Systems properties of the Haemophilus influenzae Rd metabolic genotype
Systems properties of the Haemophilus influenzae Rd metabolic genotype
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DOI：
10.1074/jbc.274.25.17410
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发表时间：
1999-06-18
影响因子：
4.8
通讯作者：
Palsson, BO
中科院分区：
文献类型：
--
作者：
Edwards, JS;Palsson, BO
流感嗜血杆菌 Rd 是第一个建立了完整基因组序列的独立生物体。带注释的序列和已知的生化信息用于定义流感嗜血杆菌Rd代谢基因型。该基因型包含 488 个代谢反应，作用于 343 种代谢物。化学计量矩阵用于确定代谢基因型的系统特征并评估流感嗜血杆菌的代谢能力。在混合基质上生长过程中平衡辅因子和生物合成前体产生的需要导致了由相同代谢基因型产生的六种不同的最佳代谢表型的定义，每种表型具有不同的限制特征。还研究了代谢基因型变异的影响，结果表明流感嗜血杆菌Rd代谢基因型在特定条件下包含冗余功能。因此，我们表明，从注释的基因组序列中合成计算机代谢基因型是可能的，并且系统分析方法可用于分析和解释此类基因型的表型行为。
Haemophilus influenzae Rd was the first free-living organism for which the complete genomic sequence was established. The annotated sequence and known biochemical information was used to define the H. influenzae Rd metabolic genotype. This genotype contains 488 metabolic reactions operating on 343 metabolites. The stoichiometric matrix was used to determine the systems characteristics of the metabolic genotype and to assess the metabolic capabilities of H. influenzae. The need to balance cofactor and biosynthetic precursor production during growth on mixed substrates led to the definition of six different optimal metabolic phenotypes arising from the same metabolic genotype, each with different constraining features. The effects of variations in the metabolic genotype were also studied, and it was shown that the H. influenzae Rd metabolic genotype contains redundant functions under defined conditions. We thus show that the synthesis of in silico metabolic genotypes from annotated genome sequences is possible and that systems analysis methods are available that can be used to analyze and interpret phenotypic behavior of such genotypes.