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Metagenome-Assembled Genome: ERR9968962_bin.2_MetaWRAP_v1.3_MAG

Identifiers
BioSample: SAMEA114444757; SRA: ERS16432541
Organism
Granulicatella adiacens
cellular organisms; Bacteria; Bacillati; Bacillota; Bacilli; Lactobacillales; Carnobacteriaceae; Granulicatella
Attributes
broad-scale environmental contexthuman digestive system
collection date2008-04-20
environmental mediumplaque biofilm
geographic locationAustralia
investigation typemetagenome-assembled genome
isolation sourceoral metagenome
project nameAntibiotic overuse has promoted the spread of antimicrobial resistance (AMR) with significant health and economic consequences. Surveillance of resistance reservoirs, like the rarely explored oral microbiome, is necessary to combat AMR. We characterised the development of the paediatric oral resistome and investigated its role in dental caries in 221 twin children sampled over the first decade of life. From 535 oral metagenomes, we identified 309 antimicrobial resistance genes (ARGs), which significantly clustered by age, with the influence of host genetics on antimicrobial resistance increasing over time. Our results suggest the mobilisation potential of ARGs increased with age as Tn916 transposase was co-located with more species and ARGs as children grew. Dental caries compared to health was associated with a depletion of ARGs and species, which was reversed when restored. Our results highlight the dynamic nature of the paediatric oral resistome, and its potential role in transmission of AMR and dysbiosis.
sample nameERR9968962_bin.2_MetaWRAP_v1.3_MAG
ENA-CHECKLISTERC000047
INSDC center nameEMG
Submitter IdERR9968962_bin.2_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 nameEBI-EMG
completeness score63.13
completeness softwareCheckM
contamination score0.6
geographic location (latitude)33.8688
geographic location (longitude)151.2093
local environmental contextoral cavity
metagenomic sourceoral metagenome
sample derived fromSAMEA110373628
scientific_nameGranulicatella adiacens
sequencing methodIllumina NovaSeq 6000
taxonomic classificationThe taxonomy of this Metagenome-Assembled Genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Carnobacteriaceae;g__Granulicatella;s__Granulicatella adiacens
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) metagenome-assembled genome assembled from the metagenomic run ERR9968962 of study ERP139515.

Submission
EBI; 2023-09-29
Accession:
SAMEA114444757
ID:
37602968

BioProject Nucleotide

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