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Metagenome-assembled genome: ERR414397_bin.76_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14084371; SRA: ERS11687504
Organism
uncultured Collinsella sp.
cellular organisms; Bacteria; Bacillati; Actinomycetota; Coriobacteriia; Coriobacteriales; Coriobacteriaceae; Collinsella; environmental samples
Attributes
collection date2008-01-01
broad-scale environmental contextHost-associated
local-scale environmental contextHuman
environmental mediumDigestive system
geographic locationSpain
investigation typemetagenome-assembled genome
isolation sourcehuman gut metagenome
project nameThe 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reference gene catalog consisting 9,879,896 genes, using 6.4 TB sequencing data derived from 1267 published and unpublished human gut metagenomes from three continents.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 nameERR414397_bin.76_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14084371
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:33:36Z
INSDC last update2023-01-03T00:33:36Z
INSDC statuspublic
Submitter IdERR414397_bin.76_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwarespades_v3.11.1
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score97.06
completeness softwareCheckM
contamination score1.21
geographic location (latitude)40.416634
geographic location (longitude)-3.7037659
metagenomic sourcehuman gut metagenome
sample derived fromSAMEA2338776
scientific_nameuncultured Collinsella sp.
sequencing methodIllumina HiSeq 2000
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR414397 of study ERP004605.

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:
SAMEA14084371
ID:
32560999

BioProject Nucleotide

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