Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Experimental manipulation of fish host microbiomes

PROVIDER: PRJNA673155 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12936200_1.fastq.gz	Fastqsanger.gz
	SRR12936200_2.fastq.gz	Fastqsanger.gz
	SRR12936300_1.fastq.gz	Fastqsanger.gz
	SRR12936300_2.fastq.gz	Fastqsanger.gz
	SRR12936201_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 470

Similar Datasets

Project description:Parasite microbiomes and host manipulation

| PRJNA1070336 | ENA

Interactions of erythromycin and an antibiotic-mixture to the gut microbiome of juvenile rainbow trout

Project description:Erythromycin (ERY) is a commonly used antibiotic that can be found in wastewater effluents globally. Due to the mechanisms by which they kill and prevent bacterial growth, antibiotics can have significant unwanted impacts on the fish gut microbiome. The overall objective of this project was to assess the effects of erythromycin and an antibiotic mixture on fish gut microbiomes. The project was split into two experiments to assess gut microbiome in response to exposure with ERY alone or in mixture with other common antibiotics. The objectives of experiment 1 were to understand uptake and depuration of ERY in juvenile rainbow trout (RBT) over a 7 d uptake followed by a 7 d depuration period using three concentrations of ERY. Furthermore, throughout the study changes in gut microbiome response were assessed. In experiment 2, a follow-up study was conducted using an identical experimental design to assess the impacts of an antibiotic-mixture (ERY, ampicillin, metronidazole, and ciprofloxacin at 100 µg/g each). Here, three matrices were analyzed, with gut collected for 16s metabarcoding, plasma for untargeted metabolomics, and brain for mRNA-seq analysis. ERY was depurated from the fish relatively quickly and gut microbiome dysbiosis was observed at 7 d after exposure, with a slight recovery after the 7 d depuration period. A greater number of plasma metabolites was dysregulated at 14 d compared to 7 d revealing temporality compared to gut microbiome dysbiosis. Furthermore, several transformation products of antibiotics and biomarker metabolites were observed in plasma due to antibiotic exposure. Brain transcriptome revealed only slight alterations due to antibiotic exposure. The results of these studies will help inform aquaculture practitioners and risk assessors when assessing the potential impacts of antibiotics in fish feed and the environment, with implications for host health.

2024-02-07 | GSE253746 | GEO

Project description:Manipulation of citrus microbiomes with native endophytes

| PRJNA891542 | ENA

Project description:Host Associated Microbiomes

| PRJNA1218274 | ENA

Project description:Krill host-associated microbiomes

| PRJNA703415 | ENA

Microbiome Reciprocal Transfer Experiment 2023 - Investigating the effect on the host of `mismatched` microbiomes

Project description:Full reciprocal transfer of microbiomes between nine host strains of phytoplankton and microbe-free controls (Kuijpers et al unpublished). Microbiomes were naturally recruited from lake and stream water in an assembly experiment (Broe et al unpublished). Transferred microbiomes were added to axenic hosts and grown for 7 or 14 days before control or heat shock treatment.

| MSV000095905 | MassIVE

Bacterial nucleoside catabolism controls quorum sensing and commensal-to-pathogen transition in the Drosophila gut

Project description:Although gut microbiomes are generally symbiotic or commensal, some of microbiomes become pathogenic under certain circumstances, which is one of key processes of pathogenesis. However, the factors involved in these complex gut-microbe interactions are largely unknown. Here we show that bacterial nucleoside catabolism using gut luminal uridine is required to boost inter-bacterial communications and gut pathogenesis in Drosophila. We found that uridine-derived uracil is required for DUOX-dependent ROS generation on the host side, whereas uridine-derived ribose induces quorum sensing and virulence gene expression on the bacterial side. Importantly, genetic ablation of bacterial nucleoside catabolism is sufficient to block the commensal-to-pathogen transition in vivo. Furthermore, we found that major commensal bacteria lack functional nucleoside catabolism, which is required to achieve gut-microbe symbiosis. The discovery of a novel role of bacterial nucleoside catabolism will greatly help to better understand the molecular mechanism of the commensal-to-pathogen transition in different contexts of host-microbe interactions.

2020-04-07 | GSE140194 | GEO

Effectiveness of Host Depletion Techniques for Accurate Profiling of Fish Skin Microbiomes and Metagenomic Analysis

Project description:Fish skin host depletion

| PRJEB82663 | ENA

Metaproteomics reveals age-specific alterations of gut microbiome in hamsters with SARS-CoV-2 infection

Project description:The gut microbiome's pivotal role in health and disease is well-established. SARS-CoV-2 infection often causes gastrointestinal symptoms and is associated with changes of the microbiome in both human and animal studies. While hamsters serve as important animal models for coronavirus research, there exists a notable void in the functional characterization of their microbiomes with metaproteomics. In this study, we present a workflow for analyzing the hamster gut microbiome, including a metagenomics-derived hamster gut microbial protein database and a data-independent acquisition metaproteomics method. Using this workflow, we identified 32419 protein groups from the fecal microbiomes of young and old hamsters infected with SARS-CoV-2. We showed age-specific changes in the expressions of microbiome functions and host proteins associated with microbiomes, providing further functional insight into the dysbiosis and aberrant cross-talks between the microbiome and host in SARS-CoV-2 infection. Altogether this study established and demonstrated the capability of metaproteomics for the study of hamster microbiomes.

2025-05-13 | PXD057158 | Pride

Ceratina calcarata

Project description:Ceratina calcarata brain gene expression under experimental nutritional manipulation

| PRJNA1175400 | ENA