Evaluating microarrays using a serniparametric approach:: Application to the central carbon metabolism of Escherichia coli BL21 and JM109
Evaluating microarrays using a serniparametric approach:: Application to the central carbon metabolism of Escherichia coli BL21 and JM109
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DOI：
10.1016/j.ygeno.2006.10.004
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发表时间：
2007-02-01
期刊：
影响因子：
4.4
通讯作者：
Shiloach, Joseph
中科院分区：
文献类型：
--
作者：
Phue, Je-Nie;Kedem, Benjamin;Shiloach, Joseph
大肠杆菌 K (JM 109) 和大肠杆菌 B (BL21) 是常规用于重组蛋白生产的菌株。这两种菌株的生长和对环境因素（例如葡萄糖和氧气浓度）的反应不同。这些差异归因于构成某些代谢途径的各个基因的差异表达，这些代谢途径是中央碳代谢的一部分。通过实施基于密度比模型的半参数算法，可以比较和量化参与几个中心碳代谢途径的基因组的表达模式。包含乙醛酸分流、TCA循环、脂肪酸、糖异生和回补途径的组在两个菌株之间表达不同，而包含糖酵解或磷酸戊糖途径的组没有明显差异。这些结果进一步表征了两种大肠杆菌菌株之间的差异，并说明了半参数算法的效力。 (c) 2006 Elsevier Inc. 保留所有权利。
Escherichia coli K (JM 109) and E. coli B (BL21) are strains used routinely for recombinant protein production. These two strains grow and respond differently to environmental factors such as glucose and oxygen concentration. The differences have been attributed to differential expression of individual genes that constitute certain metabolic pathways that are part of the central carbon metabolism. By implementing a semiparametric algorithm, which is based on a density ratio model, it was possible to compare and quantify the expression patterns of groups of genes involved in several central carbon metabolic pathways. The groups comprising the glyoxylate shunt, TCA cycle, fatty acid, and gluconeogenesis and anaplerotic pathways were expressed differently between the two strains, whereas no differences were apparent for the groups comprising either glycolysis or the pentose phosphate pathway. These results further characterized differences between the two E. coli strains and illustrated the potency of the semiparametric algorithm. (c) 2006 Elsevier Inc. All rights reserved.