Metagenome-assembled genome: ERR748160_bin.17_CONCOCT_v1.1_MAG
uncultured Eubacterium sp.
This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run ERR748160 of study ERP009422.
ENA-FIRST-PUBLIC
2023-01-03
ENA-LAST-UPDATE
2023-01-03
External Id
SAMEA14085128
INSDC center alias
EBI
INSDC center name
European Bioinformatics Institute
INSDC first public
2023-01-03T00:33:15Z
INSDC last update
2023-01-03T00:33:15Z
INSDC status
public
Submitter Id
ERR748160_bin.17_CONCOCT_v1.1_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
spades_v3.12.0
binning parameters
Default
binning software
CONCOCT v1.1
broker name
EMG broker account, EMBL-EBI
collection date
2011-01-01
completeness score
99.33
completeness software
CheckM
contamination score
0.0
environment (biome)
Host-associated
environment (feature)
Human
environment (material)
Digestive system
geographic location (country and/or sea)
Germany
geographic location (latitude)
0.0
geographic location (longitude)
0.0
investigation type
metagenome-assembled genome
isolation_source
human gut metagenome
metagenomic source
human gut metagenome
project name
Background: Metagenomics has become a prominent approach for exploring the role of the gut microbiota in human health. However, the temporal variability of the healthy gut microbiome has not yet been studied in depth using metagenomics and little is known about the effects of different sampling and preservation approaches. We performed metagenomic analysis on fecal samples from seven subjects collected over a period of up to two years to investigate temporal variability and assess preservation-induced variation, specifically, fresh frozen compared to RNALater. We also monitored short-term disturbances caused by antibiotic treatment and bowel cleansing in one subject.Results: We find that the human gut microbiome is temporally stable and highly personalized at both taxonomic and functional levels. Over multiple time-points, samples from the same subject clustered together, even in the context of a large dataset of 888 European and American fecal metagenomes. One exception was observed in an antibiotic intervention case where, more than one year after the treatment, samples did not resemble the pre-treatment state. Clustering was not affected by preservation method. No species differed significantly in abundance, and only 0.36% of gene families were differentially abundant between preservation methods.Conclusions: Technical variability is small compared to the temporal variability of an unperturbed gut microbiome, which in turn is much smaller than the observed between-subject variability. Thus, short-term preservation of fecal samples in RNALater is an appropriate and cost-effective alternative to freezing of fecal samples for metagenomic studies.
sample derived from
SAMEA3231335
sample name
ERR748160_bin.17_CONCOCT_v1.1_MAG
scientific_name
uncultured Eubacterium sp.
sequencing method
Illumina HiSeq 2000
taxonomic identity marker
multi-marker approach