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Profiling primary downstream target of LBD16 in roots of Arabidopsis thaliana

ABSTRACT: Profiling primary downstream target of LBD16 in roots of Arabidopsis thaliana

PROVIDER: PRJNA474924 | ENA |

REPOSITORIES: ENA

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Profiling primary downstream target of LBD16 in roots of Arabidopsis thaliana

Project description:Lateral roots (LRs) are formed post-embryonically and contribute to root architecture formation in vascular plants. LATERAL ORGAN BOUNDARIES-DOMAIN 16 (LBD16) is a key transcription factor to initiate LR formation functioning redundantly with related LBD members. To identify primary downstream targets of LBD16, we engineered a transgenic line with inducible LBD16 activity by expressing a fusion protein of LBD16 and rat glucocorticoid receptor (GR) under the regulation of its own regulatory region (gLBD16-GR) in the lbd16-1 lbd18-1 lbd33-1 mutant. Here we identified primary response genes of LBD16 from transcriptome analysis.

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Project description:Profiling downstream targets of PUCHI in roots of Arabidopsis thaliana

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Project description:To optimize access to nitrogen under limiting conditions, root systems must continuously sense and respond to local or temporal fluctuations in nitrogen availability. In Arabidopsis thaliana and several other species, external N levels that induce only mild deficiency stimulate the emergence of lateral roots and especially the elongation of primary and lateral roots. However, the identity of the genes involved in this coordination remains still largely elusive. In order to identify novel genes and mechanisms underlying nitrogen-dependent root morphological changes, we investigated time-dependent changes in the root transcriptome of Arabidopsis thaliana plants grown under sufficient nitrogen or under conditions that induced mild nitrogen deficiency.

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Arabidopsis thaliana roots: inoculated roots with a bacterium Antarctic (Pseudomonas sp, Dac-bac TI-8) vs untreated roots (control)

Project description:Transcriptional profiling of Arabidopsis thaliana roots comparing inoculated roots with a bacterial strain Antarctic (Pseudomonas sp, Da-bac TI-8) vs untreated roots (control) Two-condition experiment, inoculated roots vs. untreated roots (control). Biological replicates: 4 inoculated roots replicates vs. 4 untreated roots replicates (control)

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The study of ethylene response in cellular elongation of Arabidopsis roots

Project description:The goal of the experiments is to identify differential genes between the roots of Arabidopsis thaliana and roots treated for 3 h with 1-aminocyclopropane-1-carboxylic acid (ACC). ACC blocks the maximal cell elongation of the root cells. - Arabidopsis plants are grown for 5 days on MS medium and then we transfer them to a medium supplemented with ACC (5uM) or without ACC. After 3 h of growth, we isolate the RNA of the roots. Keywords: treated vs untreated comparison

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Transcriptome-wide RNA 5-methylcytosine methylation in roots of Arabidopsis thaliana

Project description:Here we use bisulfite conversion of rRNA depleted RNA combined with high-throughput Illumina sequencing (RBS-seq) to identify single-nucleotide resolution of m5C sites transcriptome-wide in Arabidopsis thaliana roots. m5C sites were analyzed in wild type (WT) and an Arabidopsis T-DNA KO mutant for the RNA methyltransferase TRM4B.

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