Metagenome-Assembled Genome: ERR9762680_bin.63_Met... - BioSample

Metagenome-Assembled Genome: ERR9762680_bin.63_MetaWRAP_v1.3_MAG

Identifiers: BioSample: SAMEA114064161; SRA: ERS16048024

Organism: Bifidobacterium animalis
cellular organisms; Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

Attributes

broad-scale environmental context	Human digestive system
collection date	2019
environmental medium	faeces
geographic location	Sweden
investigation type	metagenome-assembled genome
isolation source	human feces metagenome
project name	Recent 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 name	ERR9762680_bin.63_MetaWRAP_v1.3_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-07-13T20:35:04Z
ENA-LAST-UPDATE	2023-07-13T20:35:04Z
External Id	SAMEA114064161
INSDC center alias	EMG
INSDC center name	EMG
INSDC first public	2023-07-13T20:35:04Z
INSDC last update	2023-07-13T20:35:04Z
INSDC status	public
Submitter Id	ERR9762680_bin.63_MetaWRAP_v1.3_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
broker name	EMG broker account, EMBL-EBI
completeness score	100
completeness software	CheckM
contamination score	0.0
geographic location (latitude)	6399670.21
geographic location (longitude)	323762.9
local environmental context	colon
metagenomic source	human feces metagenome
sample derived from	SAMEA14418830
scientific_name	Bifidobacterium animalis
sequencing method	Illumina NovaSeq 6000
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__Actinomycetia;o__Bifidobacteriales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium animalis
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) metagenome-assembled genome assembled from the metagenomic run ERR9762680 of study ERP137678.

BioProject: PRJEB62824
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Submission: EBI; 2023-07-17

Accession:: SAMEA114064161
ID:: 36480223

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Metagenome-Assembled Genome: ERR9762680_bin.63_MetaWRAP_v1.3_MAG

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