2024-09-20
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21064330
SRA accession
spire_mag_02410713
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
2011-02-01
collection date
57.75
%
completeness score
checkm2 0.1.3
completeness software
0.62
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run DRR070899 of study DRP007710.
description
stool
environmental medium
Thailand
geographic location (country and/or sea)
13.70000000
DD
geographic location (latitude)
100.50000000
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
Recent development in intestinal microbiology has revealed crucial functions of gut microbiota as interface between diet and health and the question has arisen how diet modulates gut microbial community. In this context, Asia is an interesting association of cohorts with their own food habit unique to each country or region. To investigate the correlation among diet, health, and gut microbiota, Asian Microbiome Project (AMP) has been established with ten countries and Phase I study was already performed by focusing on children gut microbiota, which were expected to more depend on regional food compared to adult. Their microbiota has been analyzed based on 16S rRNA gene sequencing. As a result, we have found two distinctive enterotypes, Bifidobacterium/Bacteroides (BB) enterotype and Prevotella (P) enterotype in these Asian population, as well as local differences unique to each country or region. BB-enterotype was enriched in temperate countries, such as Japan and China, while P-enterotype was frequent in tropical countries. In conjunction with dietary survey, it is suspected that these difference may be a reflection of their dietary habit. To correlate the function of their gut microbial community with diet input, we performed shotgun metagenomic sequencing of those microbial community and gained overview on consortium of functional genes, e.g., network of anabolic and catabolic pathway enriched in each food-oriented enterotype or biosynthesis of beneficial or non-benefical compounds, such as vitamins or secondary bile acids.
project name
SAMD00046781
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina HiSeq 2500
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_02410713
title