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SRX3421855: GSM2864869: ribo_footprints_mazF_25m; Escherichia coli; OTHER
1 ILLUMINA (NextSeq 500) run: 99.6M spots, 6.9G bases, 2.6Gb downloads

Submitted by: NCBI (GEO)
Study: E. coli MazF does not create specialized ribosomes that translate leaderless mRNAs, but instead blocks rRNA maturation and ribosome biogenesis [Ribo-Seq]
show Abstracthide Abstract
The purpose of this experiment was to assess translation of mRNA after MazF expression to determine if cleavage events resulted in a loss in ribosome footprints. Overall design: A + MazF sample at 5 minutes and 25 minutes after induction and an empty vector sample at 15 minutes of induction
Sample: ribo_footprints_mazF_25m
SAMN08097775 • SRS2713616 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: OTHER
Source: TRANSCRIPTOMIC
Selection: other
Layout: SINGLE
Construction protocol: Cells were harvested by filtration and were scraped into liquid nitrogen. Lysis was conducted on a mixer mill (Qiagen) and lysate was treated with MNase and separated on a sucrose gradient to yield ribosome protected mRNA fragments. RNA was harvested by phenol chloroform extraction. See publication for details. RNA fragments were size-selected, dephosphorylated, and ligated to a linker RNA. RNA was then reverse transcribed using an oligo recognizing the ligated linker. cDNA was circularized and cDNA arising from rRNA was subtracted using custom oligos. Finally, libraries were PCR amplified and sequenced.
Experiment attributes:
GEO Accession: GSM2864869
Links:
Runs: 1 run, 99.6M spots, 6.9G bases, 2.6Gb
Run# of Spots# of BasesSizePublished
SRR632203299,556,3396.9G2.6Gb2017-12-06

ID:
4765938

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