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Metagenome-Assembled Genome: ERR4316503_bin.48_MetaWRAP_v1.3_MAG

Identifiers
BioSample: SAMEA114062428; SRA: ERS16046292
Organism
uncultured Holdemania sp.
cellular organisms; Bacteria; Bacillati; Bacillota; Erysipelotrichia; Erysipelotrichales; Erysipelotrichaceae; Holdemania; environmental samples
Attributes
broad-scale environmental contextHuman digestive system
collection datenot provided
environmental mediumfaeces
geographic locationnot provided
investigation typemetagenome-assembled genome
isolation sourcehuman feces metagenome
project nameTo find associations between the taxonomical and functional profile of the gut metagenome and the development of retinopathia centralis Serosa (RCS), stool samples from 19 RCS patients and 19 controls with no signs of RCS were sequenced.
sample nameERR4316503_bin.48_MetaWRAP_v1.3_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-07-13T16:22:53Z
ENA-LAST-UPDATE2023-07-13T16:22:53Z
External IdSAMEA114062428
INSDC center aliasEMG
INSDC center nameEMG
INSDC first public2023-07-13T16:22:53Z
INSDC last update2023-07-13T16:22:53Z
INSDC statuspublic
Submitter IdERR4316503_bin.48_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 score74.52
completeness softwareCheckM
contamination score1.9
geographic location (latitude)not provided
geographic location (longitude)not provided
local environmental contextcolon
metagenomic sourcehuman feces metagenome
sample derived fromSAMEA7037068
scientific_nameuncultured Holdemania sp.
sequencing methodIllumina HiSeq 3000
taxonomic classificationThe 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__Holdemania;s__
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) metagenome-assembled genome assembled from the metagenomic run ERR4316503 of study ERP122462.

Submission
EBI; 2023-07-17
Accession:
SAMEA114062428
ID:
36478519

BioProject Nucleotide

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