U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Metagenome-assembled genome: SRR1647065_bin.29_CONCOCT_v1.1_MAG

Identifiers
BioSample: SAMEA14079581; SRA: ERS11682840
Organism
Malassezia restricta
cellular organisms; Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Ustilaginomycotina; Malasseziomycetes; Malasseziales; Malasseziaceae; Malassezia
Attributes
collection date2014-05-20
broad-scale environmental contextHost-associated
local-scale environmental contextHuman
environmental mediumSkin
geographic locationnot provided
investigation typemetagenome-assembled genome
isolation sourcehuman skin metagenome
project nameViruses can impact microbiome structure and function through predation and genetic exchange, but little is known of cutaneous viral communities and their interactions with their hosts. To query virus-host interactions of the skin, we performed parallel metagenomic sequencing and an integrated analysis of DNA isolated from virus-like particles (VLPs) and total microbial communities. To assess spatial, interpersonal, and temporal variance, samples were collected from eight anatomical skin sites of 16 healthy individuals over two months. Skin viral communities were dominated by tailed bacteriophages--viruses replicating on human cells were comparatively rare. Similar to the skin whole metagenome, viral community composition and diversity was strongly associated with the microenvironment of the site sampled, and temporal variation within an individual was small compared to differences between individuals. Virome communities were enriched for genes indicative of a temperate phage replication style, indicating that many infections would be non-lethal to the host and provide an opportunity for gene transfer. CRISPR spacers identified in the bacterial DNA sequences provided a record of phage predation. Among these, some spacers targeted phage found at different body sites, suggesting that CRISPR spacer acquisition may provide a mechanism to explain spatial partitioning of skin phage communities. Our findings provide new insight into the skin virome, its interactions with the whole metagenome, and establish a foundation for understanding these dynamics in skin health and disease.
sample nameSRR1647065_bin.29_CONCOCT_v1.1_MAG
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2023-01-03
ENA-LAST-UPDATE2023-01-03
External IdSAMEA14079581
INSDC center aliasEBI
INSDC center nameEuropean Bioinformatics Institute
INSDC first public2023-01-03T00:32:46Z
INSDC last update2023-01-03T00:32:46Z
INSDC statuspublic
Submitter IdSRR1647065_bin.29_CONCOCT_v1.1_MAG
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaspadesv3.12.0
binning parametersDefault
binning softwareCONCOCT v1.1
broker nameEMG broker account, EMBL-EBI
completeness score98.6
completeness softwareCheckM
contamination score0.4
geographic location (latitude)not provided
geographic location (longitude)not provided
metagenomic sourcehuman skin metagenome
sample derived fromSAMN03159698
scientific_nameMalassezia restricta
sequencing methodIllumina HiSeq 2500
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR1647065 of study SRP049645.

BioProject
PRJEB51076 Large-scale analysis of novel cellular microbes from the human skin biome
Retrieve all samples from this project

Submission
EBI; 2023-01-04
Accession:
SAMEA14079581
ID:
32558087

BioProject Nucleotide

Supplemental Content

Related information

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
You are here: NCBI > DNA & RNA > BioSample
Support Center