2024-09-20
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21072924
SRA accession
spire_mag_02653915
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
2012-11
collection date
58.48
%
completeness score
checkm2 0.1.3
completeness software
0.01
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run SRR13557704 of study SRP302794.
description
swab
environmental medium
USA
geographic location (country and/or sea)
36.16000000
DD
geographic location (latitude)
-86.78000000
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
human gut metagenome
isolation_source
human gut
local environmental context
human gut metagenome
metagenomic source
Bacteroides uniformis
organism
In this study, we collected matched stool, rectal swab and mucosal tissue samples from 240 study participants at two time points, which resulted in 1,397 shotgun metagenomes. We estimated the biospecimen type variation of both metagenome taxonomy and functional pathways. We also assessed whether the associations between taxa/pathways and age, sex, body mass index (BMI), non-steroidal anti-inflammatory drugs (NSAIDs) use and antibiotics use were consistent across the different sample types.
project name
SAMN17578111
sample derived from
Bacteroides uniformis
scientific_name
Illumina HiSeq 4000
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_02653915
title