Network Modeling Unravels Mechanisms of Crosstalk between Ethylene and Salicylate Signaling in Potato

Živa Ramšak, Anna Coll, Tjaša Stare, Oren Tzfadia, Špela Baebler, Yves Van de Peer, Kristina Gruden

Research output: Contribution to journalArticle

Abstract

To develop novel crop breeding strategies, it is crucial to understand the mechanisms underlying the interaction between plants and their pathogens. Network modeling represents a powerful tool that can unravel properties of complex biological systems. In this study, we aimed to use network modeling to better understand immune signaling in potato (Solanum tuberosum). For this, we first built on a reliable Arabidopsis (Arabidopsis thaliana) immune signaling model, extending it with the information from diverse publicly available resources. Next, we translated the resulting prior knowledge network (20,012 nodes and 70,091 connections) to potato and superimposed it with an ensemble network inferred from time-resolved transcriptomics data for potato. We used different network modeling approaches to generate specific hypotheses of potato immune signaling mechanisms. An interesting finding was the identification of a string of molecular events illuminating the ethylene pathway modulation of the salicylic acid pathway through Nonexpressor of PR Genes1 gene expression. Functional validations confirmed this modulation, thus supporting the potential of our integrative network modeling approach for unraveling molecular mechanisms in complex systems. In addition, this approach can ultimately result in improved breeding strategies for potato and other sensitive crops.

Original languageEnglish
JournalPlant Physiology
Volume178
Issue number1
Pages (from-to)488-499
Number of pages12
ISSN0032-0889
DOIs
Publication statusPublished - Sep-2018

Keywords

  • Arabidopsis/genetics
  • Crops, Agricultural/genetics
  • Ethylenes/metabolism
  • Gene Expression Profiling/methods
  • Gene Expression Regulation, Plant
  • Gene Regulatory Networks
  • Models, Genetic
  • Plant Breeding/methods
  • Plant Immunity/genetics
  • Salicylic Acid/metabolism
  • Signal Transduction/genetics
  • Solanum tuberosum/genetics

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