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Metagenome-assembled genome: SRR12203237_bin.2_metaWRAP_v1.3_MAG

Identifiers
BioSample: SAMEA110426308; SRA: ERS12524234
Organism
Escherichia coli
cellular organisms; Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Attributes
broad-scale environmental contextPig digestive system
collection datenot provided
environmental mediumFeces
geographic locationUSA
investigation typemetagenome-assembled genome
isolation sourcepig gut metagenome
project nameShotgun metagenomic sequencing of fecal samples collected from 18 pregnant sows at days 37 (beginning) and 114 (immediately pre-farrowing) of pregnancy reveal that parity is associated with changes in the porcine gut microbiome at the end, and not the beginning, of pregnancy. Shotgun metagenomic sequencing of fecal swabs from 3 offspring from each mother 10 days after birth reveals that maternal parity is associated with the early infant gut microbiome composition.
sample nameSRR12203237_bin.2_metaWRAP_v1.3_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2022-07-28
ENA-LAST-UPDATE2022-07-28
External IdSAMEA110426308
INSDC center aliasEMG
INSDC center nameEMG
INSDC first public2022-07-28T16:25:48Z
INSDC last update2022-07-28T16:25:48Z
INSDC statuspublic
Submitter IdSRR12203237_bin.2_metaWRAP_v1.3_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremegahit v1.2.9
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 score55.87
completeness softwareCheckM
contamination score0.71
geographic location (latitude)39.8687
geographic location (longitude)-75.7547
local environmental contextIntestine
metagenomic sourcepig gut metagenome
sample derived fromSAMN15497269
sequencing methodNextSeq 500
taxonomic classificationThe taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR12203237 of study SRP271464.

BioProject
PRJEB53041
Retrieve all samples from this project

Submission
EBI; 2022-07-29
Accession:
SAMEA110426308
ID:
30039662

BioProject Nucleotide

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