Liu et al. 2013 (PRJNA187087)

General Details

Title Translational landscape of photomorphogenic Arabidopsis
Organism
Number of Samples 4
Release Date 2013/01/23 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP018118
ENA SRP018118
GEO GSE43703
BioProject PRJNA187087

Publication

Title
Authors Liu MJ, Wu SH, Wu JF, Lin WD, Wu YC, Tsai TY, Tsai HL, Wu SH
Journal The Plant cell
Publication Date 2013 Oct
Abstract Translational control plays a vital role in regulating gene expression. To decipher the molecular basis of translational regulation in photomorphogenic Arabidopsis thaliana, we adopted a ribosome profiling method to map the genome-wide positions of translating ribosomes in Arabidopsis etiolated seedlings in the dark and after light exposure. We found that, in Arabidopsis, a translating ribosome protects an ~30-nucleotide region and moves in three-nucleotide periodicity, characteristics also observed in Saccharomyces cerevisiae and mammals. Light enhanced the translation of genes involved in the organization and function of chloroplasts. Upstream open reading frames initiated by ATG but not CTG mediated translational repression of the downstream main open reading frame. Also, we observed widespread translational repression of microRNA target genes in both light- and dark-grown Arabidopsis seedlings. This genome-wide characterization of transcripts undergoing translation at the nucleotide-resolution level reveals that a combination of multiple translational mechanisms orchestrates and fine-tunes the translation of diverse transcripts in plants with environmental responsiveness.
PMC PMC3877810
PMID 24179124
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR652152 PRJNA187087 Arabidopsis thaliana 0.0 Ribo-Seq 0.0
SRR652153 PRJNA187087 Arabidopsis thaliana 0.0 Ribo-Seq 0.0
SRR974752 PRJNA187087 Arabidopsis thaliana 0.0 Ribo-Seq 0.0
SRR974753 PRJNA187087 Arabidopsis thaliana 0.0 Ribo-Seq 0.0
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

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