ENA-FIRST-PUBLIC
2022-09-09
ENA-LAST-UPDATE
2022-09-09
External Id
SAMEA111342760
INSDC center alias
EMG
INSDC center name
EMG
INSDC first public
2022-09-09T12:18:05Z
INSDC last update
2022-09-09T12:18:05Z
INSDC status
public
Submitter Id
SRR17254982_bin.5_metawrap_v1.3.0_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes v3.15.3
binning parameters
MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.
binning software
metawrap v1.3.0
broad-scale environmental context
plant
broker name
EMG broker account, EMBL-EBI
collection date
2019-04-20
completeness score
51.11
completeness software
CheckM
contamination score
2.14
environmental medium
rhizosphere
geographic location (country and/or sea)
Netherlands
geographic location (latitude)
51.98
geographic location (longitude)
5.67
investigation type
metagenome-assembled genome
isolation_source
rhizosphere metagenome
local environmental context
tomato
metagenomic source
rhizosphere metagenome
project name
Here, taxonomic and (meta)genomic features of the rhizosphere microbiome were mapped as quantitative traits of a tomato recombinant inbred line population. This is the metagenomic part of the project (the first part (amplicon sequences) is stored under the BioProject PRJNA787039).
sample derived from
SAMN24114791
sample name
SRR17254982_bin.5_metawrap_v1.3.0_MAG
sequencing method
Illumina HiSeq 4000
taxonomic classification
The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Candidatus Wolfebacteria;c__;o__;f__;g__;s__
taxonomic identity marker
multi-marker approach