GSM7296382: LUZ19_control; Pseudomonas aeruginosa; RNA-Seq - SRA

SRX20229488: GSM7296382: LUZ19_control; Pseudomonas aeruginosa; RNA-Seq
1 OXFORD_NANOPORE (PromethION) run: 3.2M spots, 2G bases, 1.8Gb downloads

External Id: GSM7296382_r1

Submitted by: Laboratory of Gene Technology, Biosystems, KU Leuven

Study: Refining the transcriptional maps of Pseudomonas aeruginosa phages using ONT-cappable-seq

PRJNA967321 • SRP436014 • All experiments • All runs

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The global transcriptional profiles of Pseudomonas aeruginosa phages LUZ19, LUZ24, YuA, PAK_P3, 14-1 and phiKZ was obtained using the long read RNA sequencing technique ONT-cappable-seq. Using this approach we obtained a comprehensive genome-wide map of viral transcription start sites, terminators and transcription units. Overall design: Full-length transcriptional profiling of P. aeruginosa infected with different phages (LUZ19, LUZ24, YuA, PAK_P3, 14-1, phiKZ) using ONT-cappable-seq

Sample: LUZ19_control

SAMN34591412 • SRS17547562 • All experiments • All runs

Organism: Pseudomonas aeruginosa PAO1

Library:

Name: GSM7296382

Instrument: PromethION

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: All samples, aside from 0 min, were pooled together and homogenized (sample tφ). The resulting samples t0 (uninfected) and tφ (phage infected) were subjected to hot phenol treatment and ethanol precipitation to extract and purify the RNATotal RNA was extracted using hot-phenol extraction, followed by DNAse treatment. Total RNA was enriched for primary transcripts using the ONT-cappable-seq enrichment protocol. In parallel, control samples were subjected to similar environmental conditions. The RNA was reverse transcribed, PCR amplified and barcoded accoriding to Oxford Nanopore Technology cDNA-PCR protocol (SQK-PCB109) Total RNA was enriched for primary transcripts using the ONT-cappable-seq enrichment protocol. In parallel, control samples were subjected to similar environmental conditions. The RNA was reverse transcribed, PCR amplified and barcoded accoriding to Oxford Nanopore Technology cDNA-PCR protocol (SQK-PCB109). The amplified cDNA samples were pooled together in a final library.

Runs: 1 run, 3.2M spots, 2G bases, 1.8Gb

Run	# of Spots	# of Bases	Size	Published
SRR24442204	3,198,041	2G	1.8Gb	2024-03-13

ID:: 27649854

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