An attempt to understand kidney's protein handling function by comparing plasma and urine proteomes.
An attempt to understand kidney's protein handling function by comparing plasma and urine proteomes.
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DOI：
10.1371/journal.pone.0005146
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发表时间：
2009
期刊：
影响因子：
3.7
通讯作者：
Gao Y
中科院分区：
文献类型：
--
作者：
Jia L;Zhang L;Shao C;Song E;Sun W;Li M;Gao Y
在蛋白质组学技术的帮助下，人类血浆和尿液蛋白质组分别代表了肾脏输入和输出的蛋白质组成，不同的研究团队已经对其进行了更详细的分析。已经积累了许多数据集以形成血浆和尿蛋白质组的“参考谱”。比较这两种蛋白质组可以帮助我们了解蛋白质处理方面的肾功能的方式，然而，这一直是不可用的，直到最近的进展，蛋白质组学技术。在去除肾脏下游的分泌蛋白质后，以高置信度鉴定了血浆中的2611种蛋白质和尿液中的1522种蛋白质，并基于可用的蛋白质组学数据进行比较，以产生三种亚蛋白质组，即仅血浆亚蛋白质组、血浆和尿液亚蛋白质组以及仅尿液亚蛋白质组，并且它们对应于由肾脏以三种不同方式处理的三组蛋白质。收集并分析了三个亚蛋白质组中蛋白质的可用实验分子量。由于在血浆和尿亚蛋白质组中过度表达的蛋白质的功能可能是在生理条件下可以通过从肾脏排泄来常规调节的主要功能，因此分析了血浆和尿亚蛋白质组与整个血浆蛋白质组中的基因本体论术语富集。蛋白酶活性，钙和生长因子结合蛋白，凝血和免疫反应相关蛋白被发现富集。本文描述的比较方法提供了一个新的方法与蛋白质组学方法研究器官功能的说明。由于其独特的输入（血浆）和输出（尿液），可以合理地预测肾脏将是第一个在不久的将来通过蛋白质组学方法进一步阐明其功能的器官。可以预见，蛋白质组学在器官功能研究中将有更多的应用。
With the help of proteomics technology, the human plasma and urine proteomes, which closely represent the protein compositions of the input and output of the kidney, respectively, have been profiled in much greater detail by different research teams. Many datasets have been accumulated to form “reference profiles” of the plasma and urine proteomes. Comparing these two proteomes may help us understand the protein handling aspect of kidney function in a way, however, which has been unavailable until the recent advances in proteomics technology. After removing secreted proteins downstream of the kidney, 2611 proteins in plasma and 1522 in urine were identified with high confidence and compared based on available proteomic data to generate three subproteomes, the plasma-only subproteome, the plasma-and-urine subproteome, and the urine-only subproteome, and they correspond to three groups of proteins that are handled in three different ways by the kidney. The available experimental molecular weights of the proteins in the three subproteomes were collected and analyzed. Since the functions of the overrepresented proteins in the plasma-and-urine subproteome are probably the major functions that can be routinely regulated by excretion from the kidney in physiological conditions, Gene Ontology term enrichment in the plasma-and-urine subproteome versus the whole plasma proteome was analyzed. Protease activity, calcium and growth factor binding proteins, and coagulation and immune response-related proteins were found to be enriched. The comparison method described in this paper provides an illustration of a new approach for studying organ functions with a proteomics methodology. Because of its distinctive input (plasma) and output (urine), it is reasonable to predict that the kidney will be the first organ whose functions are further elucidated by proteomic methods in the near future. It can also be anticipated that there will be more applications for proteomics in organ function research.
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