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We have been using the model plant Arabidopsis thaliana to apply the network reconstitution approach to the immune signaling network. We have been collecting high-dimensional data, such as mRNA profiles by RNA-seq, from a set of plants with comprehensive reconstituted versions of the network, through the time course after treatment with various immune elicitors. In collaboration with Chad Myers’ group (UMN, Dept of Computer Science and Engineering), we are currently applying differential equation-based models to these data to discover the quantitative rules of mechanistic interactions among the subnetworks during the dynamic process of response to the immune elicitors. Once we learn most of such rules, we will be able to simulate the network dynamics in silico to investigate emergence of the network properties in detail.
The source of complex network behaviors is convergence of multiple signals at some network components. We are biologically studying such signal converging points at the molecular level. For example, we have experimentally discovered a subnetwork in which a signal for one mode of immunity inhibits that for another mode of immunity. This discovery appears to represent a mechanism to limit unnecessary immune responses when one type of immunity is effective.
We are also interested in how such a resilient network evolved during evolution of land plants. We do not know how but generally know when. Major components of the immune signaling network emerged or started specializing about the time of Seed Plant divergence. Thus, the network properties we have observed in Arabidopsis are likely very different in Non-Seed Plants (e.g., mosses and ferns). All Angiosperms (flowering plants) have almost complete sets of the network components we observed in Arabidopsis. In one particular case, we found that three subfamilies of a protein family with overlapping or opposing signaling functions have been evolving very fast, yet evolution of the three subfamilies has been strongly influencing one another in a plant-lineage-specific manner. This coevolution across subfamilies can confer resilience to the immune signaling module.
Expertise:
Systems biology, Plant disease resistance
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Suma Sreekanta,Allison Haaning,Austin Dobbels, Riley O’Neill,Anna Hofstad,Kamaldeep Virdi,Fumiaki Katagiri,Robert M. Stupar,Gary J. Muehlbauer,Aaron J. Lorenz
Xiaotong Liu,Daisuke Igarashi,Rachel A Hillmer, Thomas Stoddard,You Lu,Kenichi Tsuda,Chad L Myers,Fumiaki Katagiri
Plant communicationspp.100882-100882, (2024)
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Zhengnan Jia, Miaomiao Ding,Masahito Nakano,Kunqi Hong, Ruidong Huang,Dieter Becker,Jane Glazebrook,Fumiaki Katagiri,Xiaowei Han,Kenichi Tsuda
bioRxiv (Cold Spring Harbor Laboratory) (2021)
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