Metagenome-assembled genome: SRR4305348_bin.15_CONCOCT_v1.1_MAG
Bifidobacterium breve
This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR4305348 of study SRP090628.
ENA-FIRST-PUBLIC
2023-01-03
ENA-LAST-UPDATE
2023-01-03
External Id
SAMEA14085767
INSDC center alias
EBI
INSDC center name
European Bioinformatics Institute
INSDC first public
2023-01-03T00:33:32Z
INSDC last update
2023-01-03T00:33:32Z
INSDC status
public
Submitter Id
SRR4305348_bin.15_CONCOCT_v1.1_MAG
assembly quality
Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs
assembly software
metaspadesv3.10.0
binning parameters
Default
binning software
CONCOCT v1.1
broker name
EMG broker account, EMBL-EBI
collection date
not provided
completeness score
98.23
completeness software
CheckM
contamination score
0.69
environment (biome)
Host-associated
environment (feature)
Human
environment (material)
Digestive system
geographic location (country and/or sea)
Russia
geographic location (latitude)
not provided
geographic location (longitude)
not provided
investigation type
metagenome-assembled genome
isolation_source
human gut metagenome
metagenomic source
human gut metagenome
project name
This is a longitudinal collection of stool samples from infants at risk for disease. Approximately 1,000 newborns were recruited to the birth cohort as part of the international DIABIMMUNE Study (http://www.diabimmune.org/) for which the consent rate was 80% in Tartu, Estonia, 59% in Espoo, Finland, and 24% in Petrozavodsk, Russia. Recruitment took place between September 2008 and May 2010 in Estonia and Finland, and between September 2008 and July 2011 in Russia. Follow-up was completed in April 2013 in Estonia and Finland, and in October 2013 in Russia. The final number of children included in the present study was 74 from each country. Inclusion criteria included positive cord blood testing for HLA DR-DQ alleles conferring increased risk for autoimmunity. The participating children were monitored prospectively for infections, use of drugs including antibiotics, and other life events.
sample derived from
SAMN05826868
sample name
SRR4305348_bin.15_CONCOCT_v1.1_MAG
scientific_name
Bifidobacterium breve
sequencing method
Illumina HiSeq 2500
taxonomic identity marker
multi-marker approach