Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues
<p>Abstract</p> <p>Background</p> <p>Cell lines are commonly used in various kinds of biomedical research in the world. However, it remains uncertain whether genomic alterations existing in primary tumor tissues are represented in cell lines and whether cell lines carry...
| Main Authors: | , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2010-01-01
|
| Series: | BMC Cancer |
| Online Access: | http://www.biomedcentral.com/1471-2407/10/15 |
| _version_ | 1811317704260321280 |
|---|---|
| author | Oka Masaaki Nakao Motonao Yamamoto Shigeru Ikemoto Kenzo Furuya Tomoko Saito Soichiro Kawauchi Shigeto Tsuji Katumi Hirano Takashi Sasaki Kohsuke |
| author_facet | Oka Masaaki Nakao Motonao Yamamoto Shigeru Ikemoto Kenzo Furuya Tomoko Saito Soichiro Kawauchi Shigeto Tsuji Katumi Hirano Takashi Sasaki Kohsuke |
| author_sort | Oka Masaaki |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Cell lines are commonly used in various kinds of biomedical research in the world. However, it remains uncertain whether genomic alterations existing in primary tumor tissues are represented in cell lines and whether cell lines carry cell line-specific genomic alterations. This study was performed to answer these questions.</p> <p>Methods</p> <p>Array-based comparative genomic hybridization (CGH) was employed with 4030 bacterial artificial chromosomes (BACs) that cover the genome at 1.0 megabase resolution to analyze DNA copy number aberrations (DCNAs) in 35 primary breast tumors and 24 breast cancer cell lines. DCNAs were compared between these two groups. A tissue microdissection technique was applied to primary tumor tissues to reduce the contamination of samples by normal tissue components.</p> <p>Results</p> <p>The average number of BAC clones with DCNAs was 1832 (45.3% of spotted clones) and 971 (24.9%) for cell lines and primary tumor tissues, respectively. Gains of 1q and 8q and losses of 8p, 11q, 16q and 17p were detected in >50% of primary cancer tissues. These aberrations were also frequently detected in cell lines. In addition to these alterations, the cell lines showed recurrent genomic alterations including gains of 5p14-15, 20q11 and 20q13 and losses of 4p13-p16, 18q12, 18q21, Xq21.1 and Xq26-q28 that were barely detected in tumor tissue specimens. These are considered to be cell line-specific DCNAs. The frequency of the HER2 amplification was high in both cell lines and tumor tissues, but it was statistically different between cell lines and primary tumors (P = 0.012); 41.3 ± 29.9% for the cell lines and 15.9 ± 18.6% for the tissue specimens.</p> <p>Conclusions</p> <p>Established cell lines carry cell lines-specific DCNAs together with recurrent aberrations detected in primary tumor tissues. It must therefore be emphasized that cell lines do not always represent the genotypes of parental tumor tissues.</p> |
| first_indexed | 2024-04-13T12:12:58Z |
| format | Article |
| id | doaj.art-84eb0af505c04885883bdc8e0c3ab4cb |
| institution | Directory Open Access Journal |
| issn | 1471-2407 |
| language | English |
| last_indexed | 2024-04-13T12:12:58Z |
| publishDate | 2010-01-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Cancer |
| spelling | doaj.art-84eb0af505c04885883bdc8e0c3ab4cb2022-12-22T02:47:26ZengBMCBMC Cancer1471-24072010-01-011011510.1186/1471-2407-10-15Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissuesOka MasaakiNakao MotonaoYamamoto ShigeruIkemoto KenzoFuruya TomokoSaito SoichiroKawauchi ShigetoTsuji KatumiHirano TakashiSasaki Kohsuke<p>Abstract</p> <p>Background</p> <p>Cell lines are commonly used in various kinds of biomedical research in the world. However, it remains uncertain whether genomic alterations existing in primary tumor tissues are represented in cell lines and whether cell lines carry cell line-specific genomic alterations. This study was performed to answer these questions.</p> <p>Methods</p> <p>Array-based comparative genomic hybridization (CGH) was employed with 4030 bacterial artificial chromosomes (BACs) that cover the genome at 1.0 megabase resolution to analyze DNA copy number aberrations (DCNAs) in 35 primary breast tumors and 24 breast cancer cell lines. DCNAs were compared between these two groups. A tissue microdissection technique was applied to primary tumor tissues to reduce the contamination of samples by normal tissue components.</p> <p>Results</p> <p>The average number of BAC clones with DCNAs was 1832 (45.3% of spotted clones) and 971 (24.9%) for cell lines and primary tumor tissues, respectively. Gains of 1q and 8q and losses of 8p, 11q, 16q and 17p were detected in >50% of primary cancer tissues. These aberrations were also frequently detected in cell lines. In addition to these alterations, the cell lines showed recurrent genomic alterations including gains of 5p14-15, 20q11 and 20q13 and losses of 4p13-p16, 18q12, 18q21, Xq21.1 and Xq26-q28 that were barely detected in tumor tissue specimens. These are considered to be cell line-specific DCNAs. The frequency of the HER2 amplification was high in both cell lines and tumor tissues, but it was statistically different between cell lines and primary tumors (P = 0.012); 41.3 ± 29.9% for the cell lines and 15.9 ± 18.6% for the tissue specimens.</p> <p>Conclusions</p> <p>Established cell lines carry cell lines-specific DCNAs together with recurrent aberrations detected in primary tumor tissues. It must therefore be emphasized that cell lines do not always represent the genotypes of parental tumor tissues.</p>http://www.biomedcentral.com/1471-2407/10/15 |
| spellingShingle | Oka Masaaki Nakao Motonao Yamamoto Shigeru Ikemoto Kenzo Furuya Tomoko Saito Soichiro Kawauchi Shigeto Tsuji Katumi Hirano Takashi Sasaki Kohsuke Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues BMC Cancer |
| title | Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues |
| title_full | Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues |
| title_fullStr | Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues |
| title_full_unstemmed | Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues |
| title_short | Breast cancer cell lines carry cell line-specific genomic alterations that are distinct from aberrations in breast cancer tissues: Comparison of the CGH profiles between cancer cell lines and primary cancer tissues |
| title_sort | breast cancer cell lines carry cell line specific genomic alterations that are distinct from aberrations in breast cancer tissues comparison of the cgh profiles between cancer cell lines and primary cancer tissues |
| url | http://www.biomedcentral.com/1471-2407/10/15 |
| work_keys_str_mv | AT okamasaaki breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT nakaomotonao breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT yamamotoshigeru breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT ikemotokenzo breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT furuyatomoko breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT saitosoichiro breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT kawauchishigeto breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT tsujikatumi breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT hiranotakashi breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues AT sasakikohsuke breastcancercelllinescarrycelllinespecificgenomicalterationsthataredistinctfromaberrationsinbreastcancertissuescomparisonofthecghprofilesbetweencancercelllinesandprimarycancertissues |