Howard et al. 2013 (PRJNA197001)
General Details
| Title | The effects of dietary selenium on selenocysteine incorporation and selenoprotein expression |
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| Organism | |
| Number of Samples | 6 |
| Release Date | 2013/04/13 00:00 |
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| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP021058 |
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| ENA | SRP021058 |
| GEO | GSE46038 |
| BioProject | PRJNA197001 |
Publication
| Title | |
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| Authors | Howard MT, Carlson BA, Anderson CB, Hatfield DL |
| Journal | The Journal of biological chemistry |
| Publication Date | 2013 Jul 5 |
| Abstract | Incorporation of selenium into ~25 mammalian selenoproteins occurs by translational recoding whereby in-frame UGA codons are redefined to encode the selenium containing amino acid, selenocysteine (Sec). Here we applied ribosome profiling to examine the effect of dietary selenium levels on the translational mechanisms controlling selenoprotein synthesis in mouse liver. Dietary selenium levels were shown to control gene-specific selenoprotein expression primarily at the translation level by differential regulation of UGA redefinition and Sec incorporation efficiency, although effects on translation initiation and mRNA abundance were also observed. Direct evidence is presented that increasing dietary selenium causes a vast increase in ribosome density downstream of UGA-Sec codons for a subset of selenoprotein mRNAs and that the selenium-dependent effects on Sec incorporation efficiency are mediated in part by the degree of Sec-tRNA([Ser]Sec) Um34 methylation. Furthermore, we find evidence for translation in the 5'-UTRs for a subset of selenoproteins and for ribosome pausing near the UGA-Sec codon in those mRNAs encoding the selenoproteins most affected by selenium availability. These data illustrate how dietary levels of the trace element selenium can alter the readout of the genetic code to affect the expression of an entire class of proteins. |
| PMC | PMC3707644 |
| PMID | 23696641 |
| DOI |
| 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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| SRR826795 | PRJNA197001 | Mus musculus | 0.0 | Ribo-Seq | 0.0 |  |
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| SRR826796 | PRJNA197001 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR826797 | PRJNA197001 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR826798 | PRJNA197001 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR826799 | PRJNA197001 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR826800 | PRJNA197001 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| 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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