Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Secondary metabolite shapes Streptomyces-Streptomyces interaction: Mass Spectrometry Imaging reveals lydicamycins broadly induce sporulation

PROVIDER: PRJNA1123431 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR29384400_1.fastq.gz	Fastqsanger.gz
	SRR29384400_2.fastq.gz	Fastqsanger.gz
	SRR29384401_1.fastq.gz	Fastqsanger.gz
	SRR29384401_2.fastq.gz	Fastqsanger.gz
	SRR29384402_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 64

Similar Datasets

Arginine-derived polyketides are ubiquitous signals shaping cross-kingdom microbial interactions

Project description:To investigate the effect of bldA deletion on gene expression in Streptomyces iranensis with respect to secondary metabolite cluster genes

2022-08-01 | GSE201630 | GEO

The immediate effect of high-intensity green LED stimulation on the gene expression profile of S. coelicolor A3(2)

Project description:We investigated a novel, simple approach to induce the production of cryptic secondary metabolites in actinomycetes by stimulating the organism with high-intensity monochromatic green light (180 radiation unit). Streptomyces coelicolor A3(2) produces blue antibiotic actinorhodin (ACT) and red antibiotic undecylprodigiosin (RED). Using these two pigment antibiotics as indicators, we found that sporulation acceleration and regulation of the antibiotic production pathways can be induced by using high-intensity monochromatic green LEDs. Therefore, we investigated the immediate response of S. coelicolor A3(2) gene expression to the strong green LED stimulation.

2023-12-10 | E-MTAB-12876 | biostudies-arrayexpress

Homo sapiens

Project description:Nucleolin-aptamer therapy in retinoblastoma: molecular changes and mass spectrometry–based imaging

| PRJNA353380 | ENA

A Transcript and Metabolite Atlas of Blackcurrant Fruit Development Highlights Hormonal Regulation and Reveals the Role of Key Transcription Factors

Project description:Blackcurrant fruit collected at six stages of development were assessed for changes in gene expression using custom whole transcriptome microarrays and for variation in metabolite content using a combination of liquid chromatography-mass spectrometry and gas chromatography-mass spectrometry. Principal components analysis demonstrated that fruit development could be clearly defined according to their transcript or metabolite profiles. During early developmental stages, metabolite profiles were dominated by amino acids and tannins, whilst transcript profiles were enriched in functions associated with cell division, anatomical structure morphogenesis and cell wall metabolism. During mid fruit development, fatty acids accumulated and transcript profiles were consistent with seed and embryo development. At the later stages, sugars and anthocyanins accumulated consistent with transcript profiles that were associated with secondary metabolism. Transcript data also indicated active signalling during later stages of fruit development. A targeted analysis of signalling networks revealed a dynamic activation and repression of almost 60 different transcripts encoding transcription factors across the course of fruit development, many of which have been demonstrated as pivotal to controlling such processes in other species. Transcripts associated with cytokinin and gibberellin were highly abundant at early fruit development, whilst those associated with ABA and ethylene tended to be more abundant at later stages. The data presented here provides an insight into fruit development in blackcurrant and provides a foundation for further work in the elucidation of the genetic basis of fruit quality.

2018-10-01 | E-MTAB-6973 | biostudies-arrayexpress

Investigation of the Molecular Action of Actinorhodin

Project description:Actinorhodin is a blue-pigmented, redox-active pigmented secondary metabolite that is produced by the bacterium Streptomyces coelicolor. Although actinorhodin has been used as a model compound for studying secondary metabolism, its mechanism is not well understood. In this work, we have conducted a comprehensive chemical genetic investigation of actinorhodin’s antibacterial effect on target organisms.

2017-09-21 | GSE97007 | GEO

Project description:secondary metabolite

| PRJNA936075 | ENA

The compact genome in the clavulanic acid producing Streptomyces strain unravels a variety of horizontal transfer reservoirs

Project description:Bacterial genomic plasticity and instability carry multiple functional genetic information in Streptomyces secondary metabolism. Our previously publication has reported an effective industrial Streptomyces strain, with a unique phenotype of the high clavulanic acid yield. The complete genome of strain F163-1 harboring a 136.9-kb giant region of plasticity (RGP) was sequenced. The chromosome and plasmid are densely packed by an exceptionally huge variety of potential secondary metabolic gene clusters, excluding production of putative antibiotics. Intriguingly, architecture and size differences of plasmid pSCL4 between F613-1 and ATCC 27064 suggest the pSCL4 plasmid evolving from pSCL4-like and pSCL2-like extrachromosomal replicons, in addition to the previously proposed ATCC 27064 mega-plasmid formation hypothesis through recombination between the smaller F613-1 pSCL4 plasmid arm regions and the linear chromosome. Comparative genomics systemically investigate secondary metabolism capacitates in this study indicates that frequent exchange of genetic materials between Streptomyces replicons may shape remarkable diversities of secondary metabolite repertoires. Consequently, the F613-1 strain seems to have evolved its specific genomic architectures and genetic patterns to meet the requirement in subsequent industrial processes.

2017-10-10 | GSE104738 | GEO

Exposure to a bacterial metabolite induces specific transcriptional signature of DAF-16 regulated genes, xanthine oxidase, and Phase I detoxification enzymes in C. elegans

Project description:RNA-seq analysis of the effect of a secondary metabolite produced by Streptomyces venezuelae that enhanced oxidative stress, mitochondrial dysfunction, and neurodegeneration in Caenorhabditis elegans. Nearly all DEGs had previous evidence of an association with DAF-16 (FOXO). DEGs were also enriched for Phase I (CYP) and Phase II (UGT) detoxification genes. DEGs representing several non-CYP Phase I enzymes were identified, including down-regulation of xdh-1. XDH-1 is interconvertible with XO and S. ven metabolite exposure enhanced XO activity.

2023-05-03 | GSE217300 | GEO

Proteomics survey of Streptomyces coelicolor strains with natural gross chromosome change

Project description:Streptomyces coelicolor normally produce spores with a relatively high heterogeneity, which will produce genetically heterogeneous sub-populations. These sub-populations often exert massive chromosome amplifications and deletions. Cells with gross chromosomal changes produce an increased diversity of secondary metabolites and secrete significantly more antibiotics; however, these changes come at the cost of dramatically reduced individual fitness, providing direct evidence for a trade-off between secondary metabolite production and fitness. We propose that antibiotic production in colonies of the multicellular bacterium Streptomyces coelicolor is coordinated by a division of labour. This proteomics survey will provide more detailed insights into how these chromosomal changed strains behave under normal growth condition.

2020-05-26 | PXD014413 | Pride

S. coelicolor M145 SMM medium time course study (Culture # 3)

Project description:Antibiotic biosynthesis in Streptomyces species is controlled by a complex genetic and biochemical network of global and pathway specific regulators. Details of their precise interactions in mediating temporal and spatial expression of secondary metabolite genes remain poorly defined. In this study, we employed whole-genome microarrays to investigate the temporal transcriptome profiles of S. coelicolor A3(2) wild type and regulatory mutants.

2012-12-19 | GSE22397 | 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