Warning: The NCBI web site requires JavaScript to function. more...

BioSample

National Center for Biotechnology Information

Organism: Escherichia coli
cellular organisms; Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia

Attributes

broad-scale environmental context	human excretory system
collection date	not provided
environmental medium	urine
geographic location	USA
investigation type	metagenome-assembled genome
isolation source	urine metagenome
project name	Metagenomic sequencing of 122 symptomatic and 30 asymptomatic genitourinary microbiomes
sample name	SRR13740654_bin.1_MetaWRAP_v1.3_MAG
ENA-CHECKLIST	ERC000047
INSDC center name	EMG
Submitter Id	SRR13740654_bin.1_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	EBI-EMG
completeness score	99.07
completeness software	CheckM
contamination score	0.04
geographic location (latitude)	38.63
geographic location (longitude)	-90.19
local environmental context	urethra
metagenomic source	urine metagenome
sample derived from	SAMN17964561
scientific_name	Escherichia coli
sequencing method	NextSeq 500
taxonomic classification	The 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 marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) metagenome-assembled genome assembled from the metagenomic run SRR13740654 of study SRP307023.