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Metagenome-Assembled Genome: ERR9762675_bin.21_MetaWRAP_v1.3_MAG

Identifiers
BioSample: SAMEA114064094; SRA: ERS16047957
Organism
Eggerthella sinensis
cellular organisms; Bacteria; Bacillati; Actinomycetota; Coriobacteriia; Eggerthellales; Eggerthellaceae; Eggerthella
Attributes
broad-scale environmental contextHuman digestive system
collection date2019
environmental mediumfaeces
geographic locationSweden
investigation typemetagenome-assembled genome
isolation sourcehuman feces metagenome
project nameRecent studies have shown that probiotic supplementation has beneficial effects on bone metabolism. In a randomized controlled trial (RCT) we demonstrated that supplementation of Lactobacillus reuteri ATCC PTA 6475 reduced bone loss in older women with low bone mineral density. To investigate the mechanisms underlying the effect of L. reuteri ATCC PTA 6475 on bone metabolism, 20 women with the highest changes (good responders) and the lowest changes (poor responders) in tibia total volumetric BMD after one-year supplementation were selected from our previous RCT. In the current study we characterized the gut microbiome composition and function as well as serum metabolome in good responders and poor responders to the probiotic treatment as a secondary analysis.
sample nameERR9762675_bin.21_MetaWRAP_v1.3_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-07-13T20:35:04Z
ENA-LAST-UPDATE2023-07-13T20:35:04Z
External IdSAMEA114064094
INSDC center aliasEMG
INSDC center nameEMG
INSDC first public2023-07-13T20:35:04Z
INSDC last update2023-07-13T20:35:04Z
INSDC statuspublic
Submitter IdERR9762675_bin.21_MetaWRAP_v1.3_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaspades v3.15.3
binning parametersMaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.
binning softwareMetaWRAP v1.3
broker nameEMG broker account, EMBL-EBI
completeness score100
completeness softwareCheckM
contamination score0.81
geographic location (latitude)6399670.16
geographic location (longitude)323762.85
local environmental contextcolon
metagenomic sourcehuman feces metagenome
sample derived fromSAMEA14418825
scientific_nameEggerthella sinensis
sequencing methodIllumina NovaSeq 6000
taxonomic classificationThe taxonomy of this Metagenome-Assembled Genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__Eggerthella;s__Eggerthella sinensis
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) metagenome-assembled genome assembled from the metagenomic run ERR9762675 of study ERP137678.

BioProject
PRJEB62824
Retrieve all samples from this project

Submission
EBI; 2023-07-17
Accession:
SAMEA114064094
ID:
36480156

BioProject Nucleotide

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