Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Sphingomonas ginsenosidivorax strain:KHI67

ABSTRACT: Sphingomonas ginsenosidivorax strain:KHI67 Genome sequencing and assembly

PROVIDER: PRJNA558433 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Expression analysis of motile strain of Sphingomonas sp. A1

Project description:Investigation of whole genome gene expression level in motile strain of Sphingomonas. sp A1 All flagellar genes in motile strain of Sphingomonas. sp A1 are highly transcribed.

2014-11-01 | GSE62901 | GEO

Expression analysis of motile strain of Sphingomonas sp. A1

Project description:Investigation of whole genome gene expression level in motile strain of Sphingomonas. sp A1 All flagellar genes in motile strain of Sphingomonas. sp A1 are highly transcribed. A two chip study using total RNA recovered from wild-type and motile strains of Sphingomonas. sp A1 grown in 0.5% alginate medium.

2014-11-01 | E-GEOD-62901 | biostudies-arrayexpress

Functional role and interactions of a recalcitrant to cultivation Sphingomonas degrading the persistent thiabendazole in the context of a microbial enrichment

Project description:Thiabendazole (TBZ), a benzimidazole used against postharvest fungal growth and as anthelmintic in livestock farming, is highly persistent in soil (DT50> 1-2 years) and therefore challenging concerning its environmental management. In our recent copious attempts to isolate organisms that degrade TBZ, at best, we ended up with a soil microbial enrichment capable of accelerated TBZ degradation. Here, we employed a multi-omic approach combined with DNA stable isotope probing (SIP) for elucidating the underlying system complexity. We obtained 18 high-quality metagenome-assembled genomes, with six being dominant and versatile concerning their putative xenobiotics degradation ability. SIP combined with microbiome analysis verified our previous results about the key role of a Sphingomonas strain in TBZ degradation. Next to this, metabolomics suggested minimal/no cross-feeding events, and Sphingomonas being the sole TBZ degrader. RNA sequencing and proteomics analysis of the consortium using TBZ or succinate as sole carbon sources showed the enhanced expression in Sphingomonas of a carbazole dioxygenase locus with putative role in the TBZ degradation. Gene expression networking analysis suggested the interaction of Sphingomonas with a Hydrogenophaga strain that possibly contributes to the overall cobalamin balance. Our study depicts the need for integrated omic approaches for understanding complex interactions frequently occurring in bioremediation.

2019-07-20 | GSE134575 | GEO

Organic Nitrogen Source is Critical for Welan Production in Sphingomonas sp. ATCC 31555

Project description:Welan gum is mainly produced by Sphingomonas sp. ATCC 31555 and has broad applications in industry such as that in cement production. Both carbon and nitrogen sources are essential for welan production. However, how nitrogen sources affect the metabolism and gene transcription of welan remains elusive. Here, we used next-generation sequencing RNA-seq to analyze the transcriptome of Sphingomonas sp. ATCC 31555 in the presence of inorganic or organic nitrogen sources. Enriched gene expression and pathway analysis suggest that organic nitrogen sources significantly enhanced the expression of genes in central metabolic pathways of Sphingomonas sp. ATCC 31555 and those critical for welan synthesis compared to that observed using inorganic nitrogen sources. The present study improves our understanding of the molecular mechanism underlying the use of nitrogen in welan synthesis in Sphingomonas sp., as well as provides an important transcriptome resource for Sphingomonas sp. in relation to nitrogen sources.

2016-03-25 | GSE79497 | GEO

Sphingomonas anseongensis strain:RG327

Project description:Sphingomonas anseongensis strain:RG327 Genome sequencing and assembly

| PRJNA794877 | ENA

Sphingomonas hankyongi strain:SE220

Project description:Sphingomonas hankyongi strain:SE220 Genome sequencing and assembly

| PRJNA794883 | ENA

Sphingomonas telluris strain:SM33

Project description:Sphingomonas telluris strain:SM33 Genome sequencing and assembly

| PRJNA794282 | ENA

Sphingomonas melonis strain:30a

Project description:Sphingomonas melonis strain:30a Genome sequencing and assembly

| PRJNA272576 | ENA

Sphingomonas beigongshangi strain:REN5

Project description:Sphingomonas beigongshangi strain:REN5 Genome sequencing and assembly

| PRJNA672818 | ENA

Sphingomonas turrisvirgatae strain:MCT13

Project description:Sphingomonas turrisvirgatae strain:MCT13 Genome sequencing and assembly

| PRJNA338394 | ENA

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