Metagenome-assembled genome: SRR3160452_bin.77_CONCOCT_v1.1_MAG
uncultured Collinsella sp.
This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR3160452 of study SRP069867.
ENA-FIRST-PUBLIC
2023-01-03
ENA-LAST-UPDATE
2023-01-03
External Id
SAMEA14085678
INSDC center alias
EBI
INSDC center name
European Bioinformatics Institute
INSDC first public
2023-01-03T00:33:21Z
INSDC last update
2023-01-03T00:33:21Z
INSDC status
public
Submitter Id
SRR3160452_bin.77_CONCOCT_v1.1_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaspadesv3.11.1
binning parameters
Default
binning software
CONCOCT v1.1
broker name
EMG broker account, EMBL-EBI
collection date
2014-05-15
completeness score
98.39
completeness software
CheckM
contamination score
6.78
environment (biome)
Host-associated
environment (feature)
Human
environment (material)
Digestive system
geographic location (country and/or sea)
USA
geographic location (latitude)
32.8094
geographic location (longitude)
-96.8365
investigation type
metagenome-assembled genome
isolation_source
human gut metagenome
metagenomic source
human gut metagenome
project name
This is a prospective cohort study using metagenomics to characterize gut microbiota populations of pediatric short bowel syndrome (SBS) patients with variable growth trajectories. Stool samples were collected from children with SBS and healthy controls over a three month period. Differences in gut bacterial populations were compared between healthy children and those with SBS (including a more in depth analysis of SBS children exhibiting poor and good growth).
sample derived from
SAMN04480494
sample name
SRR3160452_bin.77_CONCOCT_v1.1_MAG
scientific_name
uncultured Collinsella sp.
sequencing method
Illumina HiSeq 2000
taxonomic identity marker
multi-marker approach