Reconstruction of a GRN model of salt stress response in arabidopsis using genetic algorithms

Gonzalo A. Ruz, Tania Timmermann, Eric Goles

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

11 Scopus citations

Abstract

Salinity is one of the main problems in agriculture, negatively influencing the survival, biomass production, and yield of food crops. Exposure to high salinity is connected with ionic stress due to accumulation of sodium ions, osmotic stress, and reactive oxygen species production. To develop crop plants with enhanced tolerance of saline stress, a basic understanding of physiological, biochemical and gene regulatory networks (GRN) is essential. In this paper, an approach to study the saline stress response and tolerance of plants through the GRN involved in this process is proposed. In particular, we reconstruct the GRN of Ara-bidopsis thaliana saline stress response using genetic algorithms and a Boolean network model. The proposed computational intelligence approach was able to successfully infer 1000 threshold Boolean networks that contained the desired Boolean trajectory. The inferred networks were used to build a consensus network, which was useful to identify the regulations or interactions among the genes that were more plausible.

Original languageEnglish
Title of host publication2015 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2015
PublisherInstitute of Electrical and Electronics Engineers Inc.
ISBN (Electronic)9781479969265
DOIs
StatePublished - 16 Oct 2015
EventIEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2015 - Niagara Falls, Canada
Duration: 12 Aug 201515 Aug 2015

Publication series

Name2015 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2015

Conference

ConferenceIEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2015
Country/TerritoryCanada
CityNiagara Falls
Period12/08/1515/08/15

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