2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21057703
SRA accession
spire_mag_00684489
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
2014-06-05
collection date
87.95
%
completeness score
checkm2 0.1.3
completeness software
0.26
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic runs SRR4783555,SRR4783559,SRR4783554,SRR4783557,SRR4783653,SRR4783560,SRR4783591,SRR4783558,SRR4783556,SRR4783552,SRR4783553 of study SRP091570.
description
stool
environmental medium
USA
geographic location (country and/or sea)
39.28846263
DD
geographic location (latitude)
-76.62594594
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
This project takes advantage of challenge studies with an important human pathogen, enterotoxigenic Escherichia coli, the etiological agent of severe diarrhea in the developed countries and traveler’s diarrhea in individuals from developed countries. The goal of this study is to understand the dynamic interactions between the host, pathogen and microbiota and how these interactions play a role in determining the pathogen population in the host, the development of an immune response, and the diversity and ecology of the microbiota. The project uses a combination of genomic, transcriptomic and metagenomic technologies together with human challenge studies to generate new insights into the interaction of host, pathogen, and microbiota.
project name
SAMN05545089
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2500
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00684489
title