Metagenome-assembled genome: ERR537010_bin.5_CONCO... - BioSample

Metagenome-assembled genome: ERR537010_bin.5_CONCOCT_v1.1_MAG

Identifiers: BioSample: SAMEA14084509; SRA: ERS11687642

Organism: Prevotella bivia
cellular organisms; Bacteria; FCB group; Bacteroidota/Chlorobiota group; Bacteroidota; Bacteroidia; Bacteroidales; Prevotellaceae; Prevotella

Attributes

collection date	2011-08-29
broad-scale environmental context	Host-associated
local-scale environmental context	Human
environmental medium	Digestive system
geographic location	Netherlands
investigation type	metagenome-assembled genome
isolation source	human gut metagenome
project name	Safety of oral iron administration in African children has been questioned as it is associated with an increased burden of infectious disease. However, it remains unclear to which extent oral iron administration affects the intestinal microbiome. Therefore, we here investigated the impact of multiple iron preparations and doses on the growth and metabolism of a human gut microbiota in a well-controlled in vitro model of the large intestine. Microbiome analysis showed clear iron-induced changes and prominent shifts included a decrease of Bifidobacteriaceae and Lactobacillaceae under iron-rich conditions, paralleled by an increase of Roseburia and Prevotella. Metagenomic analyses showed a general enrichment of bacterial motility-chemotaxis systems under iron-rich conditions. Metabolome profiling showed that gut microbial activity markedly shifted from a saccharolytic to a proteolytic profile in response to iron. Levels of branched chain fatty acids and ammonia increased significantly, in particular under ferrous sulfate-rich conditions. Importantly, cell viability tests showed increased cytotoxicity of metabolite-containing effluent from iron-rich conditions. We also identified microbial metabolites with siderophoric activity that were specifically produced under low-iron conditions. Our data indicate that in the absence of host influences, iron induces a more hostile intestinal environment characterized by i) reduction of beneficial microbes and increase of certain bacterial species with pathogenic potential, ii) increased levels of bacterial metabolites that can impair the barrier function of the gut wall, and iii) increase of virulence-associated pathways of enteric pathogens. It can be envisaged that these in vitro phenomena also contribute to an increased risk for enteric infections in vivo.
sample name	ERR537010_bin.5_CONCOCT_v1.1_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-01-03
ENA-LAST-UPDATE	2023-01-03
External Id	SAMEA14084509
INSDC center alias	EBI
INSDC center name	European Bioinformatics Institute
INSDC first public	2023-01-03T00:33:31Z
INSDC last update	2023-01-03T00:33:31Z
INSDC status	public
Submitter Id	ERR537010_bin.5_CONCOCT_v1.1_MAG
assembly quality	Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software	SPAdes genome assembler v3.11.1
binning parameters	Default
binning software	CONCOCT v1.1
broker name	EMG broker account, EMBL-EBI
completeness score	90.42
completeness software	CheckM
contamination score	0.61
geographic location (latitude)	52.090588
geographic location (longitude)	5.2332315
metagenomic source	human gut metagenome
sample derived from	SAMEA2602897
scientific_name	Prevotella bivia
sequencing method	Illumina HiSeq 2500
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR537010 of study ERP006091.

BioProject: PRJEB51075 Large-scale analysis of novel cellular microbes from the human gut biome
Retrieve all samples from this project

Submission: EBI; 2023-01-04

Accession:: SAMEA14084509
ID:: 32561137

BioProject Nucleotide

BioSample

National Center for Biotechnology Information

Result Filters

Send to:

Metagenome-assembled genome: ERR537010_bin.5_CONCOCT_v1.1_MAG

Supplemental Content

Related information

Recent activity