| broad-scale environmental context | mouse digestive system |
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| collection date | 2020-10-05 |
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| environmental medium | feces |
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| geographic location | China |
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| investigation type | metagenome-assembled genome |
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| isolation source | mouse gut metagenome |
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| project name | Nutritional iron deficiency is a health problem faced by many developing countries. Now there are many schemes about the iron supplement, among them, the research about adjusting iron homeostasis by probiotics is worthy of attention. We decided to use metagenomics to reveal the effect of a low-iron diet on the structure and function of mice gut microbes, combined immune technology to investigate the inflammation of mice, as well as found the effect of Lactobacillus casei Zhang intervention on mice under the background of a low-iron diet. The results of the study showed that the LCZ can regulate the structure and function of the gut microbiota, demonstrates higher bacterial diversity, and up-regulates the metabolic pathways of B vitamins, in addition to the above effects, the LCZ group shows significantly lower levels of IL-18 pro-inflammatory factors compared to the low-iron diet froup. Our study demonstrated that LCZ has potential probiotic effects on the disorder of gut microbiota structure and function caused by a low-iron diet. |
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| sample name | SRR14836539_bin.25_metawrap_v1.3_MAG |
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| ENA-CHECKLIST | ERC000047 |
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| ENA-FIRST-PUBLIC | 2022-11-18 |
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| ENA-LAST-UPDATE | 2022-11-18 |
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| External Id | SAMEA112144016 |
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| INSDC center alias | EMG |
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| INSDC center name | EMG |
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| INSDC first public | 2022-11-18T00:22:39Z |
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| INSDC last update | 2022-11-18T00:22:39Z |
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| INSDC status | public |
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| Submitter Id | SRR14836539_bin.25_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 | not provided |
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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 | 100 |
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| completeness software | CheckM |
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| contamination score | 0.0 |
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| geographic location (latitude) | 39.26 |
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| geographic location (longitude) | 115.25 |
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| local environmental context | digestive tube |
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| metagenomic source | mouse gut metagenome |
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| sample derived from | SAMN19733859 |
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| sequencing method | Illumina HiSeq 4000 |
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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__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Erysipelatoclostridium;s__ |
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| taxonomic identity marker | multi-marker approach |
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