ENA-FIRST-PUBLIC
2022-10-19
ENA-LAST-UPDATE
2022-10-19
External Id
SAMEA111491544
INSDC center alias
EMG
INSDC center name
EMG
INSDC first public
2022-10-19T12:28:18Z
INSDC last update
2022-10-19T12:28:18Z
INSDC status
public
Submitter Id
SRR14038232_bin.67_metawrap_v1.3_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaSPAdes v3.15.3
binning parameters
MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.
binning software
metawrap v1.3
broad-scale environmental context
mouse digestive system
broker name
EMG broker account, EMBL-EBI
collection date
2019-10-27
completeness score
88.1
completeness software
CheckM
contamination score
1.34
environmental medium
feces
geographic location (country and/or sea)
USA
geographic location (latitude)
42.723778
geographic location (longitude)
-84.4751
investigation type
metagenome-assembled genome
isolation_source
mouse gut metagenome
local environmental context
digestive tube
metagenomic source
mouse gut metagenome
project name
Gut dysbiosis commonly associated with the development and progression of non-alcoholic liver disease (NAFLD), is recapitulated in male mice exposed to 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD). To investigate changes in the gut microbiota, male mice (n=3) were orally gavaged with sesame oil vehicle control or 0.3, 3 or 30 ug/kg TCDD every 4 days for 28 days. Shotgun metagenomic sequencing was used to evaluate TCDD-elicited shifts in taxonomy and metabolic pathways associated with and contributing to NAFLD progression.
sample derived from
SAMN18426301
sample name
SRR14038232_bin.67_metawrap_v1.3_MAG
sequencing method
Illumina NovaSeq 6000
taxonomic classification
The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__
taxonomic identity marker
multi-marker approach