Phenotypic innovation through recombination in genome-scale metabolic networks
Phenotypic innovation through recombination in genome-scale metabolic networks
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DOI：
10.1098/rspb.2016.1536
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发表时间：
2016-09-28
影响因子：
4.7
通讯作者：
Wagner, Andreas
中科院分区：
文献类型：
--
作者：
Hosseini, Sayed-Rzgar;Martin, Olivier C.;Wagner, Andreas
代谢是代谢创新的重要来源，特别是在原核生物中，它们已经进化出依靠许多不同来源的化学元素和能量生存的能力。代谢系统有一个很好的理解基因型-表型的关系，这允许一个定量和生化原理的理解重组如何创造新的表型。在这里，我们研究了重组的力量，以创建基因组规模的代谢反应网络，使生物体能够在新的化学环境中生存。为此，我们使用通量平衡分析，实验验证的计算方法，可以预测代谢基因型的代谢表型。我们表明，重组更有可能创造新的代谢能力比随机变化的化学反应的代谢网络。我们还发现，表型创新更有可能发生在基因密切相关的父母之间的重组，表型高度多样性，并在少数而不是许多碳源上可行。在新的碳源上生存优先涉及超必需的反应，即在许多代谢网络中必不可少的反应。我们验证了我们的观察与数据从61重建原核代谢网络。我们对代谢系统的系统和定量分析有助于理解重组如何创造创新。
Recombination is an important source of metabolic innovation, especially in prokaryotes, which have evolved the ability to survive on many different sources of chemical elements and energy. Metabolic systems have a well-understood genotype-phenotype relationship, which permits a quantitative and biochemically principled understanding of how recombination creates novel phenotypes. Here, we investigate the power of recombination to create genome-scale metabolic reaction networks that enable an organism to survive in new chemical environments. To this end, we use flux balance analysis, an experimentally validated computational method that can predict metabolic phenotypes from metabolic genotypes. We show that recombination is much more likely to create novel metabolic abilities than random changes in chemical reactions of a metabolic network. We also find that phenotypic innovation is more likely when recombination occurs between parents that are genetically closely related, phenotypically highly diverse, and viable on few rather than many carbon sources. Survival on a new carbon source preferentially involves reactions that are superessential, that is, essential in many metabolic networks. We validate our observations with data from 61 reconstructed prokaryotic metabolic networks. Our systematic and quantitative analysis of metabolic systems helps understand how recombination creates innovation.