broad-scale environmental context | Human digestive system |
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collection date | not provided |
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environmental medium | faeces |
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geographic location | not provided |
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investigation type | metagenome-assembled genome |
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isolation source | human feces metagenome |
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project name | INSPIRE is a study of duodenal mucosal resurfacing, through intestinal ablation, to investigate its potential for treatment of type 2 diabetes mellitus. In this study, the microbiome before and after intestinal ablation was studied in combination with a range of clinical markers. |
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sample name | ERR9354025_bin.6_MetaWRAP_v1.3_MAG |
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ENA-CHECKLIST | ERC000047 |
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ENA-FIRST-PUBLIC | 2023-07-13T16:22:49Z |
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ENA-LAST-UPDATE | 2023-07-13T16:22:49Z |
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External Id | SAMEA114061154 |
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INSDC center alias | EMG |
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INSDC center name | EMG |
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INSDC first public | 2023-07-13T16:22:49Z |
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INSDC last update | 2023-07-13T16:22:49Z |
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INSDC status | public |
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Submitter Id | ERR9354025_bin.6_MetaWRAP_v1.3_MAG |
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assembly quality | Many fragments with little to no review of assembly other than reporting of standard assembly statistics |
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assembly software | metaspades v3.15.3 |
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binning parameters | MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. |
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binning software | MetaWRAP v1.3 |
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broker name | EMG broker account, EMBL-EBI |
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completeness score | 98.86 |
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completeness software | CheckM |
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contamination score | 0.16 |
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geographic location (latitude) | not provided |
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geographic location (longitude) | not provided |
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local environmental context | colon |
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metagenomic source | human feces metagenome |
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sample derived from | SAMEA13060069 |
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scientific_name | uncultured Alistipes sp. |
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sequencing method | unspecified |
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taxonomic classification | The taxonomy of this Metagenome-Assembled Genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ |
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taxonomic identity marker | multi-marker approach |
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