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Metagenome-assembled genome: SRR769527_bin.44_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14086049; SRA: ERS11689180
Organism
uncultured Alistipes sp.
cellular organisms; Bacteria; Pseudomonadati; FCB group; Bacteroidota/Chlorobiota group; Bacteroidota; Bacteroidia; Bacteroidales; Rikenellaceae; Alistipes; environmental samples
Attributes
collection datenot provided
broad-scale environmental contextHost-associated
local-scale environmental contextHuman
environmental mediumDigestive system
geographic locationUSA
investigation typemetagenome-assembled genome
isolation sourcehuman gut metagenome
project nameAssociating the biomolecular and metabolic activities of human-associated microbial communities with environment, diet, and conditions such as inflammatory bowel disease remains a significant challenge despite an ever-improving understanding of the human microbiome. This project aims to pilot detection of taxonomic and functional shifts with respect to diet and gastrointestinal disease status in a large prospective cohort: 1. We will establish a reliable and scalable collection method for the oral and gut microbiota. This will determine whether shippable collection kits are comparable to fresh frozen stool and/or saliva samples. 2. We will test the hypothesis that a Western dietary pattern correlates with microbiome community structures or functions enriched in inflammatory bowel disease in either the oral (saliva) or gut (stool) microbiota. By providing methodology to understand the human microbiome from the molecular to the population level, we hope to enable its future use as a diagnostic indicator and as a point of intervention to improve outcomes in IBD and other chronic diseases.
sample nameSRR769527_bin.44_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14086049
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:33:24Z
INSDC last update2023-01-03T00:33:24Z
INSDC statuspublic
Submitter IdSRR769527_bin.44_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaSPAdes version 3.10.139
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score97.86
completeness softwareCheckM
contamination score1.24
geographic location (latitude)not provided
geographic location (longitude)not provided
metagenomic sourcehuman gut metagenome
sample derived fromSAMN01915225
scientific_nameuncultured Alistipes 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 SRR769527 of study SRP019038.

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:
SAMEA14086049
ID:
32562675

BioProject Nucleotide

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