Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation

Coudert Yoan, Le Van Anh Thi, Adam Hélène, Bes Martine, Vignols Florence, Jouannic Stefan, Guiderdoni Emmanuel, Gantet Pascal. 2015. Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation. New Phytologist, 206 (1) : pp. 243-254.

Journal article ; Article de recherche ; Article de revue à facteur d'impact
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Quartile : Outlier, Sujet : PLANT SCIENCES

Abstract : In monocotyledons, the root system is mostly composed of postembryonic shoot‐borne roots called crown roots. In rice (Oryza sativa), auxin promotes crown root initiation via the LOB‐domain transcription factor (LBD) transcription factor CROWN ROOTLESS1 (CRL1); however, the gene regulatory network downstream of CRL1 remains largely unknown. • We tested CRL1 transcriptional activity in yeast and in planta, identified CRL1‐regulated genes using an inducible gene expression system and a transcriptome analysis, and used in situ hybridization to demonstrate coexpression of a sample of CRL1‐regulated genes with CRL1 in crown root primordia. • We show that CRL1 positively regulates 277 genes, including key genes involved in meristem patterning (such as QUIESCENT‐CENTER SPECIFIC HOMEOBOX; QHB), cell proliferation and hormone homeostasis. Many genes are homologous to Arabidopsis genes involved in lateral root formation, but about a quarter are rice‐specific. • Our study reveals that several genes acting downstream of LBD transcription factors controlling postembryonic root formation are conserved between monocots and dicots. It also provides evidence that specific genes are involved in the formation of shoot‐derived roots in rice.

Mots-clés Agrovoc : Oryza sativa, Système racinaire, Morphologie végétale, Expression des gènes, Rhizosphère

Mots-clés libres : Rice, Root architecture, Auxin, Gene networks

Classification Agris : F30 - Plant genetics and breeding
F62 - Plant physiology - Growth and development
F50 - Plant structure

Champ stratégique Cirad : Axe 1 (2014-2018) - Agriculture écologiquement intensive

Auteurs et affiliations

  • Coudert Yoan, UM2 (FRA)
  • Le Van Anh Thi, UM2 (FRA)
  • Adam Hélène, IRD (FRA)
  • Bes Martine, CIRAD-BIOS-UMR AGAP (FRA)
  • Vignols Florence, IRD (FRA)
  • Jouannic Stefan, IRD (FRA)
  • Guiderdoni Emmanuel, CIRAD-BIOS-UMR AGAP (FRA)
  • Gantet Pascal, UM2 (VNM) - auteur correspondant

Source : Cirad-Agritrop (

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