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Shigella flexneri strain:FC470 | isolate:FC470

ABSTRACT: Shigella flexneri strain:FC470 | isolate:FC470 Genome sequencing

PROVIDER: PRJNA371292 | ENA |

REPOSITORIES: ENA

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Expression analysis of Shigella flexneri 2a strain 301

Project description:Investigation of whole genome gene expression to identify overlooked sRNAs and sORFs. Background The completion of numerous genome sequences has introduced an era of whole-genome study. However, many real genes, including small RNAs (sRNAs) and small ORFs (sORFs), are missed in genome annotation. In order to improve genome annotation, we sought to identify novel sRNAs and sORFs in Shigella, the principal etiologic agents of bacillary dysentery or shigellosis. Results Firstly, we identified 64 sRNAs in Shigella which is experimentally validated in other bacteria based on sequence conservation. Secondly, among possible approaches to search for sRNAs, we employed computer-based and tiling array based methods, followed by RT-PCR and northern blots. This allowed us to identify 12 sRNAs in Shigella flexneri strain 301. We also find 29 candidate sORFs. Conclusions This investigation provides an updated and comprehensive annotation of the Shigella genome, increases the expected numbers of sORFs and sRNAs with the corresponding impact on future functional genomics and proteomics studies. Our method can be used for the large scale reannotation of sRNAs and sORFs in any microbe whose genome sequence is available.

2011-06-27 | GSE22800 | GEO

The expression profiles analysis of a virulence plasmid-cured strain of shigella flexneri

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Expression analysis of Shigella flexneri 2a strain 301

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Shigella flexneri strain:sludge | isolate:sludge

Project description:Shigella flexneri strain:sludge | isolate:sludge Genome sequencing

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Shigella flexneri strain:P099 | isolate:P099

Project description:Shigella flexneri strain:P099 | isolate:P099 Genome sequencing

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The expression profiles analysis of a virulence plasmid-cured strain of shigella flexneri

Project description:In this study, we analyzed the expression profiles of a virulence plasmid-cured strain and wild-type strain of shigella flexneri. The results showed that the genes of glp regulon were upregulated in mutant bacteria in stationary phase cultures. The two strains were cultured in LB broth into log-phase and stationary phase respectively. Then, the total RNAs were extracted and analyzed by Nimblegen biochips.

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RNA-Seq analysis of the T3SA regulon in Shigella flexneri reveals two new chromosomal genes upregulated in the on-state

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Transcriptional Profile of the Shigella flexneri Response to Berberine

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