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Metagenome-assembled genome: ERR1332622_bin.1_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14081605; SRA: ERS11684742
Organism
Streptococcus infantis
cellular organisms; Bacteria; Terrabacteria group; Bacillota; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus
Attributes
collection date2013-09-25
broad-scale environmental contextEngineered
local-scale environmental contextEngineered
environmental mediumEngineered
geographic locationUSA
investigation typemetagenome-assembled genome
isolation sourcemetagenome
project nameThe microorganisms that inhabit hospitals may significantly influence patient recovery rates and outcomes, though the complexity and diversity of these communities confound our ability to focus on potential pathogens in isolation. To develop a community level understating of how microorganisms colonize and move through the hospital environment, we mapped microbial dynamics between hospital surfaces, air and water to patients and staff over the course of one year as a new hospital became operational. Immediately following the introduction of staff and patients, the hospital microbiome became dominated by human skin-associated bacteria. Patient skin samples had the lowest microbial diversity, while the greatest diversity was found on surfaces interacting with outdoor environments. The microbiota of patient room surfaces, especially bedrails, consistently resembled the skin microbial community of the current patient within 24 hours of occupancy, with degree of similarity significantly correlated to higher humidity and lower temperatures. Microbial similarity between staff members showed a significant seasonal trend suggesting interpersonal microbial transmission in hospital environments is influenced by built environment parameters.
sample nameERR1332622_bin.1_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14081605
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:32:45Z
INSDC last update2023-01-03T00:32:45Z
INSDC statuspublic
Submitter IdERR1332622_bin.1_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaspadesv3.11.1
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score99.66
completeness softwareCheckM
contamination score0.49
geographic location (latitude)41.779858
geographic location (longitude)-87.6001
metagenomic sourcemetagenome
sample derived fromSAMEA3904705
scientific_nameStreptococcus infantis
sequencing methodIllumina HiSeq 1500
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR1332622 of study ERP014653.

BioProject
PRJEB51072 Large-scale analysis of novel cellular microbes from the engineered biome
Retrieve all samples from this project

Submission
EBI; 2023-01-04
Accession:
SAMEA14081605
ID:
32558902

BioProject Nucleotide

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