| broad-scale environmental context | plant |
|---|
| collection date | 2019-04-20 |
|---|
| environmental medium | rhizosphere |
|---|
| geographic location | Netherlands |
|---|
| investigation type | metagenome-assembled genome |
|---|
| isolation 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 name | SRR17254981_bin.4_metawrap_v1.3.0_MAG |
|---|
| ENA-CHECKLIST | ERC000047 |
|---|
| ENA-FIRST-PUBLIC | 2022-09-09 |
|---|
| ENA-LAST-UPDATE | 2022-09-09 |
|---|
| External Id | SAMEA111342747 |
|---|
| 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 | SRR17254981_bin.4_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 |
|---|
| broker name | EMG broker account, EMBL-EBI |
|---|
| completeness score | 93.2 |
|---|
| completeness software | CheckM |
|---|
| contamination score | 1.25 |
|---|
| geographic location (latitude) | 51.98 |
|---|
| geographic location (longitude) | 5.67 |
|---|
| local environmental context | tomato |
|---|
| metagenomic source | rhizosphere metagenome |
|---|
| sample derived from | SAMN24114792 |
|---|
| 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__Actinobacteria;c__Actinobacteria;o__Micrococcales;f__Cellulomonadaceae;g__Actinotalea;s__ |
|---|
| taxonomic identity marker | multi-marker approach |
|---|