Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 1000

Two-Species interaction through pH stabilisation

ABSTRACT: Here we apply a metabolomics to study the interaction of two co-isolated model organisms, Xanthomonas retroflexus and Paenibacillus amylolyticus. When cultured in close proximity on agar plates Xanthomonas retroflexus induces a clear morphological response from Paenibacillus amylolyticus, leading to enhanced growth of Paenibacillus amylolyticus. Application of 2D spatial metabolomics shows how Xanthomonas retroflexus influences the chemical environment by production specific metabolites.

INSTRUMENT(S): microTOF LC

ORGANISM(S): Xanthomonas Retroflexus Paenibacillus Amylolyticus

SUBMITTER: Jakob Herschend

PROVIDER: MSV000082481 | MassIVE | Tue Jun 19 12:56:00 BST 2018

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Similar Datasets

GNPS - Two-Species interaction through pH stabilisation

Project description:Here we apply metabolomics to study the interaction of two co-isolated model organisms, Xanthomonas retroflexus and Paenibacillus amylolyticus. When cultured in close proximity on agar plates Xanthomonas retroflexus induces a clear morphological response from Paenibacillus amylolyticus, leading to enhanced growth of Paenibacillus amylolyticus. Application of 2D spatial metabolomics shows how Xanthomonas retroflexus influences the chemical environment by production specific metabolites.

2018-06-19 | MSV000082481 | GNPS

The effects of gul1 deletion on the transcriptome of Trichoderma reesei

Project description:The morphology of filamentous fungi has a close relationship with the production of many products (e.g. industrial enzymes). In this study, we deleted gul1, which encodes a putative RNA-binding protein, in cellulolytic fungus Trichoderma reesei. The mutant showed different morphologies both on agar plates and in liquid cultures compared with its parent. RNA-seq study showed that the expression levels of genes in many biological processes were affected by gul1 deletion.

2020-03-19 | GSE147192 | GEO

14028 time course on swarming plates

Project description:Salmonella 14028 time course on swarming agar (0.6%) plates mRNA from 3 h time point on swarming plates used as reference for all the time course arrays Keywords: other

2004-09-02 | GSE1625 | GEO

14028 time course on non-swarming plates

Project description:Salmonella strain 14028, time course, on non-swarming agar plates (1.5%), array were done between reference mRNA (from swarmer cells at 3 hour) and mRNA from various time points on non-swarming plates. Keywords: other

2004-09-02 | GSE1631 | GEO

Transcription of photosynthetic genes in AAP5 during growth on solid and liquid media

Project description:Comparison of cells grown for 4 and 8 days on agar plates with cells from liquid cultures after reaching their maximum optical density.

2020-06-01 | GSE147049 | GEO

Transcription profiles of che and flgM mutants of Typhimurium 14028 at 3h on agar plates

Project description:Transcription profiles of Typhimurium 14028 wt versus 14028 cheA, cheB, cheZ, flgM and flgM/cheY mutants at 3h on agar plates Keywords: other

2005-08-23 | GSE2341 | GEO

Expression profile of Arabidopsis thaliana seedlings subjected to hypoxia

Project description:Arabidopsis thaliana (Col-0) seedlings were grown on vertically oriented agar plates and subjected to hypoxia (0.2% oxygen, 99.8% nitrogen) for 30 to 240 minutes.

2014-08-07 | GSE60133 | GEO

Proteomic analysis of Flavobacterium johnsoniae

Project description:The soil bacterium Flavobacterium johnsoniae was grown on agar plates with or without pectin,bacteria were harvested, lysed, and subjected to LC-MS/MS analysis

2021-04-12 | PXD023649 | Pride

Large-scale differences in gene expression, including genes encoding type IV pili-associated proteins, are seen when Clostridium perfringens is grown in liquid or on surfaces

Project description:Clostridium perfringens is a Gram-positive anaerobic pathogen that causes multiple diseases in humans and animals. C. perfringens lack flagella but have type IV pili (TFP) and can glide on agar surfaces by forming filaments of cells aligned end to end. When cells are placed on agar surfaces, they become elongated, flexible and have TFP on their surface. To understand the basis of these phenotypes, cells were grown in three types of liquid media and on agar plates with the same medium to compare gene expression using RNA-seq. Hundreds of genes were differentially expressed, including genes associated with TFP functions, which were higher on plates than in liquid. The gusA gene, encoding the enzyme β-glucuronidase, was inserted into the chromosome downstream of TFP promoters and expression measured in liquid and on plates. β-glucuronidase activity was proportional to the amount of transcripts seen with RNA-seq n liquid-grown cells, but not plate-grown cells, suggesting post-transcriptional regulation of these genes on surfaces. An sRNA adjacent to pilA1 (SR79) was expressed at higher levels on plates in all media; overexpression of this sRNA resulted in longer cells on plates and shorter lag times in liquid suggesting SR79 plays a role in adapting to surface growth.

2018-06-30 | GSE99224 | GEO

Tissue-engineered bone tumor as a reproducible human in vitro model for studies of anti-cancer drugs

Project description:We investigated changes in bone and Ewing’s Sarcoma transcriptomes among control and treated cells grown in 2D plates, or within engineered bone scaffolds.

2020-01-15 | GSE135323 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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