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          Institute: MPI für molekulare Pflanzenphysiologie     Collection: Publikationen Pflanzenphysiologie     Display Documents



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ID: 251398.0, MPI für molekulare Pflanzenphysiologie / Publikationen Pflanzenphysiologie
Integrative gene-metabolite network with implemented causality deciphers informational fluxes of sulphur stress response
Authors:Nikiforova, V. J.; Daub, C. O.; Hesse, H.; Willmitzer, L.; Hoefgen, R.
Language:English
Date of Publication (YYYY-MM-DD):2005-07
Title of Journal:Journal of Experimental Botany
Journal Abbrev.:J Exp Bot
Volume:56
Issue / Number:417
Start Page:1887
End Page:1896
Review Status:not specified
Audience:Not Specified
Abstract / Description:The systematic accumulation of gene expression data, although revolutionary, is insufficient in itself for an understanding of system-level physiology. In the post-genomic era, the next cognitive step is linking genes to biological processes and assembling a mosaic of data into global models of biosystem function. A dynamic network of informational flows in Arabidopsis plants perturbed by sulphur depletion is presented here. With the use of an original protocol, the first blosystem response network was reconstructed from a time series of transcript and metabolite profiles, which, on the one hand, integrates complex metabolic and transcript data and, on the other hand, possesses a causal relationship. Using the informational fluxes within this reconstruction, it was possible to link system perturbation to response endpoints. Robustness and stress tolerance, as consequences of scale-free network topology, and hubs, as potential controllers of homeostasis maintenance, were revealed. Communication paths of propagating system excitement directed to physiological endpoints, such as anthocyanin accumulation and enforced root formation were dissected from the network. An auxin regulatory circuit involved in the control of a hypo-sulphur stress response was uncovered.
Free Keywords:auxin
; causality
; metabolome
; network
; network topology
; plait concept
; scale-free network
; sulphur metabolism
; systems biology
; transcriptome
; arabidopsis-thaliana
; escherichia-coli
; transcriptional regulation
; vascular development
; mutual information
; auxin
; expression
; calcium
; calmodulin
; pathways
External Publication Status:published
Document Type:Article
Communicated by:N. N.
Affiliations:MPI für molekulare Pflanzenphysiologie/Molekulare Physiologie/AG Hoefgen
MPI für molekulare Pflanzenphysiologie/Molekulare Physiologie/AG Willmitzer/Fernie
External Affiliations:Max Planck Inst Mol Plant Physiol, Dept Mol Physiol, Muhlenberg 1, D-14476 Golm, Germany
Max Planck Inst Mol Plant Physiol, Dept Mol Physiol, D-14476 Golm, Germany
Russian Acad Sci, Timiryazev Inst Plant Physiol, Moscow 127276, Russia
Identifiers:ISI:000230309700018 [ID No:1]
ISI:000230309700018 [ID No:2]
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