Article (Scientific journals)
Bridging physiological and evolutionary time-scales in a gene regulatory network.
Marchand, Gwenaelle; Huynh-Thu, Vân Anh; Kane, Nolan C. et al.
2014In New Phytologist, 203 (2), p. 685-696
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Keywords :
F ST; CLC-A chloride channel protein; NITRATE TRANSPORTER 1.1 (NRT1.1); abscisic acid (ABA); drought; genetic differentiation; network inference
Abstract :
[en] Gene regulatory networks (GRNs) govern phenotypic adaptations and reflect the trade-offs between physiological responses and evolutionary adaptation that act at different time-scales. To identify patterns of molecular function and genetic diversity in GRNs, we studied the drought response of the common sunflower, Helianthus annuus, and how the underlying GRN is related to its evolution. We examined the responses of 32 423 expressed sequences to drought and to abscisic acid (ABA) and selected 145 co-expressed transcripts. We characterized their regulatory relationships in nine kinetic studies based on different hormones. From this, we inferred a GRN by meta-analyses of a Gaussian graphical model and a random forest algorithm and studied the genetic differentiation among populations (FST ) at nodes. We identified two main hubs in the network that transport nitrate in guard cells. This suggests that nitrate transport is a critical aspect of the sunflower physiological response to drought. We observed that differentiation of the network genes in elite sunflower cultivars is correlated with their position and connectivity. This systems biology approach combined molecular data at different time-scales and identified important physiological processes. At the evolutionary level, we propose that network topology could influence responses to human selection and possibly adaptation to dry environments.
Disciplines :
Phytobiology (plant sciences, forestry, mycology...)
Author, co-author :
Marchand, Gwenaelle
Huynh-Thu, Vân Anh ;  Université de Liège - ULiège > GIGA-Management : Coordination ALMA-GRID
Kane, Nolan C.
Arribat, Sandrine
Vares, Didier
Rengel, David
Balzergue, Sandrine
Rieseberg, Loren H.
Vincourt, Patrick
Geurts, Pierre ;  Université de Liège - ULiège > Dép. d'électric., électron. et informat. (Inst.Montefiore) > Algorith. des syst. en interaction avec le monde physique
Vignes, Matthieu
Langlade, Nicolas B.
Language :
English
Title :
Bridging physiological and evolutionary time-scales in a gene regulatory network.
Publication date :
2014
Journal title :
New Phytologist
ISSN :
0028-646X
eISSN :
1469-8137
Publisher :
Wiley, Oxford, United Kingdom
Volume :
203
Issue :
2
Pages :
685-696
Peer reviewed :
Peer Reviewed verified by ORBi
Commentary :
(c) 2014 INRA New Phytologist (c) 2014 New Phytologist Trust.
Available on ORBi :
since 19 May 2014

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