2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21058368
SRA accession
spire_mag_00883554
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
collection date
94.29
%
completeness score
checkm2 0.1.3
completeness software
2.16
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic runs ERR688515,ERR688368 of study ERP008729.
description
stool
environmental medium
Austria
geographic location (country and/or sea)
47.80151
DD
geographic location (latitude)
13.04292
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
Colorectal cancer, a commonly diagnosed cancer in the elderly, often develops slowly from benign polyps called adenoma. The gut microbiota, with its critical roles in nutrient metabolism and immune modulation, is believed to be directly involved in colorectal carcinogenesis. The identity and functional capacity of the adenoma- or carcinoma-related gut microbe(s), however, have not been surveyed in a comprehensive manner. Here we perform metagenomewide association study (MGWAS) on stools from healthy controls, advanced adenoma and carcinoma patients, revealing gene markers from over 100 bacterial strains enriched in each group.
project name
SAMEA3136751
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2000
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00883554
title