Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Diet based Minimal Microbiome

ABSTRACT: Rationally designed and assembled a Diet based Minimal Microbiome (Db-MM) consisting of ten core gut bacteria that convert dietary fiber to short-chain fatty acids.

PROVIDER: PRJEB36253 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3950490_1.fastq.gz	Fastqsanger.gz
	ERR3950490_2.fastq.gz	Fastqsanger.gz
	ERR3950500_1.fastq.gz	Fastqsanger.gz
	ERR3950500_2.fastq.gz	Fastqsanger.gz
	ERR3950510_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 54

Similar Datasets

Project description:Rationally designed miCas9 mediates gene editing

| PRJNA615686 | ENA

dbdbLiraglutide - Effects of insulin and the glucagon-like peptide 1 receptor agonist liraglutide on the kidney proteome in db/db mice

Project description:db/db mouse kidney given liraglutide or insulin compared to db/db vehicle and healthy vehicle, 12 weeks dosing, all included db/db mice over 16 mM blood glucose level.

2017-03-29 | PXD002988 | Pride

Oryza sativa Japonica Group cultivar:ZhongHua11

Project description:Rationally-designed APOBEC3B cytosine base editors with improved specificity

| PRJNA602608 | ENA

A Quantitative Method for Proteome Reallocation Using Minimal Regulatory Interventions

Project description:Engineering resource allocation in biological systems is an ongoing challenge. Organisms allocate resources for ensuring survival, reducing the productivity of synthetic biology functions. Here we present a novel approach for engineering the resource allocation of Escherichia coli by rationally modifying its transcriptional regulatory network. Our method (ReProMin) identifies the minimal set of genetic interventions that maximises the savings in cell resources. To this end, we categorized Transcription Factors according to the essentiality of its targets and we used proteomic data to rank them. We designed the combinatorial removal of TFs that maximise the release of resources. Our resulting strain containing only three mutations, theoretically releasing 0.5% of its proteome, had higher proteome budget, increased production of an engineered metabolic pathway and showed that the regulatory interventions are highly specific. This approach shows that combining proteomic and regulatory data is an effective way of optimizing strains using conventional molecular methods.

2019-11-30 | GSE134335 | GEO

A rationally designed JAZ subtype-selective agonist of jasmonate perception

Project description:A rationally designed JAZ subtype-selective agonist of jasmonate perception

| PRJNA434702 | ENA

Minimal vs LB media comparison

Project description:The type of bacterial culture medium is an important consideration during design of any experimental protocol. The aim of this study was to understand the impact of medium choice on bacterial gene expression and physiology by comparing the transcriptome of Salmonella enterica SL1344 after growth in the widely used LB broth or the rationally designed MOPS minimal medium. Transcriptomics showed that after growth in MOPS minimal media, compared to LB, there was increased expression of 42 genes involved in amino acid synthesis and 23 genes coding for ABC transporters. Seven flagellar genes had decreased expression after growth in MOPS minimal medium and this correlated with a decreased motility. In both MOPS minimal medium and MEM expression of genes from SPI-2 was increased and the adhesion of S. Typhimurium to intestinal epithelial cells was higher compared to the levels after growth in LB. However, SL1344 invasion was not significantly altered by growth in either MOPs minimal media or MEM. Expression of SPI-2 was also measured using chromosomal GFP reporter fusions followed by flow cytometry which showed, for the first time, that the reduction in SPI-2 transcript after growth in different media related to a reduction in the proportion of the bacterial population expressing SPI-2. These data highlight the profound differences in the global transcriptome after in vitro growth in different media and show that choice of medium should be considered carefully during experimental design, particularly when virulence related phenotypes are being measured.

2014-07-31 | E-MTAB-1135 | biostudies-arrayexpress

Hierarchical Helical Carbon Nanotube Fibre as a Bone Integrating ACL Replacement

Project description:Hierarchically assembled helical fiber integrates effectively with bones

2023-03-17 | PXD032128 |

Deletion of glycerol channel aquaporin-9 (Aqp9) impairs long-term blood glucose control in C57BL/6 leptin receptor-deficient (db/db) obese mice

Project description:Deletion of the glycerol channel aquaporin-9 (Aqp9) reduces postprandial blood glucose levels in leptin receptor deficient (db/db) obese mice on a C57BL/6×C57BLKS mixed genetic background. Furthermore, shRNA mediated reduction of Aqp9 expression reduces liver triacylglycerol (TAG) accumulation in a diet induced rat model of obesity. The aim of this study was to investigate metabolic effects of Aqp9 deletion in coisogenic db/db mice of the C57BL/6 background. Aqp9wt db/db and Aqp9-/- db/db mice did not differ in body weight and liver TAG contents. On the C57BL/6 genetic background we observed elevated plasma glucose in Aqp9-/- db/db mice (+ 1.1 mM, life-time average) while plasma insulin concentration was reduced at time of death. Glucose levels changed similarly in pentobarbital anesthetized, glucagon challenged Aqp9wt db/db and Aqp9-/- db/db mice. Liver transcriptional profiling did not detect differential gene expression between genotypes. Metabolite profiling revealed a sex independent increase in plasma glycerol (+55%), glucose (+24%) and reduction in threonate (all at q<0.1) in Aqp9-/- db/db mice compared to controls. Metabolite profiling thus confirms a role of AQP9 in glycerol metabolism of obese C57BL/6 db/db mice. In this animal model of obesity Aqp9 gene deletion elevates plasma glucose and does not alleviate hepatosteatosis.

2015-09-28 | MTBLS219 | MetaboLights

Rationally designed, self-assembly, multifunctional hydrogel depot repairs severe spinal cord injury

Project description:Rationally designed, self-assembly, multifunctional hydrogel depot repairs severe spinal cord injury

| PRJNA695250 | ENA

Homo sapiens

Project description:Therapeutic targeting of GCB- and ABC-DLBCLs by rationally designed BCL6 inhibitors

| PRJNA317329 | ENA