Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

UyRhoBalt

ABSTRACT: Rhodomonas baltica, genomic and transcriptomic data

PROVIDER: PRJEB55799 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR10168737.fastq.gz	Fastqsanger.gz
	ERR10177754_1.fastq.gz	Fastqsanger.gz
	ERR10177754_2.fastq.gz	Fastqsanger.gz
	ERR10177755_1.fastq.gz	Fastqsanger.gz
	ERR10177755_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 5

Similar Datasets

uyRhoBalt

Project description:Rhodomonas baltica

| PRJEB55800 | ENA

Comparative genomic hybridization of Shewanella baltica strains

Project description:CGH of 46 Shewanella baltica strains using customized oligonucleotide microarrays

2019-03-31 | GSE123978 | GEO

Systematic analysis of lysine acetylome reveals potential functions of lysine acetylation in Shewanellabaltica, the specific spoilage organism of aquatic products

Project description:Protein lysine acetylation is a major post-translational modification and plays a critical regulatory role in almost every aspect in both eukaryotes and prokaryotes, yet there have been no data on Shewanellabaltica, which is one of the specific spoilage organism (SSO) of aquatic products.Here, we performed the first global acetylproteome analysis of S. baltica. 2929 lysine acetylation sites were identified in 1103 proteins, accounting for 26.1% of the total proteins which participate in a wide variety of biological processes, especially in the constituent of ribosome, the biosynthesis of aminoacyl-tRNA, the amino acids and fatty acid metabolism. Besides, 14 conserved acetylation motifs were detected in S. baltica. Notably, various directly or indirectly spoilage-related proteins were prevalently acetylated, including enzymesinvolved in the unsaturated fatty acids biosynthesis closely related to the cold adaptability,coldshock proteins,pivotal enzymesinvolved in the putrescinebiosynthesis,and a LuxR-type protein in quorum sensing system. The acetylome analysis in Shewanella can supplement the database and provide new insight into uncovering the spoilagemechanisms of S. baltica. The provided dataset illuminates the potential role of reversible acetylation in S. baltica, and serves as an important resource for exploring the physiological role of lysine acetylation in prokaryotes.

2019-07-22 | PXD013895 | Pride

Response of Rhodopirellula baltica to cold shock

Project description:Expression profiling of the stress response of the marine Planctomycete Rhodopirellula baltica after a temperature up-shift. R. baltica cultures were grown at 28°C and then shifted to 6°C. Samples were taken after 10, 20, 40, 60 and 300min and compared with cultures before the up-shift (28°C).

2009-09-09 | GSE13856 | GEO

Response of Rhodopirellula baltica to salt shift

Project description:Expression profiling of the stress response of the marine Planctomycete Rhodopirellula baltica after a salinity up-shift. R. baltica cultures were grown at 28°C in mineral media with 17.5% salinity and up-shifted to 59.9%. Samples were taken after 10, 20, 40, 60 and 300min and compared with cultures before the up-shift.

2009-09-09 | GSE14075 | GEO

Response of Rhodopirellula baltica to heat shock

Project description:Expression profiling of the stress response of the marine Planctomycete Rhodopirellula baltica after a temperature up-shift. R. baltica cultures were grown at 28°C and then shifted to 37°C. Samples were taken after 10, 20, 40, 60 and 300min and compared with cultures before the up-shift (28°C). Time series experiment, whole genome array

2009-09-09 | GSE13769 | GEO

Rhodomonas salina

Project description:Rhodomonas salina overview

| PRJNA73267 | ENA

Comparative genomic hybridization of Shewanella baltica strains

Project description:Comparative genomic hybridization of Shewanella baltica strains

| PRJNA510414 | ENA

tfGorAlbo

Project description:Gordius_albopunctatus, genomic and transcriptomic data

| PRJEB78907 | ENA

Tropheryma whipplei proteome - Analyses of new genomic, transcriptomic or proteomic data commonly result in trashing many unidentified data escaping the ‘canonical’ DNA-RNA-protein scheme

Project description:Analyses of new genomic, transcriptomic or proteomic data commonly result in trashing many unidentified data escaping the ‘canonical’ DNA-RNA-protein scheme. Testing systematic exchanges of nucleotides over long stretches produces inversed RNA pieces (here named “swinger” RNA) differing from their template DNA. These may explain some trashed data. Here analyses of genomic, transcriptomic and proteomic data of the pathogenic Tropheryma whipplei according to canonical genomic, transcriptomic and translational 'rules' resulted in trashing 58.9% of DNA, 37.7% RNA and about 85% of mass spectra (corresponding to peptides). In the trash, we found numerous DNA/RNA fragments compatible with “swinger” polymerization. Genomic sequences covered by «swinger» DNA and RNA are 3X more frequent than expected by chance and explained 12.4 and 20.8% of the rejected DNA and RNA sequences, respectively. As for peptides, several match with “swinger” RNAs, including some chimera, translated from both regular, and «swinger» transcripts, notably for ribosomal RNAs. Congruence of DNA, RNA and peptides resulting from the same swinging process suggest that systematic nucleotide exchanges increase coding potential, and may add to evolutionary diversification of bacterial populations.

2017-12-18 | PXD006238 | Pride

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