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RNA-seq analysis of Streptococcus pneumoniae during intraspecies competition in broth culture

ABSTRACT: RNA-seq analysis of Streptococcus pneumoniae during intraspecies competition in broth culture

PROVIDER: PRJNA434458 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6745290_1.fastq.gz	Fastqsanger.gz
	SRR6745290_2.fastq.gz	Fastqsanger.gz
	SRR6745291_1.fastq.gz	Fastqsanger.gz
	SRR6745291_2.fastq.gz	Fastqsanger.gz
	SRR6745292_1.fastq.gz	Fastqsanger.gz

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RNA-seq analysis of Streptococcus pneumoniae during intraspecies competition in broth culture

Project description:Streptococcus pneumoniae (‘pneumococcus’) is a leading cause of morbidity and mortality worldwide and a frequent coloniser of the nasopharynx. Competition among bacterial members of the nasopharynx is believed to be mediated by bacteriocins: antimicrobial toxins produced by bacteria to inhibit growth of other bacteria. We have identified 14 newly-discovered bacteriocin gene clusters among pneumococci. Here, RNA-seq analysis was performed to investigate whether bacteriocin genes are transcriptionally active when two different strains are competing in broth culture. Pneumococcal reference strains PMEN3 (Spain9V-3) and PMEN6 (Hungary19A-6) were grown together in broth culture. Samples were taken at sequential time points and RNA was extracted and sequenced. The controls were prepared by growing each strain individually in identical experiential conditions and combining the RNA sequencing reads from each individual strain in silico. Differential expression analyses were performed by comparing reads generated when strains were competing in broth culture to those from when strains were grown individually.

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Project description:Bacteriophages (phages) are widespread in Streptococcus pneumoniae, with most strains carrying phage genomes integrated into the chromosome. RNA sequencing was utilised to explore whether phage gene expression could be detected. The pneumococcal reference strain PMEN3 (Spain9V-3), which contained two full-length phages and one partial phage, was grown in broth culture and mitomycin C was added to facilitate phage induction. PMEN3 culture samples were taken at sequential time points and RNA was extracted and sequenced.

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Project description:This SuperSeries is composed of the following subset Series: GSE31815: ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + Glucose at MID-log growth phase GSE31816: ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + GLucose at transition-phase of growth (TS) GSE31817: ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + Galactose at MID-log growth phase GSE31818: ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + galactose at transition-phase of growth (TS) Refer to individual Series

2011-09-30 | E-GEOD-31819 | biostudies-arrayexpress

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N-acetylgalactosamine Mediated Regulation of the aga Operon by AgaR in Streptococcus pneumoniae

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2016-11-02 | GSE86008 | GEO

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