GSM5593245: 28C_csp1_2; Xylella fastidiosa subsp. fastidiosa; RNA-Seq - SRA

SRX12297101: GSM5593245: 28C_csp1_2; Xylella fastidiosa subsp. fastidiosa; RNA-Seq
1 OXFORD_NANOPORE (MinION) run: 78,981 spots, 65.4M bases, 56.5Mb downloads

Submitted by: NCBI (GEO)

Study: Using next generation sequencing to compare gene expression of wild type and ?csp1 mutant of bacterial plant pathogen Xylella fastidiosa strain Stag's Leap

PRJNA765323 • SRP338213 • All experiments • All runs

show Abstracthide Abstract

To investigate the role(s) of a cold shock protein homolog (Csp1) in plant pathogenic bacteria Xylella fastidiosa, we compared transcriptome profiles between wild type and a csp1 deletion mutant (?csp1) using long read Nanopore RNA sequencing. Overall design: Examined mRNA profiles of 7 day old wild type and ?csp1 X. fastidiosa cells grown on PD3 agar plates under standard conditions (28°C) and at low temperature conditions (15°C)

Sample: 28C_csp1_2

SAMN21553656 • SRS10270787 • All experiments • All runs

Organism: Xylella fastidiosa subsp. fastidiosa

Library:

Instrument: MinION

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: Bacteria cells were scraped off PD3 agar plates and flash frozen on dry ice. RNA was purified using Trizol reagent. Oxford Nanopore direct cDNA sequencing kit was was used with 250ng of rRNA depleted RNA for the construction of sequencing libraries. Nanopre direct cDNA sequencing library

Experiment attributes:

GEO Accession: GSM5593245

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 78,981 spots, 65.4M bases, 56.5Mb

Run	# of Spots	# of Bases	Size	Published
SRR16009462	78,981	65.4M	56.5Mb	2021-10-11

ID:: 16216874

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Sequence Read Archive

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