TITLE

Signalling Network Construction for Modelling Plant Defence Response

AUTHOR(S)
Miljkovic, Dragana; Stare, Tjaša; Mozetič, Igor; Podpečan, Vid; Petek, Marko; Witek, Kamil; Dermastia, Marina; Lavrač, Nada; Gruden, Kristina
PUB. DATE
December 2012
SOURCE
PLoS ONE;Dec2012, Vol. 7 Issue 12, p1
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Plant defence signalling response against various pathogens, including viruses, is a complex phenomenon. In resistant interaction a plant cell perceives the pathogen signal, transduces it within the cell and performs a reprogramming of the cell metabolism leading to the pathogen replication arrest. This work focuses on signalling pathways crucial for the plant defence response, i.e., the salicylic acid, jasmonic acid and ethylene signal transduction pathways, in the Arabidopsis thaliana model plant. The initial signalling network topology was constructed manually by defining the representation formalism, encoding the information from public databases and literature, and composing a pathway diagram. The manually constructed network structure consists of 175 components and 387 reactions. In order to complement the network topology with possibly missing relations, a new approach to automated information extraction from biological literature was developed. This approach, named Bio3graph, allows for automated extraction of biological relations from the literature, resulting in a set of (component1, reaction, component2) triplets and composing a graph structure which can be visualised, compared to the manually constructed topology and examined by the experts. Using a plant defence response vocabulary of components and reaction types, Bio3graph was applied to a set of 9,586 relevant full text articles, resulting in 137 newly detected reactions between the components. Finally, the manually constructed topology and the new reactions were merged to form a network structure consisting of 175 components and 524 reactions. The resulting pathway diagram of plant defence signalling represents a valuable source for further computational modelling and interpretation of omics data. The developed Bio3graph approach, implemented as an executable language processing and graph visualisation workflow, is publically available at http://ropot.ijs.si/bio3graph/and can be utilised for modelling other biological systems, given that an adequate vocabulary is provided.
ACCESSION #
84710179

 

Related Articles

  • Volatiles as priming agents that initiate plant growth and defence responses. Choudhary, Devendra Kumar; Johri, Bhavdish N.; Prakash, Anil // Current Science (00113891);3/10/2008, Vol. 94 Issue 5, p595 

    Plants are exposed to attack by pathogens and insect pests. For protection against this stress, plants have evolved defensive strategies to counteract potential invaders. In the present review comparisons are drawn between herbivores-induced plant volatiles as an elicitor of plant defences and...

  • Poisonous Plants.  // Science...Non-Fiction;2005, p50 

    This article offers information on poisonous plants. The Bull Nettle, also called the Spurge Nettle, commonly grows in fields or sandy grounds. All parts of the plant extending above the ground are covered with stinging hairs. These hairs release a poisonous chemical that, when touched,...

  • Biochar mediates systemic response of strawberry to foliar fungal pathogens. Meller Harel, Yael; Elad, Yigal; Rav-David, Dalia; Borenstein, Menachem; Shulchani, Ran; Lew, Beni; Graber, Ellen // Plant & Soil;Aug2012, Vol. 357 Issue 1/2, p245 

    Background and Aims: Various biochars added to soil have been shown to improve plant performance. Moreover, a wood biochar was found to induce tomato and pepper plant systemic resistance to two foliar fungal pathogens. The aim of this study was to explore the ability of wood biochar and...

  • GREEN GIANT. Armstrong, Alison // Canadian Geographic;Jul/Aug2004, Vol. 124 Issue 4, p36 

    Presents information on the giant hogweed, a poisonous plant found in Canada. Description of the plant; History of the origin of the plant; Advice to people who come in contact with the plant.

  • poisonous plants.  // Taber's Cyclopedic Medical Dictionary;2005, p1719 

    A definition of the term "poisonous plant" is presented. It refers to plants that contain poisonous substance. Several examples of these plants are also presented.

  • Decomposers and root feeders interactively affect plant defence in Sinapis alba. Lohmann, Maité; Scheu, Stefan; Müller, Caroline // Oecologia;May2009, Vol. 160 Issue 2, p289 

    Aboveground herbivory is well known to change plant growth and defence. In contrast, effects of soil organisms, acting alone or in concert, on allocation patterns are less well understood. We investigated separate and combined effects of the endogeic earthworm species Aporrectodea caliginosa and...

  • Is protection against florivory consistent with the optimal defense hypothesis? Godschalx, Adrienne L.; Stady, Lauren; Watzig, Benjamin; Ballhorn, Daniel J. // BMC Plant Biology;1/28/2016, Vol. 16, p1 

    Background: Plant defense traits require resources and energy that plants may otherwise use for growth and reproduction. In order to most efficiently protect plant tissues from herbivory, one widely accepted assumption of the optimal defense hypothesis states that plants protect tissues most...

  • Don't Touch That! Adil, Janeen R. // Boys' Life;Nov2009, Vol. 99 Issue 11, p30 

    The article provides a guide to identifying dangerous plants such as poison ivy, poison oak and poison sumac.

  • ABOUT THE BOOK.  // Know Your Poisonous Plants;1973, following p99 

    The article presents information on how to use the book and explains how various sections are split up.

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics