Bacteroides uniformis
ENA first public
2024-09-21
INSDC center name
EMBL Heidelberg
INSDC status
public
Submitter Id
spire_mag_02390768
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
megahit 1.2.9
binning parameters
default
binning software
metabat 2.12.1
broad-scale environmental context
human digestive system
broker name
EBI-EMG
collection date
2018
completeness score
82.57
completeness software
checkm2 0.1.3
contamination score
6.43
environmental medium
stool
geographic location (country and/or sea)
USA
geographic location (latitude)
41.73000000
geographic location (longitude)
-72.79000000
investigation type
metagenome-assembled genome
isolation_source
human gut metagenome
local environmental context
human gut
metagenomic source
human gut metagenome
project name
While older adults represent a vulnerable population with elevated risk for numerous chronic illnesses, the role played by the microbiome in such age-related susceptibilities remains largely unexplored. Stereotypical changes in physiological and immune responses with aging likely contribute to microbiome-related increases in predisposition to common late life diseases. To understand associations of the microbiome with age, frailty, and infectious disease risk factors, we conducted a longitudinal, whole genome shotgun study of the skin, oral, and gut microbiota in 47 older adults residing in community or skilled nursing facility (SNF) settings. We found prominent differences in microbiomes from all body sites between younger adults, older adults living in the community, and SNF residents. In addition, frailty correlated negatively with relative abundance of Cutibacterium (C.) acnes in the skin microbiome, which itself strongly correlated with decreased microbial community stability and increased diversity, heterogeneity, and biogeographic determinism, factors that have been associated with susceptibility to pathogen colonization and disease risk. Strikingly, the skin microbiota, rather than gut or oral communities, was the primary reservoir for plasmid-borne antimicrobial resistance and clinically important pathobionts. Strain composition of important commensal species such as C. acnes and Staphylococcus epidermidis in SNF residents further suggested a shift from healthy to pro-inflammatory and nosocomial strains. Our findings set the foundation for understanding relative risk of microbiome-mediated frailty and disease processes in older adults in different residential settings, and for the development of strategies to leverage the microbiota as tools to promote healthy aging, disease prevention, and to limit the dissemination of multidrug resistant pathogens.
sample derived from
SAMN17617456
sample name
spire_mag_02390768
scientific_name
Bacteroides uniformis
sequencing method
Illumina NovaSeq 6000
taxonomic identity marker
multi-marker approach