Metabonomic study of host-phage interaction by nuclear magnetic resonance- and statistical total correlation spectroscopy-based analysis.
Metabonomic study of host-phage interaction by nuclear magnetic resonance- and statistical total correlation spectroscopy-based analysis.
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DOI：
10.1021/ac300096j
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发表时间：
2012-04
影响因子：
7.4
通讯作者：
K. Sonkar;Rudra N Purusottam;N. Sinha
中科院分区：
文献类型：
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作者：
K. Sonkar;Rudra N Purusottam;N. Sinha
我们提出了一种在分子水平上定性和定量研究噬菌体瞬时代谢流的方法。该方法是基于统计总相关光谱（STOCSY）和偏最小二乘判别分析（PLS-DA）应用于核磁共振（NMR）代谢组学数据集。这种类型的研究的算法开发和演示。该方法已实施的（1）H NMR数据集的生长培养基中的铜绿假单胞菌感染噬菌体pf 1的无菌培养物。瞬态代谢通量的各种重要的代谢产物，确定STOCSY和PLS-DA分析应用到NMR数据集，估计在不同的生长阶段。铜绿假单胞菌（P. aeruginosa）是细菌生物膜研究最多的模式生物之一。通过传统的光谱方法不可能获得关于该系统的代谢连接性的完整信息。我们的研究提出了时间比较（1）H NMR代谢组学分析丝状噬菌体pf 1感染铜绿假单胞菌K株（PAK）的无菌培养。我们在这里的潜力STOCSY和PLS-DA工具，以获得机制的洞察微妙的变化，并确定与代谢物的瞬态流量后，由噬菌体感染引起的代谢扰动。我们的研究为将现有的后基因组数据与铜绿假单胞菌生物膜研究中的代谢组学结果相关联提供了新的途径。
We present a method for the qualitative and quantitative study of transient metabolic flux of phage infection at the molecular level. The method is based on statistical total correlation spectroscopy (STOCSY) and partial least squares discriminant analysis (PLS-DA) applied to nuclear magnetic resonance (NMR) metabonomic data sets. An algorithm for this type of study is developed and demonstrated. The method has been implemented on (1)H NMR data sets of growth media in planktonic cultures of Pseudomonas aeruginosa infected with bacteriophage pf1. Transient metabolic flux of various important metabolites, identified by STOCSY and PLS-DA analysis applied to the NMR data set, are estimated at various stages of growth. The opportunistic and nosocomial pathogen P. aeruginosa is one of the best-studied model organism for bacterial biofilms. Complete information regarding metabolic connectivity of this system is not possible by conventional spectroscopic approach. Our study presents temporal comparative (1)H NMR metabonomic analyses of filamentous phage pf1 infection in planktonic cultures of P. aeruginosa K strain (PAK). We exemplify here the potential of STOCSY and PLS-DA tools to gain mechanistic insight into subtle changes and to determine the transient flux associated with metabolites following metabolic perturbations resulting from phage infection. Our study has given new avenues in correlating existing postgenomic data with current metabonomic results in P. aeruginosa biofilms research.