Adati Naoki, Huang Ming-Chih, Suzuki Takahiro, Suzuki Harukazu, Kojima Toshio
Computational Systems Biology Research Group, RIKEN Advanced Science Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.
BMC Res Notes. 2009 Jul 27;2:153. doi: 10.1186/1756-0500-2-153.
THP-1 is a human monocytic leukemia cell line derived from a patient with acute monocytic leukemia. The cell line differentiates into macrophage-like cells by stimulation with phorbol myristate acetate (PMA). Although it has been used frequently as a model for macrophage differentiation in research including the FANTOM4/Genome Network Project, there are few reports on its genomic constitution. Therefore, we attempted to reveal the genomic aberrations in these cells with the microarray-based comparative genomic hybridization (aCGH) technique.
We report large aberrations, including deletions 6p, 12p, 17p, and trisomy 8, and revealed breakpoints in the MLL and MLLT3 genes. Moreover, we found novel genomic aberrations such as a hemizygous narrow deletion partially containing the TP73 gene and homozygous deletions, including the CDKN2A, CDKN2B and PTEN genes.
In this study, we identified 119 aberrant regions in autosomal chromosomes, and at least 16 of these aberrations were less than 100 kb, most of which were undetectable in the previous works. We also revealed a total of 4.6 Mb of homozygous deleted regions. Our results will provide a base to precisely understand studies involving the THP-1 cell line, especially the huge amount of data generated from the FANTOM4/Genome Network Project.
THP-1是一种源自急性单核细胞白血病患者的人单核细胞白血病细胞系。该细胞系通过佛波酯（PMA）刺激分化为巨噬细胞样细胞。尽管它在包括FANTOM4/基因组网络项目在内的研究中经常被用作巨噬细胞分化的模型，但关于其基因组构成的报道却很少。因此，我们尝试用基于微阵列的比较基因组杂交（aCGH）技术揭示这些细胞中的基因组畸变。
我们报告了包括6p、12p、17p缺失和8号染色体三体在内的大片段畸变，并揭示了MLL和MLLT3基因中的断点。此外，我们还发现了新的基因组畸变，如部分包含TP73基因的半合子狭窄缺失以及包括CDKN2A、CDKN2B和PTEN基因在内的纯合缺失。
在本研究中，我们在常染色体中鉴定出119个异常区域，其中至少16个异常区域小于100 kb，大多数在以前的研究中无法检测到。我们还揭示了总共4.6 Mb的纯合缺失区域。我们的结果将为精确理解涉及THP-1细胞系的研究提供基础，特别是从FANTOM4/基因组网络项目产生的大量数据。
