Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data
Hypoxia affects the tumor microenvironment and is considered important to metastasis progression and therapy resistance. Thus far, the majority of global analyses of tumor hypoxia responses have been limited to just a single omics level. Combining multiple omics data can broaden our understanding of...
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| Format: | Article |
| Language: | English |
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MDPI AG
2013-05-01
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| Series: | Cancers |
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| Online Access: | http://www.mdpi.com/2072-6694/5/2/491 |
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| author | Yufeng Jane Tseng Wen-Mei Fu Ching-Hua Kuo San-Yuan Wang Yeu-Chern Harn Tsung-Jung Ho I-Lin Tsai Tien-Chueh Kuo |
| author_facet | Yufeng Jane Tseng Wen-Mei Fu Ching-Hua Kuo San-Yuan Wang Yeu-Chern Harn Tsung-Jung Ho I-Lin Tsai Tien-Chueh Kuo |
| author_sort | Yufeng Jane Tseng |
| collection | DOAJ |
| description | Hypoxia affects the tumor microenvironment and is considered important to metastasis progression and therapy resistance. Thus far, the majority of global analyses of tumor hypoxia responses have been limited to just a single omics level. Combining multiple omics data can broaden our understanding of tumor hypoxia. Here, we investigate the temporal change of the metabolite composition with gene expression data from literature to provide a more comprehensive insight into the system level in response to hypoxia. Nuclear magnetic resonance spectroscopy was used to perform metabolomic profiling on the MDA-MB-231 breast cancer cell line under hypoxic conditions. Multivariate statistical analysis revealed that the metabolic difference between hypoxia and normoxia was similar over 24 h, but became distinct over 48 h. Time dependent microarray data from the same cell line in the literature displayed different gene expressions under hypoxic and normoxic conditions mostly at 12 h or earlier. The direct metabolomic profiles show a large overlap with theoretical metabolic profiles deduced from previous transcriptomic studies. Consistent pathways are glycolysis/gluconeogenesis, pyruvate, purine and arginine and proline metabolism. Ten metabolic pathways revealed by metabolomics were not covered by the downstream of the known transcriptomic profiles, suggesting new metabolic phenotypes. These results confirm previous transcriptomics understanding and expand the knowledge from existing models on correlation and co-regulation between transcriptomic and metabolomics profiles, which demonstrates the power of integrated omics analysis. |
| first_indexed | 2024-03-12T07:08:44Z |
| format | Article |
| id | doaj.art-0763d867a6774640b38e30a1f80799f3 |
| institution | Directory Open Access Journal |
| issn | 2072-6694 |
| language | English |
| last_indexed | 2024-03-12T07:08:44Z |
| publishDate | 2013-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Cancers |
| spelling | doaj.art-0763d867a6774640b38e30a1f80799f32023-09-02T23:13:39ZengMDPI AGCancers2072-66942013-05-015249151010.3390/cancers5020491Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics DataYufeng Jane TsengWen-Mei FuChing-Hua KuoSan-Yuan WangYeu-Chern HarnTsung-Jung HoI-Lin TsaiTien-Chueh KuoHypoxia affects the tumor microenvironment and is considered important to metastasis progression and therapy resistance. Thus far, the majority of global analyses of tumor hypoxia responses have been limited to just a single omics level. Combining multiple omics data can broaden our understanding of tumor hypoxia. Here, we investigate the temporal change of the metabolite composition with gene expression data from literature to provide a more comprehensive insight into the system level in response to hypoxia. Nuclear magnetic resonance spectroscopy was used to perform metabolomic profiling on the MDA-MB-231 breast cancer cell line under hypoxic conditions. Multivariate statistical analysis revealed that the metabolic difference between hypoxia and normoxia was similar over 24 h, but became distinct over 48 h. Time dependent microarray data from the same cell line in the literature displayed different gene expressions under hypoxic and normoxic conditions mostly at 12 h or earlier. The direct metabolomic profiles show a large overlap with theoretical metabolic profiles deduced from previous transcriptomic studies. Consistent pathways are glycolysis/gluconeogenesis, pyruvate, purine and arginine and proline metabolism. Ten metabolic pathways revealed by metabolomics were not covered by the downstream of the known transcriptomic profiles, suggesting new metabolic phenotypes. These results confirm previous transcriptomics understanding and expand the knowledge from existing models on correlation and co-regulation between transcriptomic and metabolomics profiles, which demonstrates the power of integrated omics analysis.http://www.mdpi.com/2072-6694/5/2/4911H-NMR spectroscopymetabolic networkmetabolomicsmultivariate analysistumor hypoxia |
| spellingShingle | Yufeng Jane Tseng Wen-Mei Fu Ching-Hua Kuo San-Yuan Wang Yeu-Chern Harn Tsung-Jung Ho I-Lin Tsai Tien-Chueh Kuo Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data Cancers 1H-NMR spectroscopy metabolic network metabolomics multivariate analysis tumor hypoxia |
| title | Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data |
| title_full | Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data |
| title_fullStr | Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data |
| title_full_unstemmed | Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data |
| title_short | Metabolomic Dynamic Analysis of Hypoxia in MDA-MB-231 and the Comparison with Inferred Metabolites from Transcriptomics Data |
| title_sort | metabolomic dynamic analysis of hypoxia in mda mb 231 and the comparison with inferred metabolites from transcriptomics data |
| topic | 1H-NMR spectroscopy metabolic network metabolomics multivariate analysis tumor hypoxia |
| url | http://www.mdpi.com/2072-6694/5/2/491 |
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