Modeling Immune Dynamics in Plants Using JIMENA-Package

Author First name, Last name, Institution

Özge Osmanoglu, University of Würzburg
Shabana Shams, Quaid-i-Azam University
Thomas Dandekar, University of Würzburg
Muhammad Naseem, Zayed University

Document Type

Book Chapter

Source of Publication

Methods in Molecular Biology

Publication Date

7-13-2021

Abstract

Plant immunity is a highly dynamic process and requires dynamic modeling to capture the events of complexity mediated by the interaction between plant host and the attacking pathogen. The events of recognition are invoked by pathogen-based epitopes, while the subversion of host defenses are orchestrated by pathogen-originated effector molecules. The pathogen constitutes an immune signaling network inside the host cells. We model plant immune dynamics by using JIMENA-package, which is a java-based genetic regulatory network (GRN) simulation framework. It can efficiently compute network behavior and system states mediated by pathogenic perturbations. Here, we describe a step-by-step protocol to introduce the application of JIMENA-package to quantify immune dynamics in plant–pathogen interaction networks.

DOI Link

10.1007/978-1-0716-1534-8_11

Publisher

Springer Nature

Volume

2328

First Page

183

Last Page

189

Disciplines

Life Sciences

Keywords

Dynamic modeling, Plant immunity, Boolean logic, PAMPs, NLRs, Effectors

Scopus ID

85110765026

Recommended Citation

Osmanoglu, Özge; Shams, Shabana; Dandekar, Thomas; and Naseem, Muhammad, "Modeling Immune Dynamics in Plants Using JIMENA-Package" (2021). All Works. 4370.
https://zuscholars.zu.ac.ae/works/4370

Indexed in Scopus

yes

Open Access

no