1. CROWN ROOTLESS1 binds DNA with a relaxed specificity and activates OsROP and OsbHLH044 genes involved in crown root formation in rice
- Author
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Mathieu Gonin, Kwanho Jeong, Yoan Coudert, Jeremy Lavarenne, Giang Thi Hoang, Martine Bes, Huong Thi Mai To, Marie‐Rose Ndella Thiaw, Toan Van Do, Daniel Moukouanga, Soazig Guyomarc'h, Kevin Bellande, Jean‐Rémy Brossier, Boris Parizot, Hieu Trang Nguyen, Tom Beeckman, Véronique Bergougnoux, Jacques Rouster, Christophe Sallaud, Laurent Laplaze, Antony Champion, Pascal Gantet, Diversité, adaptation, développement des plantes (UMR DIADE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM), Université de Lyon, National Key Laboratory for Plant Cell Biotechnology, Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), University of Science and Technology of Hanoi (USTH), Universiteit Gent = Ghent University (UGENT), VIBUGent Center for Plant Systems Biology, Palacky University Olomouc, Groupe Limagrain, Ministry of Science and Technology of Vietnam, French embassy in VietnamNDT.56.FRA/19, Partenariat Hubert Curien Barrande in Francen_ 38067ZF, ERDF project 'Plants as a tool for sustainable global development'CZ.02.1.01./0.0/0.0/16_019/0000827, Consultative Group for International Agricultural Research Program on rice-agrifood systems (CRP-RICE), Association Nationale de la Recherche Technologique, France2015/0195, ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), and ANR-17-CE20-0028,MASTEROOT,Détermination de gènes régulateurs maîtres du développement des racines coronaires pour l'ingénierie de la tolérance au déficit hydrique des céréales.(2017)
- Subjects
crown root ,Oryza sativa ,gene regulatory network ,Plant Science ,QUIESCENT CENTER ,Plant Roots ,DNA binding domain ,DROUGHT TOLERANCE ,Gene Expression Regulation, Plant ,ASL ,Genetics ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,development ,Plant Proteins ,ASL/LBD transcription factor ,rice ,food and beverages ,Biology and Life Sciences ,Oryza ,BHLH TRANSCRIPTION FACTOR ,DNA ,Cell Biology ,CRL1 ,ALPHA-AMYLASE GENES ,LOB-DOMAIN PROTEIN ,LATERAL-ORGAN-BOUNDARIES ,SENESCENCE-ASSOCIATED GENES ,ARABIDOPSIS-THALIANA ,ORYZA-SATIVA ,LBD transcription factor ,EXPRESSION ANALYSIS ,hormones, hormone substitutes, and hormone antagonists ,Transcription Factors - Abstract
International audience; In cereals, the root system is mainly composed of post-embryonic shoot-borne roots, named crown roots. The CROWN ROOTLESS1 (CRL1) transcription factor, belonging to the ASYMMETRIC LEAVES2-LIKE/LATERAL ORGAN BOUNDARIES DOMAIN (ASL/LBD) family, is a key regulator of crown root initiation in rice (Oryza sativa). Here, we show that CRL1 can bind, both in vitro and in vivo, not only the LBD-box, a DNA sequence recognized by several ASL/LBD transcription factors, but also another not previously identified DNA motif that was named CRL1-box. Using rice protoplast transient transactivation assays and a set of previously identified CRL1-regulated genes, we confirm that CRL1 transactivates these genes if they possess at least a CRL1-box or an LBD-box in their promoters. In planta, ChIP-qPCR experiments targeting two of these genes that include both a CRL1- and an LBD-box in their promoter show that CRL1 binds preferentially to the LBD-box in these promoter contexts. CRISPR/Cas9-targeted mutation of these two CRL1-regulated genes, which encode a plant Rho GTPase (OsROP) and a basic helix-loop-helix transcription factor (OsbHLH044), show that both promote crown root development. Finally, we show that OsbHLH044 represses a regulatory module, uncovering how CRL1 regulates specific processes during crown root formation.
- Published
- 2022
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