U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Metagenome-assembled genome: ERR209808_bin.33_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14083925; SRA: ERS11687058
Organism
uncultured Parvimonas sp.
cellular organisms; Bacteria; Terrabacteria group; Bacillota; Tissierellia; Tissierellales; Peptoniphilaceae; Parvimonas; 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 microbial diversity of environments like the human gut extends far beyond what is covered by reference genomes. Here we present a method for exhaustive and unsupervised co-abundance gene binning across a series of highly complex metagenomic samples. As the method does not rely on previously sequenced reference genomes it allows for discovery of new species, viruses and clonal heterogeneity. We demonstrate the method on human gut microbiome data and identify 7,381 co-abundance gene groups (CAGs) ranging in size from 3 to 6,319 genes. The CAGs represent a wide variety of biological entities including microbial genomes, phages and clonal differences. We name the 741 largest of these metagenomic species (MGS), because they correspond to microbial species. In addition, we establish microbial host affiliations by dependency-associations for many small CAGs. Longitudinal sampling in the same individuals indicates that some of these dependency-associations are important for the persistence of their microbial host
sample nameERR209808_bin.33_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14083925
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:33:14Z
INSDC last update2023-01-03T00:33:14Z
INSDC statuspublic
Submitter IdERR209808_bin.33_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaspadesv3.11.1
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score98.48
completeness softwareCheckM
contamination score1.95
geographic location (latitude)40.416634
geographic location (longitude)-3.7037659
metagenomic sourcehuman gut metagenome
sample derived fromSAMEA2042509
scientific_nameuncultured Parvimonas sp.
sequencing methodIllumina Genome Analyzer IIx
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR209808 of study ERP002061.

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:
SAMEA14083925
ID:
32560553

BioProject Nucleotide

Supplemental Content

Related information

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
You are here: NCBI > DNA & RNA > BioSample
Support Center