Metagenome-assembled genome: ERR414279_bin.56_CONC... - BioSample

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Metagenome-assembled genome: ERR414279_bin.56_CONCOCT_v1.1_MAG

Identifiers: BioSample: SAMEA14084320; SRA: ERS11687453

Organism: uncultured Clostridia bacterium
cellular organisms; Bacteria; Bacillati; Bacillota; Clostridia; environmental samples

Attributes

collection date	2008-01-01
broad-scale environmental context	Host-associated
local-scale environmental context	Human
environmental medium	Digestive system
geographic location	Denmark
investigation type	metagenome-assembled genome
isolation source	human gut metagenome
project name	The gut microbiota is key to human health and disease. Metagenome-wide association studies (MGWAS) that search for disease markers in the gut microbiota, species identification according to metagenomic linkage groups (MLGs) or metagenomic clusters (MGCs), and metatranscriptomics or metaproteomics studies, all depend on a reference gene catalog, which has only been available for individual cohorts or based on reference genome or protein sequences. Here we report a high-quality integrated reference gene catalog consisting 9,879,896 genes, using 6.4 TB sequencing data derived from 1267 published and unpublished human gut metagenomes from three continents. The catalog represents a comprehensive collection of common and rare species, genes and genetic variants, and suggests individuality in the human gut microbiota. Analyses of a group of Chinese and Danish samples using the catalog revealed country-specific signatures in nutrient and xenobiotic metabolism. Our data suggest that interventions on nutrition, pollution and epidemiology should be tailored to the gut microbiota of a given population or even personalized for an individual.
sample name	ERR414279_bin.56_CONCOCT_v1.1_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-01-03
ENA-LAST-UPDATE	2023-01-03
External Id	SAMEA14084320
INSDC center alias	EBI
INSDC center name	European Bioinformatics Institute
INSDC first public	2023-01-03T00:33:09Z
INSDC last update	2023-01-03T00:33:09Z
INSDC status	public
Submitter Id	ERR414279_bin.56_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_v3.11.1
binning parameters	Default
binning software	CONCOCT v1.1
broker name	EMG broker account, EMBL-EBI
completeness score	87.56
completeness software	CheckM
contamination score	1.4
geographic location (latitude)	55.676098
geographic location (longitude)	12.568337
metagenomic source	human gut metagenome
sample derived from	SAMEA2338664
scientific_name	uncultured Clostridia bacterium
sequencing method	Illumina HiSeq 2000
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR414279 of study ERP004605.