2024-09-19
ENA first public
ERC000050
ENA-CHECKLIST
EMBL Heidelberg
INSDC center name
public
INSDC status
ERS21056403
SRA accession
spire_mag_00330924
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
2013-04
collection date
93.89
%
completeness score
checkm2 0.1.3
completeness software
0.12
%
contamination score
This sample represents a Third Party Annotation (TPA) binned metagenome assembled from the metagenomic run SRR1930255 of study SRP056480.
description
stool
environmental medium
Italy
geographic location (country and/or sea)
44.49505370
DD
geographic location (latitude)
11.34274010
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
By human microbiome sequencing we can better understand how host evolutionary and ontogenetic history is reflected in the microbial function. However, there has been no information on the gut metagenome configuration in hunter-gatherer populations, posing a gap in our knowledge of gut microbiota (GM)-host mutualism arising from a lifestyle that describes over 90% of human evolutionary history. Here, we present the first metagenomic analysis of GM from Hadza hunter-gatherers of Tanzania, showing a unique enrichment in metabolic pathways that align with the dietary and environmental factors characteristic of their foraging lifestyle. We found that the Hadza GM is adapted for broad spectrum carbohydrate metabolism, reflecting the complex polysaccharides in their diet. Furthermore, the Hadza GM is equipped for branched-chain amino acid degradation and aromatic amino acid biosynthesis. Resistome functionality demonstrates the existence of antibiotic resistance genes in a population with little to no antibiotic exposure, indicating the ubiquitous presence of environmentally derived resistances. Our results demonstrate how the functional specificity of the GM correlates with environment and lifestyle, and how complexity from the exogenous environment is matched by endogenous homeostasis. The Hadza gut metagenome structure allows to appreciate the co-adaptive functional role of the GM in complementing the human physiology, providing a better understanding of the versatility of human life and subsistence.
project name
SAMN03418284
sample derived from
Phocaeicola vulgatus
scientific_name
Illumina Genome Analyzer IIx
sequencing method
multi-marker approach
taxonomic identity marker
binned metagenome: spire_mag_00330924
title