2024-12-11
ENA first public
ERC000047
ENA-CHECKLIST
CMR
INSDC center name
public
INSDC status
ERS22430637
SRA accession
ERP118353_co1_20
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
metaSPAdes;3.15.4;default
assembly software
coverage and kmer
binning parameters
MetaBAT2;2.15;default
binning software
aquatic
broad-scale environmental context
2018-12-11
collection date
62.05
%
completeness score
CheckM2;1.0.2;default
completeness software
2.24
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs ERR3654040,ERR3654041 of study ERP118353.
description
aquatic
environmental medium
not provided
geographic location (country and/or sea)
not provided
DD
geographic location (latitude)
not provided
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
groundwater metagenome
isolation_source
groundwater biome
local environmental context
groundwater metagenome
metagenomic source
uncultured Ktedonobacterales bacterium
organism
Assembling microbial and phage genomes from metagenomes is a powerful and appealing method to understand structure-function relationships in complex environments that are dominated by uncultured and/or under-studied groups. This study aimed to investigate the impact of incorporating long-read data into the process of reconstructing metagenome-assembled genomes (MAGs) from a complex groundwater aquifer. We generated shotgun metagenomes with traditional Illumina sequencing accompanied by long reads derived from the Oxford Nanopore sequencing platform. This work provides quantitative data to inform a cost-benefit analysis on the decision to supplement shotgun metagenomic projects with long reads towards the goal of recovering genomes from environmentally abundant groups. Groundwater was collected from the Hainich Critical Zone Exploratory, a near-surface aquifer transect that is established in NW Thuringia, Germany. This data set is part of the DFG-funded CRC AquaDiva (https://www.aquadiva.uni-jena.de/) of the Friedrich Schiller University Jena.
project name
SAMEA6167471,SAMEA6167472
sample derived from
uncultured Ktedonobacterales bacterium
scientific_name
Illumina MiSeq
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: ERP118353_co1_20
title