Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: USDA-ARS antibiosis-associated Serratia marcescens

PROVIDER: PRJNA636510 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR11905274_subreads.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Global identification of Hfq-bound RNA and transcriptional start site mapping in Serratia marcescens.

Project description:In order to identify mRNA and sRNAs associated with the RNA-binding protein Hfq in Serratia marcescens strain Db10, Hfq-bound RNA was immunoprecipitated from a strain encoding an Hfq-3FLAG fusion protein at the normal location and sequenced, in parallel with the wild type strain (no fusion) as negative control. Additionally global transcriptional start site mapping was performed on total RNA, with or without TEX treatment, isolated from wild type Serratia marcescens. The data was used to identify regions of mRNA and sRNAs associated with Hfq in this organism. Associated work in Serratia marcescens Db10, an opportunistic bacterial pathogen, has shown that Hfq is essential for virulence in several models and exerts a wide-ranging impact on the transcriptome and, particularly, genes encoding virulence factors.

2022-02-19 | GSE78185 | GEO

Global mRNA transcriptome analysis of wild type and Hfq mutant strains of Serratia marcescens by RNAseq

Project description:In order to identify changes in the global mRNA transcriptome caused by deletion of the RNA-binding protein Hfq in Serratia marcescens, total mRNA was isolated from wild type Serratia marcescens Db10 and an otherwise isogenic strain carrying an in-frame deletion of the hfq gene (SMDB11_4482) and analysed by RNAseq. Four independent biological replicates were sequenced for each strain using the Illumina HiSeq platform. The data was used to identify the nature and extent of changes in transcript level between the two strains and to inform on the role of Hfq in virulence of Serratia marcescens, an opportunist bacterial pathogen.

2017-08-01 | E-MTAB-4501 | biostudies-arrayexpress

Serratia marcescens BJL200 secretome

Project description:Study the secretome of Serratia marcescens BJL200 upon growth on chitin.

2018-05-30 | PXD005225 | Pride

Insight into the regulation of prodigiosin production by temperature in Serratia marcescens through transcriptome analysis

Project description:We report the application of transcriptome sequencing technology for high-throughput profiling of Serratia marcescens for producing prodigiosin. By obtaining over 163 million bases of sequence from Serratia marcescens genome DNA, we generated transcriptome -state maps of Serratia marcescens 12h cells, 24h cells, and 36h cells at 30C and 37C,respectively. We explored the mechanism of S. marcescens response temperature regulation at the transcription level through transcriptome sequencing technology. We found that the pig gene cluster at low temperature would favor at the transcriptional level, however, higher temperature resulting in instability and loss of enzyme activity. Numerous amino acid metabolic pathways involved in prodigiosin biosynthesis in S. marcescens responded to temperature changes, and metabolic fluxes were directed towards prodigiosin biosynthesis. At the same time, quorum sensing, two-component regulatory system and sRNA were stimulated by temperature to regulate PG biosynthesis and involve strain virulence and exclusive genes. Moreover, inhibition factors was the one reason for S. marcescens incapable synthesis of prodigiosin at 37C. This study laid a good foundation for understanding the biological functions of prodigiosin, improving the temperature tolerance of industrial strains, and excavating temperature-sensitive regulatory elements.

2020-12-31 | GSE144646 | GEO

P. pacificus young adults: Exposed to Serratia marcescens versus exposed to E. coli OP50 : 4 hours

Project description:Transcriptional profiling of P. pacificus young adult worms exposed to pathogen Serratia marcescens for 4 hours versus age-matched worms exposed to control lab food E. coli OP50. The goal was to identify genes regulated in response to pathogen. The broader goal of study was to study evolution of pathogen response by comparing this expression profile to that obtained by exposing the nematode C. elegans to the same pathogen. Other experiments which are a part of this study include expression profiling of C. elegans and P. pacificus on other pathogens including , Bacillus thuringiensis DB27, Serratia marcescens and Xenorhabdus nematophila. One-condition experiments. P. pacificus young adults: Exposed to Serratia marcescens versus exposed to E. coli OP50 : 4 hours. 4 biological replicates for each condition, including 2 dye-swaps.

2012-03-21 | E-GEOD-36521 | biostudies-arrayexpress

Drosophila melanogaster midgut transcriptome analysis after an oral infection by the entomopathogen bacteria Serratia marcescens

Project description:Drosophila melanogaster oral infection by the entomopathogen bacteria Serratia marcescens trigger, at the midgut level, a drastic phenotype during the early phase of the exposure. In response to Serratia marcescens virulence factors the enterocytes present a rapid formation of megamitochondria and a subsequent controlled extrusion of the cytoplasm along with damaged organelles, which may constitute a repair mechanism. This results in a thin intestinal epithelium that then recovers its original shape in just a few hours. In order to identify, at the midgut level, the transcriptional modifications induced by Serratia marcescens during this early phase of the infection, we performed a RNAseq transcriptomics analysis of the flies intestine three hours after bacteria ingestion. We found that 144 genes were significantly induced and that 34 genes were repressed at this time point in comparison to the non infected midguts.

2016-11-22 | GSE60504 | GEO

P. pacificus young adults: Exposed to Serratia marcescens versus exposed to E. coli OP50 : 4 hours

2012-03-21 | GSE36521 | GEO

Transcriptional impact of eepR mutation in Serratia marcescens

Project description:The EepR protein is a two-component response regulator protein in the bacterium Serratia marcescens. Mutation of the eepR gene results in pleiotropic changes including reduced expression of secondary metabolites and proteases.

2023-06-20 | GSE155648 | GEO

GNPS - Bacterial crude extracts from Bacillus sp. strain 16060 (a member of the Bacillus subtilis group) and Serratia marcescens strains SE1 and SE2

Project description:This dataset includes MS-DIAL processed data from ethyl acetate extracts of bacterial supernatants obtained from Bacillus sp. strain 16060, Serratia marcescens strain SE1, and Serratia marcescens strain SE2.

2023-11-04 | MSV000093298 | GNPS

C. elegans young adults: Exposed to Serratia marcescens versus exposed to E. coli OP50 : 4 hours

Project description:Transcriptional profiling of C. elegans young adult worms exposed to pathogen Serratia marcescens for 4 hours versus age-matched worms exposed to control lab food E. coli OP50. The goal was to identify genes regulated in response to pathogen. The broader goal of study was to study evolution of pathogen response by comparing this expression profile to that obtained by exposing the nematode Pristionchus pacificus to the same pathogen. Other experiments which are a part of this study include expression profiling of C. elegans and P. pacificus on other pathogens including Bacillus thuringiensis, Staphylococcus aureus, and Xenorhabdus nematophila. One-condition experiments. C. elegans young adults: Exposed to Serratia marcescens versus exposed to E. coli OP50 : 4 hours. 4 biological replicates for each condition, including 2 dye-swaps.

2012-03-21 | E-GEOD-36499 | biostudies-arrayexpress

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