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Series GSE102376 Query DataSets for GSE102376
Status Public on Feb 13, 2019
Title Global fine-tuning of translation by queuosinylation and Dnmt2-dependent tRNA methylation
Organism Schizosaccharomyces pombe
Experiment type Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary In most eukaryotes, the wobble position of tRNA with a GUN anticodon is queuosine-modified (Q34). Q is synthesized exclusively by eubacteria and salvaged by eukaryotes as a nutrient to replace G34 in tRNAs. Q34 modification stimulates Dnmt2/Pmt1-dependent C38 methylation in the tRNAAsp anticodon loop in Schizosaccharomyces pombe. Due to the location of both modification in the anticodon loop, we anticipated an influence on translation. Our experimental setup allowed for the analysis of effects from each modification alone or a combination of both.
Overall design Cytoplasmic RNA and Cytoplasmic RNA protected by ribosome from RNaseI cleavage, were sequenced. Small RNA libraries were performed according to the protocol using NEB NEXT Small RNA library Prep Set for Illumina (Multiplex Compatible) E7330, and size-selected (120-170 base pairs) before sequencing.
Contributor(s) Müller M, Legrand C
Citation(s) 30715423
Submission date Aug 08, 2017
Last update date May 15, 2019
Contact name Ann E. Ehrenhofer-Murray
Organization name Humboldt-Universität zu Berlin
Department Institut für Biologie
Street address Philippstr. 13
City Berlin
ZIP/Postal code 10099
Country Germany
Platforms (2)
GPL13988 Illumina HiSeq 2000 (Schizosaccharomyces pombe)
GPL20584 Illumina NextSeq 500 (Schizosaccharomyces pombe)
Samples (36)
GSM2735640 fwt_rep1 [small RNA-seq]
GSM2735641 fwt_rep2 [small RNA-seq]
GSM2735642 fwt_rep3 [small RNA-seq]
BioProject PRJNA397588
SRA SRP115046

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE102376_CodonOccupancy.txt.gz 3.0 Kb (ftp)(http) TXT
GSE102376_combinedFootprintCounts.txt.gz 152.9 Kb (ftp)(http) TXT
GSE102376_combinedRNAseqCounts.txt.gz 212.8 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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