Metagenome-assembled genome: SRR1952507_bin.20_CON... - BioSample

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Metagenome-assembled genome: SRR1952507_bin.20_CONCOCT_v1.1_MAG

Identifiers: BioSample: SAMEA14075711; SRA: ERS11678939

Organism: uncultured Bacteroidia bacterium
cellular organisms; Bacteria; FCB group; Bacteroidota/Chlorobiota group; Bacteroidota; Bacteroidia; environmental samples

Attributes

collection date	not provided
broad-scale environmental context	Mixed
local-scale environmental context	Mixed
environmental medium	Mixed
geographic location	not provided
investigation type	metagenome-assembled genome
isolation source	metagenome
project name	The samples within this Bioproject represent the third phase (Phase III) of metagenomic sequencing (whole genome shotgun (WGS) sequencing) of microbial communities from specimens collected as a part of the NIH-supported Human Microbiome Project (HMP Consortium A framework for human microbiome research. Nature. 2012 Jun 13;486(7402):215-21. doi: 10.1038/nature11209). The sample collection represents a unique reference resource of microbiome samples from healthy adults largely residing in the USA at the time of sample collection. In the HMP Phase III component the goal has been to supplement previous WGS sequencing by generating additional sequence from as many of the specimens in the HMP collection as possible that had not been sequenced in the previous HMP Phase I and Phase II sequencing. In Phase III, a focus was placed on six of the 18 body sites: Stool (gut), Buccal mucosa (oral), Supragingival plaque (oral), Tongue dorsum (oral), Anterior nares (nasal), Posterior fornix (vaginal) and the goal was to further capture as many of the longitudinal samples (second and third visits by the same individual) as possible. From genomic DNA extracted from the collected specimens, WGS sequence was produced from libraries constructed from using a NexteraXT library construction protocol. All libraries were sequenced using a 100bp paired end approach using the Illumina HiSeq 2000 platform.
sample name	SRR1952507_bin.20_CONCOCT_v1.1_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-01-03
ENA-LAST-UPDATE	2023-01-03
External Id	SAMEA14075711
INSDC center alias	EBI
INSDC center name	European Bioinformatics Institute
INSDC first public	2023-01-03T00:32:46Z
INSDC last update	2023-01-03T00:32:46Z
INSDC status	public
Submitter Id	SRR1952507_bin.20_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	92.83
completeness software	CheckM
contamination score	1.75
geographic location (latitude)	not provided
geographic location (longitude)	not provided
metagenomic source	metagenome
sample derived from	SAMN03351700
scientific_name	uncultured Bacteroidia 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 SRR1952507 of study SRP056641.