Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Long-term energy limitation metagenomic sequencing

PROVIDER: PRJNA561216 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10009300_1.fastq.gz	Fastqsanger.gz
	SRR10009300_2.fastq.gz	Fastqsanger.gz
	SRR10009301_1.fastq.gz	Fastqsanger.gz
	SRR10009301_2.fastq.gz	Fastqsanger.gz
	SRR10009302_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 162

Similar Datasets

Analysis of gut microbiota by pyrosequencing of 16S rRNA gene in F344 rats

Project description:Chronic acid suppression by proton pump inhibitor (PPI) has been hypothesized to alter the gut microbiota via a change in intestinal pH. To evaluate the changes in gut microbiota composition by long-term PPI treatment. Twenty-four week old F344 rats were fed with (n = 5) or without (n = 6) lansoprazole (PPI) for 50 weeks. Then, profiles of luminal microbiota in the terminal ileum were analyzed. Pyrosequencing for 16S rRNA gene was performed by genome sequencer FLX (454 Life Sciences/Roche) and analyzed by metagenomic bioinformatics.

2015-04-14 | E-GEOD-67800 | biostudies-arrayexpress

Single cell RNA sequencing for normal and lymphangiogenesis-inhibiting vascular allografts

Project description:Transplant arteriosclerosis is a major limitation to long-term survival of patients with solid organ transplantation. Although lymphatic vessels have been recently reported to possess organ-specific features in allograft transplantation, the relationship between lymphangiogensis and transplant arteriosclerosis remains unknown.

2024-04-12 | GSE211731 | GEO

Project description:Long-term incubations with sediments from a methanogenic lake - metagenomic sequencing

| PRJNA826318 | ENA

Gut microbiome drives individual memory variation in bumblebees

Project description:The potential of the gut microbiome as a driver of individual cognitive differences in natural populations of animals remains unexplored. Here, using metagenomic sequencing of individual bumblebee hindguts, we find a positive correlation between the abundance of Lactobacillus Firm-5 cluster and memory retention on a visual discrimination task. Supplementation with the Firm-5 species Lactobacillus apis (L. apis), but not other non-Firm-5 bacterial species, enhances bees’ memory. Untargeted metabolomics after L. apis supplementation show increased LPA (14:0) glycerophospholipid in the haemolymph. Oral administration of the LPA increases long-term memory significantly. Based on our findings and metagenomic/metabolomic analyses, we propose a molecular pathway for this gut-brain interaction. Our results provide insights into proximate and ultimate causes of cognitive differences in natural bumblebee populations.

2021-11-16 | MTBLS3637 | MetaboLights

Expression data from shoots of Arabidopsis grown under sulfur limitation.

Project description:Sulfate in one essential nutrient for plants and its limitation is known to have a significant impact on plant growth and yield. In this study we performed global transcriptome analyses to investigate the responses to long term sulfate deficiency at the shoot level. The shoot global transcriptomic responses to sulfur deprivation.

2017-08-16 | GSE93048 | GEO

ERRγ links adaptive neuronal metabolism to spatial learning and memory [ChIP-Seq]

Project description:Neurons utilize glucose to generate adenosine triphosphate (ATP) essential for their survival, excitability and synaptic signaling, as well as initiating changes in neuronal structure and function. Defects in oxidative metabolism and mitochondria functions are also associated with aging and diverse human neurological diseases1-4. While neurons are known to adapt their metabolism to meet the increased energy demands of complex behaviors such as learning and memory, the molecular underpinnings regulating this process remain poorly understood4-6. Here we show that the orphan nuclear receptor estrogen related receptor gamma (ERRγ) becomes highly expressed during retinoic-acid induced neurogenesis and is widely expressed in neuronal nuclei throughout the brain. Mechanistically, we show that ERRγ directly orchestrates the expression of networks of genes involved in mitochondrial oxidative phosphorylation and energy generation in neurons. The importance of this regulation is evidenced by decreased adaptive metabolic capacity in cultured neurons lacking ERRγ, and reduced long-term potentiation (LTP) in ERRγ-/- hippocampal slices. Notably, the defect in LTP was rescued by the metabolic intermediate pyruvate, functionally linking the ERRγ knockout metabolic phenotype and memory formation. Consistent with this notion, mice lacking neuronal ERRγ exhibit defects in spatial learning and memory. These findings implicate ERRγ in the metabolic adaptations required for long-term memory formation. We used ChIP-Seq analysis to determine the genome-wide binding of ERRγ in neurons derived from ES cells.

2015-09-03 | E-GEOD-47134 | biostudies-arrayexpress

LoRTIS: A long read method for analysis of large transposon mutant libraries

Project description:Transposon insertion site sequencing (TIS) is a powerful method for associating genotype to phenotype. However, all TIS methods described to date use short nucleotide sequence reads which cannot uniquely determine the locations of transposon insertions within repeating genomic sequences where the repeat units are longer than the sequence read length. To overcome this limitation, we have developed a TIS method using Oxford Nanopore sequencing technology that generates and uses long nucleotide sequence reads; we have called this method LoRTIS (Long Read Transposon Insertion-site Sequencing). This experiment data contains sequence files generated using Nanopore and Illumina platforms. Biotin1308.fastq.gz and Biotin2508.fastq.gz are fastq files generated from nanopore technology. Rep1-Tn.fastq.gz and Rep1-Tn.fastq.gz are fastq files generated using Illumina platform. In this study, we have compared the efficiency of two methods in identification of transposon insertion sites.

2022-05-30 | E-MTAB-11351 | biostudies-arrayexpress

Project description:Long term phosphorus limitation changes the bacterial community structure and functioning in paddy soils

| PRJNA478487 | ENA

Thyroid deficiency before birth modifies adipose transcriptome to promote overgrowth of white adipose tissue and impair thermogenic capacity

Project description:This study investigates the development of adipose tissue before birth which is crucial for energy storage and thermogenesis in the neonatal period, and for long term metabolic health. The design uses the thyroid deficiency sheep fetus examined at two different gestational ages.

2020-03-31 | E-MTAB-8396 | biostudies-arrayexpress

Proteome and phosphoproteome analysis in chronically MTOR-deficient clones

Project description:Shotgun-proteomics and phosphoproteomics analysis of clonal pancreatic tumor cell lines upon long-term ablation of the energy master kinase regualator mTOR

2022-05-20 | PXD027779 | 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