the LOH estimation by quantitative SSCP analysis using averaged control (LOQUS‐AC), by comparing the results with those of the previous “LOH estimated by quantitative SSCP assay” (LOQUS) method. Using the LOQUS‐AC assay, LOH was detected at a high consistency (98.1%) with the previous LOQUS method. We then applied this new method to characterize LOH profiles in 130 meningiomas, using 68 SNPs (i.e., a mean inter‐SNP interval of 441 kbp) that are evenly distributed throughout chromosome 1p36. Benign, atypical and anaplastic meningiomas exhibited 1p36 LOH at frequencies of 48.39, 84.62 and 100.00%, respectively, using LOQUS‐AC. Subsequently, we detected a candidate common LOH region on 1p36.11 that might harbor tumor suppressor genes related to malignant progression of meningioma. © 2007 Wiley‐Liss, Inc.