Metagenome-assembled genome: ERR1094789_bin.40_CONCOCT_v1.1_MAG
uncultured Pseudomonas sp.
This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR1094789 of study ERP012908.
ENA-FIRST-PUBLIC
2023-01-03
ENA-LAST-UPDATE
2023-01-03
External Id
SAMEA14083320
INSDC center alias
EBI
INSDC center name
European Bioinformatics Institute
INSDC first public
2023-01-03T00:33:32Z
INSDC last update
2023-01-03T00:33:32Z
INSDC status
public
Submitter Id
ERR1094789_bin.40_CONCOCT_v1.1_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes v3.13.0
binning parameters
Default
binning software
CONCOCT v1.1
broker name
EMG broker account, EMBL-EBI
collection date
not provided
completeness score
69.65
completeness software
CheckM
contamination score
0.0
environment (biome)
Host-associated
environment (feature)
Human
environment (material)
Digestive system
geographic location (country and/or sea)
not provided
geographic location (latitude)
not provided
geographic location (longitude)
not provided
investigation type
metagenome-assembled genome
isolation_source
human gut metagenome
metagenomic source
human gut metagenome
project name
The stomach bacterium Helicobacter pylori is one of the most prevalent human pathogens. It has dispersed globally with its host for the past 100,000 years leading in a distinct phylogeographic pattern in modern H. pylori populations. This phylogeography is used to deduce both recent and ancient human migrations (1, 2). Owing to the complex demographic history of Europe, different hypotheses about the origin of the extant European H. pylori population (hpEurope) exist (3, 4). Here, we present a 5,300-year-old high-coverage H. pylori genome from a European Copper Age glacier mummy. Comparative sequence analysis with contemporary H. pylori classifies the “Iceman” Helicobacter as a cagA positive vacA s1a/i1/m1 type strain, most closely resembling a strain that today is commonly found in Central and South Asia and that substantially shaped the genomes of modern European H. pylori strains.
sample derived from
SAMEA3635128
sample name
ERR1094789_bin.40_CONCOCT_v1.1_MAG
scientific_name
uncultured Pseudomonas sp.
sequencing method
Illumina HiSeq 2000
taxonomic identity marker
multi-marker approach