Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Vibrio cholerae biofilm and planktonic growth RNAseq analysis

ABSTRACT: Vibrio cholerae biofilm and planktonic growth RNAseq analysis

PROVIDER: PRJNA560418 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR9975250.fastq.gz	Fastqsanger.gz
	SRR9975251.fastq.gz	Fastqsanger.gz
	SRR9975252.fastq.gz	Fastqsanger.gz
	SRR9975253.fastq.gz	Fastqsanger.gz
	SRR9975254.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Vibrio cholerae biofilm and planktonic growth RNAseq analysis

Project description:To determine transcriptome differences in Vibrio cholerae when grown as planktonic and biofilm cultures, whole-genome level transcriptional profiling was performed using RNAseq analysis. Transcriptomes of biofim and planktonic cultures were compared in this study.

2020-05-28 | GSE135887 | GEO

Vibrio cholerae in planktonic and biofilm growth modes exposed to Ag nanoparticles

Project description:Untargeted metabolomic study of Vibrio cholerae using HR-LC-MS/MS in positive mode. Four groups were established based on growth mode (planktonic or biofilm) and Ag nanoparticle exposition (exposed or non-exposed).

2022-01-10 | MSV000088670 | MassIVE

GNPS Vibrio cholerae in planktonic and biofilm growth modes exposed to Ag nanoparticles

2022-01-10 | MSV000088670 | GNPS

Vibrio vulnificus : biofilm cells vs. planktonic cells

Project description:The profiles of transcripts from the planktonic cells and biofilm cells of V. vulnificus were compared by using a V. vulnificus whole-genome microarray

2014-07-26 | GSE59753 | GEO

Comparison between V. cholerae MO10 delta PTS mutant and wild type strain grown as planktonic or surface-associated cells

Project description:The PTS system is a central regulatory cascade in bacteria. Here, Vibrio cholerae PTS role was investagated during biofilm formation Analysis used wild type MO10 cells as control samples for comparison to the delta PTS strain. Strains were grown as planktonic (sample 1) or surface attached cells (sample 2). Experiment was done in triplicate with dye swap, which represent 6 independent microarray hybridizations.

2012-12-10 | E-GEOD-42674 | biostudies-arrayexpress

Vibrio vulnificus : biofilm cells vs. planktonic cells

Project description:The profiles of transcripts from the planktonic cells and biofilm cells of V. vulnificus were compared by using a V. vulnificus whole-genome microarray Two-condition experiment, planktonic cells vs. biofilm cells. Biological replicates: 3 control, 3 experimental, independently grown and harvested. One replicate per array. For transcriptome analysis, the V. vulnificus whole genome TwinChip, manufactured and kindly provided by the 21C Frontier Microbial Genomics and Applications Center (Daejeon, South Korea), was used.

2014-07-26 | E-GEOD-59753 | biostudies-arrayexpress

Outer membrane vesicles and the outer membrane protein OmpU govern Vibrio cholerae biofilm matrix assembly

Project description:Biofilms are matrix-encased microbial communities that increase the environmental fitness and infectivity of many human pathogens including Vibrio cholerae. Biofilm matrix assembly is essential for biofilm formation and function. Known components of the V. cholerae biofilm matrix are the polysaccharide VPS, matrix proteins RbmA, RbmC, Bap1, and extracellular DNA, but the majority of the protein composition is uncharacterized. This study comprehensively analyzed the biofilm matrix proteome and revealed the presence of outer membrane proteins (OMPs). Outer membrane vesicles (OMVs) were also present in the V. cholerae biofilm matrix and were associated with OMPs and many biofilm matrix proteins suggesting that they participate in biofilm matrix assembly. Consistent with this, OMVs had the capability to alter biofilm structural properties depending on their composition. OmpU was the most prevalent OMP in the matrix, and its absence altered biofilm architecture by increasing VPS production. Using single-cell force spectroscopy, we further showed that OmpU, the matrix proteins RbmA, RbmC, and Bap1, and VPS contribute to cell-surface adhesion forces, which are critical for biofilm formation. Our findings provide new insights into the molecular mechanisms underlying biofilm matrix assembly in V. cholerae, which may open up new opportunities to develop inhibitors that specifically alter biofilm matrix properties and, thus, affect either the environmental survival or pathogenesis of Vibrio cholerae.

2023-07-14 | MSV000092446 | MassIVE

Effects of nitrate on Vibrio cholerae transcription (RNASeq)

Project description:Within this study, we aimed to investigate how enviornmental nitrate effects the transcription of the Vibrio cholerae genome. Here we performed RNASeq using static cultures of WT, dCrp, dHapR, & dhapR/Crp.

2025-01-03 | GSE272711 | GEO

Comparison between V. cholerae MO10 delta PTS mutant and wild type strain grown as planktonic or surface-associated cells

Project description:The PTS system is a central regulatory cascade in bacteria. Here, Vibrio cholerae PTS role was investagated during biofilm formation

2012-12-10 | GSE42674 | GEO

RNAseq analysis of Vibrio cholerae A1552 WT and ∆rvvA (∆VCA0257)

Project description:RNA-sequencing of Vibrio cholerae A1552 wild-type and ∆VCA0257 (∆rvvA) strains grown under virulence-inducing conditions (AKI).

2023-05-12 | GSE230781 | 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