• Login
    View Item 
    •   Home
    • Office of Sponsored Research (OSR)
    • KAUST Funded Research
    • Publications Acknowledging KAUST Support
    • View Item
    •   Home
    • Office of Sponsored Research (OSR)
    • KAUST Funded Research
    • Publications Acknowledging KAUST Support
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of KAUSTCommunitiesIssue DateSubmit DateThis CollectionIssue DateSubmit Date

    My Account

    Login

    Quick Links

    Open Access PolicyORCID LibguidePlumX LibguideSubmit an Item

    Statistics

    Display statistics

    Landscape of the non-coding transcriptome response of two Arabidopsis ecotypes to phosphate starvation

    • CSV
    • RefMan
    • EndNote
    • BibTex
    • RefWorks
    Type
    Article
    Authors
    Blein, Thomas
    Balzergue, Coline
    Roulé, Thomas
    Gabriel, Marc
    Scalisi, Laetitia
    François, Tracy
    Sorin, Céline
    Christ, Aurélie
    Godon, Christian
    Delannoy, Etienne
    Martin-Magniette, Marie-Laure
    Nussaume, Laurent
    Hartmann, Caroline
    Gautheret, Daniel
    Desnos, Thierry M.
    Crespi, Martin
    KAUST Grant Number
    CRG4
    OCRF-2014-CRG
    Date
    2020-05-13
    Online Publication Date
    2020-05-13
    Print Publication Date
    2020-07
    Submitted Date
    2020-04-15
    Permanent link to this record
    http://hdl.handle.net/10754/662875
    
    Metadata
    Show full item record
    Abstract
    Root architecture varies widely between species, and even between ecotypes of the same species, despite the strong conservation of the coding portion of their genomes. By contrast, non-coding RNAs evolve rapidly between ecotypes and may control their differential responses to the environment, since several long non-coding RNAs (lncRNAs) are known to quantitatively regulate gene expression. Roots from Columbia (Col) and Landsberg erecta (Ler) ecotypes respond differently to phosphate starvation. Here, we compared transcriptomes (mRNAs, lncRNAs, and small RNAs) of root tips from these two ecotypes during early phosphate starvation. We identified thousands of lncRNAs that were largely conserved at the DNA level in these ecotypes. In contrast to coding genes, many lncRNAs were specifically transcribed in one ecotype and/or differentially expressed between ecotypes independent of phosphate availability. We further characterized these ecotype-related lncRNAs and studied their link with siRNAs. Our analysis identified 675 lncRNAs differentially expressed between the two ecotypes, including antisense RNAs targeting key regulators of root-growth responses. Mis-regulation of several intergenic lncRNAs showed that at least two ecotype-related lncRNAs regulate primary root growth in Col. RNA-seq analysis following the deregulation of the lncRNA NPC48 revealed a potential link with root growth and transport functions. This exploration of the non-coding transcriptome identified ecotype-specific lncRNAs-mediated regulation in root apexes. The non-coding genome may harbor further mechanisms involved in ecotype adaptation of roots to different soil environments.
    Citation
    Blein, T., Balzergue, C., Roulé, T., Gabriel, M., Scalisi, L., François, T., … Crespi, M. (2020). Landscape of the non-coding transcriptome response of two Arabidopsis ecotypes to phosphate starvation. Plant Physiology, pp.00446.2020. doi:10.1104/pp.20.00446
    Sponsors
    This work was supported by grants from Agence Nationale pour la Recherche (ANR) RNAdapt (grant no. ANR-12-ADAP-0019), SPLISIL (grant no. ANR-16-CE12-0032) and grants of The King Abdulla University of Science and Technology (KAUST) International Program OCRF-2014-CRG4. This work has benefited from a French State grant (Saclay Plant Sciences, reference n° ANR-17-EUR-0007, EUR SPS-GSR) managed by the French National Research Agency under an Investments for the Future program (reference n°ANR-11-IDEX-0003-02).
    Publisher
    American Society of Plant Biologists (ASPB)
    Journal
    Plant Physiology
    DOI
    10.1104/pp.20.00446
    Additional Links
    http://www.plantphysiol.org/lookup/doi/10.1104/pp.20.00446
    ae974a485f413a2113503eed53cd6c53
    10.1104/pp.20.00446
    Scopus Count
    Collections
    Publications Acknowledging KAUST Support

    entitlement

     
    DSpace software copyright © 2002-2021  DuraSpace
    Quick Guide | Contact Us | Send Feedback
    Open Repository is a service hosted by 
    Atmire NV
     

    Export search results

    The export option will allow you to export the current search results of the entered query to a file. Different formats are available for download. To export the items, click on the button corresponding with the preferred download format.

    By default, clicking on the export buttons will result in a download of the allowed maximum amount of items. For anonymous users the allowed maximum amount is 50 search results.

    To select a subset of the search results, click "Selective Export" button and make a selection of the items you want to export. The amount of items that can be exported at once is similarly restricted as the full export.

    After making a selection, click one of the export format buttons. The amount of items that will be exported is indicated in the bubble next to export format.