2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21057790
SRA accession
spire_mag_00703695
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
2014/2015
collection date
86.5
%
completeness score
checkm2 0.1.3
completeness software
5.4
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run ERR2722733 of study ERP110223.
description
stool
environmental medium
Germany
geographic location (country and/or sea)
48.53690000
DD
geographic location (latitude)
9.05360000
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
Two patient cohorts received either cotrimoxazole (ID 1 - Id 29) or ciprofloxacin (ID 504 - ID 538). Stool samples were collected at baseline before treatment (t0), one day (t1) and three days (t2) after treatment start and at the end of treatment (mx. day 7, t3). Samples were subjected to shotgun metagenomics on a HiSeq machine, using a paired-end approach with 2 x 150 bp and a 550 bp insert size.
project name
SAMEA4814112
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2500
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00703695
title