一种结合转录组和相互作用组数据集的系统生物学方法，用于评估细胞分裂素信号传导对植物免疫网络的影响。

A Systems Biology Methodology Combining Transcriptome and Interactome Datasets to Assess the Implications of Cytokinin Signaling for Plant Immune Networks.

作者信息

Kunz Meik, Dandekar Thomas, Naseem Muhammad

机构信息

Functional Genomics & Systems Biology Group, Department of Bioinformatics, Biocenter, University of Wuerzburg, 97074, Wuerzburg, Germany.

Deptartment of Bioinformatics, Biocenter University of Würzburg Am Hubland Würzburg Germany, Julius-Maximilians-Universität Würzburg, Würzburg, Germany.

出版信息

Methods Mol Biol. 2017;1569:165-173. doi: 10.1007/978-1-4939-6831-2_14.

DOI:10.1007/978-1-4939-6831-2_14

PMID:28265997

Abstract

Cytokinins (CKs) play an important role in plant growth and development. Also, several studies highlight the modulatory implications of CKs for plant-pathogen interaction. However, the underlying mechanisms of CK mediating immune networks in plants are still not fully understood. A detailed analysis of high-throughput transcriptome (RNA-Seq and microarrays) datasets under modulated conditions of plant CKs and its mergence with cellular interactome (large-scale protein-protein interaction data) has the potential to unlock the contribution of CKs to plant defense. Here, we specifically describe a detailed systems biology methodology pertinent to the acquisition and analysis of various omics datasets that delineate the role of plant CKs in impacting immune pathways in Arabidopsis.

摘要

细胞分裂素（CKs）在植物生长发育过程中发挥着重要作用。此外，多项研究强调了CKs对植物与病原体相互作用的调节作用。然而，CK介导植物免疫网络的潜在机制仍未完全明晰。在植物CKs调控条件下对高通量转录组（RNA测序和微阵列）数据集进行详细分析，并将其与细胞相互作用组（大规模蛋白质-蛋白质相互作用数据）相结合，有可能揭示CKs对植物防御的贡献。在此，我们具体描述一种详细的系统生物学方法，该方法与各种组学数据集的获取和分析相关，这些数据集描绘了植物CKs在影响拟南芥免疫途径中的作用。