Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes.
Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes.
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DOI：
10.1371/journal.pbio.1000048
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发表时间：
2009-03-03
期刊：
影响因子：
9.8
通讯作者：
Hengartner MO
中科院分区：
文献类型：
--
作者：
Schrimpf SP;Weiss M;Reiter L;Ahrens CH;Jovanovic M;Malmström J;Brunner E;Mohanty S;Lercher MJ;Hunziker PE;Aebersold R;von Mering C;Hengartner MO
线虫秀丽隐杆线虫是遗传学中流行的模式系统，尤其是因为大多数人类疾病基因在秀丽隐杆线虫中是保守的。优美的为了产生其表达的蛋白质组的全面清单，我们进行了广泛的鸟枪蛋白质组学，并确定了超过一半的预测C。elegans蛋白。这使我们能够确认和扩展基因组注释，描述操纵子在C。elegans，并半定量地推断数以千计的蛋白质的丰度水平。此外，据我们所知，我们第一次能够比较两种动物蛋白质组（C。elegans和Drosophila melanogaster）。我们发现，在后生动物中的orthostransferase蛋白的丰度相关性非常好，比蛋白质丰度与每个生物体内的转录本丰度或跨生物体的转录本丰度更好;这表明转录本丰度的变化可能在进化过程中被蛋白质丰度的相反变化部分抵消。蛋白质是执行细胞遗传程序的活跃参与者，它们的水平和相互作用受到精确控制。对成千上万的蛋白质进行连续监测是很困难的，因为它们可能以不同的丰度存在，具有不同的大小，形状和电荷，并且具有更复杂的20个“字母”的字母表，而基因组本身只有4个字母。在这里，我们使用质谱法来广泛表征一个流行的模式生物，线虫秀丽隐杆线虫的蛋白质。结合之前果蝇（Drosophila melanogaster）的数据，这使我们能够在全球范围内比较两种动物的蛋白质水平。令人惊讶的是，我们发现，个别蛋白质丰度是高度保守的两个物种之间。因此，尽管蠕虫和苍蝇看起来非常不同，但它们需要类似数量的保守的正向蛋白。因为很多C。elegans和D.虽然黑胃蛋白质在人类中也有对应物，但我们的研究结果表明，类似的规则可能适用于我们自己的蛋白质。两种动物蛋白质组的定量比较显示蛋白质丰度水平的显著相关性，比转录水平更好的相关性。在进化过程中，后者的变化更大吗？
The nematode Caenorhabditis elegans is a popular model system in genetics, not least because a majority of human disease genes are conserved in C. elegans. To generate a comprehensive inventory of its expressed proteome, we performed extensive shotgun proteomics and identified more than half of all predicted C. elegans proteins. This allowed us to confirm and extend genome annotations, characterize the role of operons in C. elegans, and semiquantitatively infer abundance levels for thousands of proteins. Furthermore, for the first time to our knowledge, we were able to compare two animal proteomes (C. elegans and Drosophila melanogaster). We found that the abundances of orthologous proteins in metazoans correlate remarkably well, better than protein abundance versus transcript abundance within each organism or transcript abundances across organisms; this suggests that changes in transcript abundance may have been partially offset during evolution by opposing changes in protein abundance. Proteins are the active players that execute the genetic program of a cell, and their levels and interactions are precisely controlled. Routinely monitoring thousands of proteins is difficult, as they can be present at vastly different abundances, come with various sizes, shapes, and charge, and have a more complex alphabet of twenty “letters,” in contrast to the four letters of the genome itself. Here, we used mass spectrometry to extensively characterize the proteins of a popular model organism, the nematode Caenorhabditis elegans. Together with previous data from the fruit fly Drosophila melanogaster, this allows us to compare the protein levels of two animals on a global scale. Surprisingly, we find that individual protein abundance is highly conserved between the two species. So, although worms and flies look very different, they need similar amounts of each conserved, orthologous protein. Because many C. elegans and D. melanogaster proteins also have counterparts in humans, our results suggest that similar rules may apply to our own proteins. A quantitative comparison of two animal proteomes shows a striking correlation of protein abundance levels, a better correlation than transcript levels. Are the latter more variable during evolution?
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影响因子：
14.9
作者：
Berglund AC;Sjölund E;Ostlund G;Sonnhammer EL
通讯作者：
Sonnhammer EL
影响因子：
1.2
作者：
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影响因子：
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DOI：
10.1093/bfgp/3.3.199
发表时间：
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期刊：
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影响因子：
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作者：
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通讯作者：
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影响因子：
5.6
作者：
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通讯作者：
Sonnhammer, ELL