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SRX24935640: GSM8330388: H37Rv whiB6 mutant complemented promoter WT - whiB6 T51P Rep2; Mycobacterium tuberculosis H37Rv; RNA-Seq
1 ILLUMINA (NextSeq 2000) run: 20M spots, 1G bases, 338Mb downloads

External Id: GSM8330388_r1
Submitted by: Institut Pasteur
Study: Role of whiB6 and kdpDE in the successful multidrug-resistant clone Mycobacterium tuberculosis B0/W148 [whiB6_RNA-seq]
show Abstracthide Abstract
Among the multidrug-resistant (MDR) clones of Mycobacterium tuberculosis (Mtb) that were epidemiologically particularly successful, the 100-32 MDR Beijing clone, also called B0/W148 clone, has emerged since the early sixties. These B0/W148 strains belonging to the lineage 2 within the global Mtb phylogeny, are the main contributors to the MDR epidemic in Russia and Eastern Europe, and since the USSR's fall, have also propagated to Western Europe. Among the various mutations that were identified as being specific for the MDR B0/W148 clone, we focused on two found in the transcriptional regulators KdpDE and WhiB6 and characterized in a H37Rv strain background the transcriptional profile associated with these mutations and their potential impact on the in vitro and in vivo growth characteristics. Overall design: Gene expression profiling by RNA-seq of the effect induced by the mutation T51P in whiB6 of M. tuberculosis H37Rv cultured in normal growth condition
Sample: H37Rv whiB6 mutant complemented promoter WT - whiB6 T51P Rep2
SAMN41846225 • SRS21639971 • All experiments • All runs
Library:
Name: GSM8330388
Instrument: NextSeq 2000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Bacterial strains were pelleted and bead beated in 1 mL of TRIzol (Life Technologies) with 0.1 mm silica beads (MP Biomedicals). After centrifugation, supernatants were extracted with chloroform, and RNA was precipitated with isopropanol and glycogen. RNA pellets were washed with 75% ethanol and dissolved in RNase-free water. Contaminant DNA was removed by incubation with DNase (TURBO DNA-free kit, Life Technologies). RNA cleanup was performed with the RNeasy Mini Kit (Qiagen). RNA integrity and quality were assessed with an Agilent Bioanalyzer device (Agilent Technologies). 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, 20M spots, 1G bases, 338Mb
Run# of Spots# of BasesSizePublished
SRR2942253220,011,7711G338Mb2024-09-25

ID:
33271883

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