Integrative analysis of the mitochondrial proteome in yeast.
Integrative analysis of the mitochondrial proteome in yeast.
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DOI：
10.1371/journal.pbio.0020160
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发表时间：
2004-06
期刊：
影响因子：
9.8
通讯作者：
Steinmetz LM
中科院分区：
文献类型：
--
作者：
Prokisch H;Scharfe C;Camp DG 2nd;Xiao W;David L;Andreoli C;Monroe ME;Moore RJ;Gritsenko MA;Kozany C;Hixson KK;Mottaz HM;Zischka H;Ueffing M;Herman ZS;Davis RW;Meitinger T;Oefner PJ;Smith RD;Steinmetz LM
在这项研究中，酵母线粒体被用作一个模型系统，应用，评估和整合不同的基因组方法来定义一个细胞器的蛋白质。液相色谱质谱法应用于纯化的线粒体鉴定了546种蛋白质。通过表达分析和其他蛋白质组研究的比较，我们证明了蛋白质组学方法主要是识别高度丰富的蛋白质。通过将我们的评估扩展到其他类型的基因组方法，包括系统性缺失表型筛选、表达谱分析、亚细胞定位研究、蛋白质相互作用分析和计算预测，我们表明了方法的整合超越了任何单一方法的局限性。我们报告了每种方法的成功，通过将其与已知线粒体蛋白的参考集进行基准测试，并从22个数据集的整合中预测了大约700种与线粒体细胞器相关的蛋白。我们表明，互补的方法，如缺失表型筛选和质谱分析的组合可以识别超过75%的已知线粒体蛋白质组。这些发现对于选择最佳的全基因组方法来研究其他细胞系统，包括各种物种的细胞器和途径具有重要意义。此外，我们系统地鉴定了酵母中参与线粒体功能和生物发生的基因，扩展了可用于人类孟德尔和复杂线粒体疾病作图的候选基因。虽然个别方法达不到，但整合多种常见的遗传和生物化学方法产生的线粒体蛋白质描述超过其部分的总和
In this study yeast mitochondria were used as a model system to apply, evaluate, and integrate different genomic approaches to define the proteins of an organelle. Liquid chromatography mass spectrometry applied to purified mitochondria identified 546 proteins. By expression analysis and comparison to other proteome studies, we demonstrate that the proteomic approach identifies primarily highly abundant proteins. By expanding our evaluation to other types of genomic approaches, including systematic deletion phenotype screening, expression profiling, subcellular localization studies, protein interaction analyses, and computational predictions, we show that an integration of approaches moves beyond the limitations of any single approach. We report the success of each approach by benchmarking it against a reference set of known mitochondrial proteins, and predict approximately 700 proteins associated with the mitochondrial organelle from the integration of 22 datasets. We show that a combination of complementary approaches like deletion phenotype screening and mass spectrometry can identify over 75% of the known mitochondrial proteome. These findings have implications for choosing optimal genome-wide approaches for the study of other cellular systems, including organelles and pathways in various species. Furthermore, our systematic identification of genes involved in mitochondrial function and biogenesis in yeast expands the candidate genes available for mapping Mendelian and complex mitochondrial disorders in humans. Although individual approaches fall short, integrating multiple common genetic and biochemical approaches yields a description of mitochondrial proteins that is more than the sum of its parts
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影响因子：
7.4
作者：
Shen, YF;Zhao, R;Smith, RD
通讯作者：
Smith, RD
影响因子：
64.8
作者：
Gavin, AC;Bösche, M;Superti-Furga, G
通讯作者：
Superti-Furga, G
影响因子：
14.9
作者：
Mewes, HW;Frishman, D;Weil, B
通讯作者：
Weil, B
DOI：
10.1073/pnas.172170199
发表时间：
2002-08-20
影响因子：
11.1
作者：
Lipton, MS;Pasa-Tolic, L;Smith, RD
通讯作者：
Smith, RD
影响因子：
4.8
作者：
Ohlmeier, S;Kastaniotis, AJ;Bergmann, U
通讯作者：
Bergmann, U