Implementation of microarrays for Methylobacterium extorquens AM1
Implementation of microarrays for Methylobacterium extorquens AM1
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DOI：
10.1089/omi.2007.0027
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发表时间：
2007-12-01
影响因子：
3.3
通讯作者：
Lidstrom, Mary E.
中科院分区：
文献类型：
--
作者：
Okubo, Yoko;Skovran, Elizabeth;Lidstrom, Mary E.
微阵列是了解全球基因表达变化的重要工具，由此产生的数据集可以用于指导生理学和代谢研究。为了利用这项技术，设计了60聚体寡核苷酸微阵列，用于研究不同生理条件下发生的基因表达变化。甲醇和琥珀酸酯的碳利用途径已经被很好地表征，并选择在这些底物上生长作为验证芯片数据的条件。使用两种不同的方法对数据进行了分析，并与之前获得的实验数据进行了比较。用微阵列的显著性分析处理后的阵列数据与实验数据的相关性最好。除了验证微阵列，这些研究还发现了甲基营养、铁和硫的动态平衡、细菌叶绿素的产生和聚酮合成之间的可能联系，并可能有助于揭示进一步的代谢网络和甲基营养所需的基因。
Microarrays are an important tool for understanding global gene expression changes, and the resulting data sets can be used to direct physiologic and metabolic studies. To take advantage of this technology, 60-mer oligonucleotide microarrays were designed for Methylobacterium extorquens AM1 to study gene expression changes that occur under differing physiological conditions. The carbon utilization pathways for methanol and succinate have been well characterized, and growth with these substrates was chosen as the condition used to validate the microarray data. The data were analyzed using two different methods and compared to previously obtained experimental data. The array data processed using the Significance Analysis of Microarrays followed by p-value assessment, correlated best to the experimental data. In addition to validating the microarrays, these studies uncovered possible connections between methylotrophy, iron, and sulfur homeostasis, bacteriochlorophyll production and polyketide synthesis, and will likely aid in uncovering further metabolic networks and genes required for methylotrophy.