Metagenome-assembled genome: ERR589371_bin.96_CONC... - BioSample

Metagenome-assembled genome: ERR589371_bin.96_CONCOCT_v1.1_MAG

Identifiers: BioSample: SAMEA14084560; SRA: ERS11687693

Organism: Eikenella corrodens
cellular organisms; Bacteria; Pseudomonadati; Pseudomonadota; Betaproteobacteria; Neisseriales; Neisseriaceae; Eikenella

Attributes

collection date	2094-01-01
broad-scale environmental context	Host-associated
local-scale environmental context	Human
environmental medium	Digestive system
geographic location	China
investigation type	metagenome-assembled genome
isolation source	human gut metagenome
project name	Bacterial 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 name	ERR589371_bin.96_CONCOCT_v1.1_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-01-03
ENA-LAST-UPDATE	2023-01-03
External Id	SAMEA14084560
INSDC center alias	EBI
INSDC center name	European Bioinformatics Institute
INSDC first public	2023-01-03T00:33:10Z
INSDC last update	2023-01-03T00:33:10Z
INSDC status	public
Submitter Id	ERR589371_bin.96_CONCOCT_v1.1_MAG
assembly quality	Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software	spadesv3.11.1
binning parameters	Default
binning software	CONCOCT v1.1
broker name	EMG broker account, EMBL-EBI
completeness score	90.71
completeness software	CheckM
contamination score	4.36
geographic location (latitude)	55.676098
geographic location (longitude)	12.568337
metagenomic source	human gut metagenome
sample derived from	SAMEA2737903
scientific_name	Eikenella corrodens
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 ERR589371 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:: SAMEA14084560
ID:: 32561188

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Metagenome-assembled genome: ERR589371_bin.96_CONCOCT_v1.1_MAG

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