Metagenome-assembled genome: DRR089564_bin.1_metawrap_v1.3.0_MAG
ENA-FIRST-PUBLIC
2022-08-15
ENA-LAST-UPDATE
2022-08-15
External Id
SAMEA110651383
INSDC center alias
EMG
INSDC center name
EMG
INSDC first public
2022-08-15T16:14:15Z
INSDC last update
2022-08-15T16:14:15Z
INSDC status
public
Submitter Id
DRR089564_bin.1_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
2015-03-30
completeness score
99.63
completeness software
CheckM
contamination score
0.3
environmental medium
rhizosphere
geographic location (country and/or sea)
Japan
geographic location (latitude)
38.25
geographic location (longitude)
140.87
investigation type
metagenome-assembled genome
isolation_source
rhizosphere metagenome
local environmental context
soybeen
metagenomic source
rhizosphere metagenome
project name
Recently, high-throughput sequencing technology is rapidly improving in quality, speed and cost. It is, therefore, becoming more widely used to study on whole bacterial communities. Rhizobial inoculation was often unsuccessful in legume fields, because soil native strains highly competed with the introduced inoculants. Conventional methods to monitor the behavior of inoculants are likely impractical and time-consuming in agricultural fields. Thus, We analyzed metagenome of the bacterial community associated with root nodules of soybean (Glycine max [L.] Merr., var. Tachinagaha) in order to descriminate the inoculant population from soil native population of soybean bradyrhizobia in an agricultural soil by mapping metagenome reads to the representative soybean bradyrhizobial genomes.
sample derived from
SAMD00076775
sample name
DRR089564_bin.1_metawrap_v1.3.0_MAG
sequencing method
Illumina MiSeq
taxonomic classification
The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Bradyrhizobiaceae;g__Bradyrhizobium;s__Bradyrhizobium diazoefficiens
taxonomic identity marker
multi-marker approach