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SRX15255224: GSM6139148: WY96-3418, rep4; Francisella tularensis subsp. tularensis; RNA-Seq
4 ILLUMINA (NextSeq 500) runs: 2.5M spots, 647.5M bases, 264.1Mb downloads

External Id: GSM6139148_r1
Submitted by: Helikar Lab, Biochemistry, University of Nebraska - Lincoln
Study: Arginine catabolism and polyamine biosynthesis pathway disparities within Francisella tularensis subpopulations
show Abstracthide Abstract
Francisella tularensis is a highly infectious zoonotic pathogen with as few as 10 organisms causing tularemia, a disease that is fatal if untreated. Although F. tularensis subspecies tularensis (type A) and subspecies holarctica (type B) share over 99.5% average nucleotide identity, notable differences exist in genomic organization and pathogenicity. The type A clade has been further divided into subtypes A.I and A.II, with A.I strains being recognized as some of the most virulent bacterial pathogens known. In this study, we report on major disparities that exist between the F. tularensis subpopulations in arginine catabolism and subsequent polyamine biosynthesis. The genes involved in these pathways include the speDEA and aguAB operons, along with metK. In the hypervirulent F. tularensis A.I clade, such as the A.I prototype strain SCHU S4, these genes were found to be intact and highly transcribed. In contrast, both subtype A.II and type B strains have a truncated speA gene, while the type B clade also has a disrupted aguA and truncated aguB. Ablation of the chromosomal speE gene that encodes a spermidine synthase reduced subtype A.I SCHU S4 growth rate, whereas the growth rate of type B LVS was enhanced. These results demonstrate that spermine synthase SpeE promotes faster replication in the F. tularensis A.I clade, whereas type B strains do not rely on this enzyme for fitness. Our ongoing studies on metabolism should provide a better understanding of the factors that contribute to F. tularensis pathogenicity. Overall design: Comparative gene expression profiling analysis of RNA-Seq data for F. tularensis subtype A.I strains SCHU S4 and MA00-2987, subtype A.II strain WY96-3418, and type B LVS during mid-log growth in brain heart infusion (BHI) broth.
Sample: WY96-3418, rep4
SAMN28233085 • SRS12987363 • All experiments • All runs
Library:
Name: GSM6139148
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Total RNA was extracted using the FastRNA Pro Blue Kit (MP Biomedicals), and then RNA was treated with DNase I and column purified, as recommended by the respective manufacturer. To produce the the RNA-Seq libraries, ScriptSeq v2 Complete Library Preparation Kit for Bacteria (Epicentre) was utilized according to the manufacturer's instructions and included Ribo-Zero Ribosomal RNA (rRNA) Reagents for Bacteria to remove rRNA.
Runs: 4 runs, 2.5M spots, 647.5M bases, 264.1Mb
Run# of Spots# of BasesSizePublished
SRR19190090688,376176.1M71.1Mb2022-07-13
SRR19190091624,684160M65.3Mb2022-07-13
SRR19190092627,369159.5M65.3Mb2022-07-13
SRR19190093596,706151.9M62.3Mb2022-07-13

ID:
21782845

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