U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Metagenome-assembled genome: ERR589597_bin.42_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14084763; SRA: ERS11687895
Organism
uncultured Atopobium sp.
cellular organisms; Bacteria; Bacillati; Actinomycetota; Coriobacteriia; Coriobacteriales; Atopobiaceae; Atopobium; environmental samples
Attributes
collection date2128-01-01
broad-scale environmental contextHost-associated
local-scale environmental contextHuman
environmental mediumDigestive system
geographic locationChina
investigation typemetagenome-assembled genome
isolation sourcehuman gut metagenome
project nameBacterial infection has long been implicated with rheumatoid arthritis (RA), but a systematic analysis of the probiotic and pathogenic microbiome in RA has been lacking. It is not clear whether and how the gut or oral microbial community is compositionally and functionally altered in RA, and whether and how the microbiota at different body sites overlap. Here we perform whole-genome shotgun sequencing for fecal, dental and salivary samples from a large cohort of RA patients, analyze metagenomic linkage groups to construct an RA classifier.
sample nameERR589597_bin.42_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14084763
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:33:15Z
INSDC last update2023-01-03T00:33:15Z
INSDC statuspublic
Submitter IdERR589597_bin.42_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwarespadesv3.11.1
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score86.07
completeness softwareCheckM
contamination score6.58
geographic location (latitude)55.676098
geographic location (longitude)12.568337
metagenomic sourcehuman gut metagenome
sample derived fromSAMEA2737954
scientific_nameuncultured Atopobium 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 ERR589597 of study ERP006678.

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:
SAMEA14084763
ID:
32561390

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