Danks et al. 2019 (PRJNA314019)

General Details

Title Genome-wide profiling of mTOR-dependent translation in Oikopleura dioica
Organism
Number of Samples 24
Release Date 2016/03/01 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP071049
ENA SRP071049
GEO
BioProject PRJNA314019

Publication

Title
Authors Danks GB,Galbiati H,Raasholm M,Torres Cleuren YN,Valen E,Navratilova P,Thompson EM
Journal BMC genomics
Publication Date 2019 Nov 29
Abstract In phylogenetically diverse organisms, the 5' ends of a subset of mRNAs are trans-spliced with a spliced leader (SL) RNA. The functions of SL trans-splicing, however, remain largely enigmatic. We quantified translation genome-wide in the marine chordate, Oikopleura dioica, under inhibition of mTOR, a central growth regulator. Translation of trans-spliced TOP mRNAs was suppressed, consistent with a role of the SL sequence in nutrient-dependent translational control of growth-related mRNAs. Under crowded, nutrient-limiting conditions, O. dioica continued to filter-feed, but arrested growth until favorable conditions returned. Upon release from unfavorable conditions, initial recovery was independent of nutrient-responsive, trans-spliced genes, suggesting animal density sensing as a first trigger for resumption of development. Our results are consistent with a proposed role of trans-splicing in the coordinated translational down-regulation of nutrient-responsive genes under growth-limiting conditions.
PMC PMC6883708
PMID 31783727
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR3199149 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199150 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199151 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199152 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199153 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199154 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199155 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199156 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199157 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199158 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199159 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199160 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199161 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199162 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199163 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199164 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199173 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199174 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199175 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199176 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199177 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199178 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199179 PRJNA314019 Oikopleura dioica Ribo-Seq
SRR3199180 PRJNA314019 Oikopleura dioica Ribo-Seq
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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