GSM7173195: STB-Kr Rep1; Mycobacterium canettii; RNA-Seq - SRA

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SRX19961304: GSM7173195: STB-Kr Rep1; Mycobacterium canettii; RNA-Seq
1 ILLUMINA (NextSeq 2000) run: 11.5M spots, 1.3G bases, 390.6Mb downloads

External Id: GSM7173195_r1

Submitted by: Institut Pasteur

Study: Natural mutations in the sensor kinase of the PhoPR two-component regulatory system modulate virulence of ancestor-like tuberculosis bacilli

PRJNA955279 • SRP432577 • All experiments • All runs

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In Mycobacterium tuberculosis, the PhoPR two-component regulatory system controls production and secretion of proteins and lipid virulence effectors. Several mutations, present in phoR of Mycobacterium canettii relative to M. tuberculosis, impact the expression of the PhoP regulon and the pathogenicity of the strains. Here, we analyse by RNA-seq the expression profile of PhoP-regulated genes between the two M. tuberculosis strains H37Rv and HN878 and the two M. canettii isolates STB-Ks and STB-Kr. Overall design: Gene expression profiling by RNA-seq of M. tuberculosis H37Rv and HN878 strains and M. canettii STB-Ks and STB-Kr isolates cultured in normal growth condition

Sample: STB-Kr Rep1

SAMN34175021 • SRS17308820 • All experiments • All runs

Organism: Mycobacterium canetti

Library:

Name: GSM7173195

Instrument: NextSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: RNA extraction was performed using a Trizol RNA isolation protocol (Invitrogen) and a mechanical lysis in Lysing Matrix B tubes (MP Biomedicals, Fisher Scientific) via rapid agitation in a Bead Mill 24 Homogenizer (Fisherbrand, Thermo Fisher Scientific). RNA extracts were then treated with the Turbo DNase (Ambion) and cleaned up using the RNeasy mini kit (Qiagen). RNA integrity and quality was monitored with a Bioanalyzer RNA nano assay (Agilent Technologies) to ensure that the RNA Integrity Number (RIN) was greater than 9. RNA-seq libraries were prepared using the Stranded Total RNA Prep and Ligation with Ribo-Zero Plus kit (Illumina) and sequenced using a NextSeq 2000 device (Illumina).

Runs: 1 run, 11.5M spots, 1.3G bases, 390.6Mb

Run	# of Spots	# of Bases	Size	Published
SRR24163395	11,477,357	1.3G	390.6Mb	2023-05-24

ID:: 27340868

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