Ruminant metabolic systems biology: reconstruction and integration of transcriptome dynamics underlying functional responses of tissues to nutrition and physiological state.
Ruminant metabolic systems biology: reconstruction and integration of transcriptome dynamics underlying functional responses of tissues to nutrition and physiological state.
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DOI：
10.4137/grsb.s9852
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发表时间：
2012
期刊：
影响因子：
--
通讯作者：
Loor JJ
中科院分区：
文献类型：
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作者：
Bionaz M;Loor JJ
通过生物信息学进行高通量“组学”数据分析是系统生物学方法的一个关键组成部分。系统方法特别适合于研究营养和生理状态与组织代谢和功能之间的相互作用，在生物体的关键生命阶段，如哺乳动物从怀孕到哺乳的过渡，即围产期。在具有前所未有的牛奶合成遗传潜力的现代奶牛中，围产期期间生理和代谢适应的性质是多方面的，涉及关键组织，如肝脏，脂肪和乳腺。为了理解这种适应，我们回顾了在我们和其他实验室进行的几项工作。此外，我们使用了一种新的生物信息学方法，动态影响方法（DIA），结合部分先前发表的数据，以帮助解释纵向生物适应牛肝脏，脂肪和乳腺组织泌乳使用转录组学数据集。在正常生理适应期间以及在喂食不同水平能量的动物中使用DIA与来自这些组织的转录组数据，允许在分娩时可视化和整合最受影响的代谢途径。DIA是应用综合系统生物学方法的合适工具。最终目标是可视化研究系统的复杂性，并揭示参与组织适应生理状态或营养的关键分子。
High-throughput ‘omics’ data analysis via bioinformatics is one key component of the systems biology approach. The systems approach is particularly well-suited for the study of the interactions between nutrition and physiological state with tissue metabolism and functions during key life stages of organisms such as the transition from pregnancy to lactation in mammals, ie, the peripartal period. In modern dairy cows with an unprecedented genetic potential for milk synthesis, the nature of the physiologic and metabolic adaptations during the peripartal period is multifaceted and involves key tissues such as liver, adipose, and mammary. In order to understand such adaptation, we have reviewed several works performed in our and other labs. In addition, we have used a novel bioinformatics approach, Dynamic Impact Approach (DIA), in combination with partly previously published data to help interpret longitudinal biological adaptations of bovine liver, adipose, and mammary tissue to lactation using transcriptomics datasets. Use of DIA with transcriptomic data from those tissues during normal physiological adaptations and in animals fed different levels of energy prepartum allowed visualization and integration of most-impacted metabolic pathways around the time of parturition. The DIA is a suitable tool for applying the integrative systems biology approach. The ultimate goal is to visualize the complexity of the systems at study and uncover key molecular players involved in the tissue’s adaptations to physiological state or nutrition.