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Metagenome-assembled genome: ERR1094796_bin.29_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14083322; SRA: ERS11686456
Organism
Clostridium novyi
cellular organisms; Bacteria; Terrabacteria group; Bacillota; Clostridia; Eubacteriales; Clostridiaceae; Clostridium
Attributes
collection datenot provided
broad-scale environmental contextHost-associated
local-scale environmental contextHuman
environmental mediumDigestive system
geographic locationnot provided
investigation typemetagenome-assembled genome
isolation sourcehuman gut metagenome
project nameThe 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 nameERR1094796_bin.29_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14083322
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:33:35Z
INSDC last update2023-01-03T00:33:35Z
INSDC statuspublic
Submitter IdERR1094796_bin.29_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaSPAdes v3.13.0
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score66.07
completeness softwareCheckM
contamination score3.04
geographic location (latitude)not provided
geographic location (longitude)not provided
metagenomic sourcehuman gut metagenome
sample derived fromSAMEA3635135
scientific_nameClostridium novyi
sequencing methodIllumina HiSeq 2500
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR1094796 of study ERP012908.

BioProject
PRJEB51075 Large-scale analysis of novel cellular microbes from the human gut biome
Retrieve all samples from this project

Submission
EBI; 2023-01-04
Accession:
SAMEA14083322
ID:
32559938

BioProject Nucleotide

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