2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21057432
SRA accession
spire_mag_00515691
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
missing: third party data
collection date
97.29
%
completeness score
checkm2 0.1.3
completeness software
1.2
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run ERR3229940 of study ERP104743.
description
not specified
environmental medium
not provided
geographic location (country and/or sea)
missing: third party data
DD
geographic location (latitude)
missing: third party data
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
Clostridium difficile is the leading cause of healthcare-associated infectious diarrhoea. C. difficile infection (CDI) is mainly associated with the disruption in gut microbiota caused by excessive use of antibiotics. To understand the dynamics of gut microbes during and after CDI, we collected human faecal samples from symptomatic patients of a single hospital and compared the microbiota compostion of symptomatic patients with the microbiota composition of different controls.
project name
SAMEA104565284
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2500
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00515691
title