Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Shigella

ABSTRACT: Whole genome sequencing of cultured Shigella isolates to support the development of a serotyping pipeline using WGS for Shigella identification Raw sequence reads

PROVIDER: PRJNA490540 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8186590_1.fastq.gz	Fastqsanger.gz
	SRR8186590_2.fastq.gz	Fastqsanger.gz
	SRR8186600_1.fastq.gz	Fastqsanger.gz
	SRR8186600_2.fastq.gz	Fastqsanger.gz
	SRR8186610_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 304

Similar Datasets

Comparative Genomic Hybridization of E. coli and Shigella species to determine the relatedness of isolates from Neobladders

2011-07-25 | GSE27326 | GEO

Shigella CGH

Project description:Background Compelling evidence indicates that Shigella species, the etiologic agents of bacillary dysentery, as well as enteroinvasive Escherichia coli, are derived from multiple origins of Escherichia coli and form a single pathovar. To further understand the genome diversity and virulence evolution of Shigella, comparative genomic hybridization microarray analysis was employed to compare the gene content of E. coli K-12 with those of 43 Shigella strains from all serotypes. Results For the 43 strains subjected to CGH microarray analyses, the common backbone of the Shigella genome was estimated to contain more than 1,900 open reading frames, with a mean number of 729 undetectable ORFs. The mosaic distribution of absent regions indicated that insertions and/or deletions have led to the highly diversified genomes of pathogenic strains. Conclusion These results support the hypothesis that by gain and loss of functions, Shigella species became successful human pathogens through convergent evolution from diverse genomic backgrounds. Moreover, we also found many specific differences between different lineages, providing a window into understanding bacterial speciation and taxonomic relationships. Keywords: comparative genomic hybridization

2007-07-01 | GSE5212 | GEO

Comparative Genomic Hybridization of E. coli and Shigella species to determine the relatedness of isolates from Neobladders

Project description:Using comparative genomic hybridization we examined the genome content of 30 isolates of E. coli and Shigella to determine the relative location of E. coli isolates from the human neobladder Isolates were included in the study that represent the prototype strains of multiple pathovars. No replicates were included in the final comparisons

2011-07-24 | E-GEOD-27326 | biostudies-arrayexpress

Shigella sonnei Switzerland

Project description:WGS of selected Shigella sonnei clinical isolates from Switzerland

| PRJEB23646 | ENA

Shigella species

Project description:Shigella WGS from Ireland

| PRJEB18660 | ENA

Intestinal xenotransplants infected with Shigella

Project description:to analyse the transcriptomic response of human intestinal tissue engrafted in SCID mice to Shigella infection Keywords: infection, Shigella, gene expression, intestinal cell

2008-06-23 | GSE8636 | GEO

Shigella sonnei strain:SSGM5126

Project description:Shigella sonnei WGS

| PRJNA294946 | ENA

Shigella

Project description:PulseNet WGS Data of Shigella spp. Isolates Collected in the Province of Quebec, Canada

| PRJNA639996 | ENA

Shigella induces epigenetic reprogramming of zebrafish neutrophils

Project description:Trained immunity is a long-term memory of innate immune cells, generating an improved response upon re-infection. Shigella is an important human pathogen and inflammatory paradigm for which there is no effective vaccine. Using zebrafish larvae we demonstrate that after Shigella priming neutrophils are more efficient at bacterial clearance. We observe that Shigella-induced protection is non-specific and long-lasting, and is unlike training by BCG and β-glucan. Analysis of histone ChIP-seq on primed neutrophils revealed that Shigella training deposits the active H3K4me3 mark on promoter regions of 1612 genes, significantly changing the epigenetic landscape of neutrophils towards enhanced microbial recognition and mitochondrial ROS production. Finally, we demonstrate that mitochondrial ROS plays a key role in enhanced antimicrobial activity of trained neutrophils. It is envisioned that signals and mechanisms we discover here can be used in other vertebrates, including humans, to suggest new therapeutic strategies involving neutrophils to control bacterial infection.

2023-09-13 | GSE217063 | GEO

Transcriptomic profiling of HeLa cells infected with Shigella flexneri

Project description:We evaluated the transcriptome changes induced by infection of Hela 229 cells with Shigella flexneri. The sample set consists of a control (mock), total population of infected sample and infected sample sorted into Shigella positive and Shigella negative population.

2017-04-04 | GSE75746 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data