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ABSTRACT: Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos

PROVIDER: PRJNA183632 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR630463_1.fastq.gz	Fastqsanger.gz
	SRR630463_2.fastq.gz	Fastqsanger.gz
	SRR630464_1.fastq.gz	Fastqsanger.gz
	SRR630464_2.fastq.gz	Fastqsanger.gz
	SRR630465_1.fastq.gz	Fastqsanger.gz

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Danio rerio

Project description:Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (Agilent)

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Danio rerio

Project description:Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (RNA-Seq)

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Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (RNA-Seq)

Project description:We use the zebrafish embryo model to study the innate immune response against Staphylococcus epidermidis. Therefore, we injected S. epidermidis into the yolk at 2 hpf and took samples at 5 days post injection. This deep sequence study was designed to determine the gene expression profile by Staphylococcus epidermidis infection. RNA was isolated from embryos at 5 days post injection. Wildtypes zebrafish embryos were micro-injected into the yolk (2hpf) with 20 CFU of S. epidermdis O-47 mCherry bacteria suspended in PVP (Polyvinylpyrrolidone), or Non-injected as a control. After injections embryos were transferred into fresh egg water and incubated at 28M-BM-0C. At 5 days post injection 100-200 embryos per group were snap-frozen in liquid nitrogen, and total RNA was isolated using TRIZOL reagent.

2013-04-01 | E-GEOD-42846 | biostudies-arrayexpress

Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (Agilent)

Project description:We use the zebrafish embryo model to study the innate immune response against Staphylococcus epidermidis. Therefore, we injected S. epidermidis (and three controls groups) into the yolk at 2 hpf and samples at mutiple timepoints. Gene expression profiles were obtained at 6, 30, 54, 78, 102 and 126 hpi by microarrays. The results show that the gram-positive bacterium S. epidermidis induces a late immune response with a strong response at 102 hpi. This microarray study was designed to determine the gene expression profile during infection with Staphylococcus epidermidis. RNA was isolated from groups of embryos (20) at 6 timepoints during the infection. Wildtypes zebrafish embryos were micro-injected into the yolk (2hpf) with (1) 20 CFU of S. epidermdis O-47 mCherry bacteria suspended in PVP (Polyvinylpyrrolidone), (2) mock-injected with PVP as a control, (3) Needle insertion as control, (4) Non-injected as a control. After injections embryos were transferred into fresh egg water and incubated at 28M-BM-0C. At 8 hpf (6 h post infection), 32 hpf (30 h post infection), 56 hpf (54 h post infection), 80 hpf (78 h post infection), 104 hpf (102 h post infection) or 128 hpf (126 h post infection) twenty embryos per treatment group were snap-frozen in liquid nitrogen, and total RNA was isolated using TRIZOL reagent. All treatment groups were analyzed using a common reference approach.

2013-04-01 | E-GEOD-37227 | biostudies-arrayexpress

Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (RNA-Seq)

2013-04-01 | GSE42846 | GEO

Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (Agilent)

2013-04-01 | GSE37227 | GEO

Proteomics identifies lipocalin 2 in neonatal inflammation associated with cerebrovascular alteration in mice and preterm infants

Project description:Staphylococcus (S.) epidermidis is one of the most common nosocomial coagulase-negative staphylococci infections in preterm infants. The clinical signs of infection are often unspecific and identification of novel markers to complement the current diagnosis is needed. In this study, we investigated proteomic alterations in the neonatal mouse brain following S. epidermidis infection and in the blood in preterm infants. We identified lipocalin 2 (LCN2) as a crucial protein associated with cerebrovascular changes and astrocyte reactivity in mice. While astrocytes were activated in S. epidermidis infected mice, LCN2 protein expression in the brain was associated with endothelial cells but not astrocyte reactivity. By combining weighted gene co-expression analysis and differential expression approaches, we further identified that LCN2 protein was linked to blood C-reactive protein levels in a cohort of preterm infants born <28 weeks of gestation. Blood LCN2 levels were associated with similar alterations of cytokines and chemokines in both infected mice and human preterm infants with increased levels of CRP. The present experimental and clinical study indicates that LCN2 might be a suitable additional marker of preterm infection/inflammation associated with cerebrovascular changes and neuroinflammation.

2023-10-24 | PXD041926 | Pride

The mutual effect of Staphylococcus epidermidis and Staphylococcus aureus in dual species biofilms as revealed by RNA-Seq

Project description:We examined the differential gene expression of Staphylococcus epidermidis and Staphylococcus epidermidis in dual species biofilms. Therefore, we performed RNA-Seq on single and dual species biofilms and we compared the gene expression levels in dual species biofilms to those in single species biofilms.

2016-05-27 | GSE79575 | GEO

Dormancy within Staphylococcus epidermidis biofilms: a transcriptomic analysis by RNA-seq

Project description:We sequenced mRNA from three independent biological replicates of Staphylococcus epidermidis biofilms with different proportion of dormant cells. Whole trancriptome analysis of Staphylococcus epidermidis biofilms with prevented and induced dormancy.

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Cutaneous T effector transcriptomic responses triggered by early colonization of Staphylococcus species in new-born mice

Project description:We used the next generation sequencing method to profile gene expression changes in cutaneous T effectors isolated from mice with early colonization with Staphylococcus aureus or Staphylococcus epidermidis

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