2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21056322
SRA accession
spire_mag_00285346
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
megahit 1.2.9
assembly software
default
binning parameters
metabat 2.12.1
binning software
human digestive system
broad-scale environmental context
EBI-EMG
broker name
2013-12-05
collection date
94.19
%
completeness score
checkm2 0.1.3
completeness software
0.62
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run SRR5813266 of study SRP108695.
description
stool
environmental medium
USA
geographic location (country and/or sea)
37.44000000
DD
geographic location (latitude)
-122.14000000
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
human gut metagenome
isolation_source
human gut
local environmental context
human gut metagenome
metagenomic source
Phocaeicola vulgatus
organism
Eight healthy human adults provided about 40 stool samples each (range 37-128 samples/subject) at daily or weekly intervals over about 22 weeks (range 20-55 weeks) surrounding a 1-day induced iso-osmotic diarrhea (colon cleanout) perturbation. The cleanout was identical to a common bowel preparation procedure prior to colonoscopy, involving the consumption of up to 4L of a polyethylene glycol-electrolyte solution until diarrhea was clear and watery. DNA was extracted from stool samples and investigated with V4 16S amplicon sequencing and with shotgun metagenomic sequencing (both sequencing modes using the Illumina HiSeq platform).
project name
SAMN07336874
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 4000
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00285346
title