ENA-FIRST-PUBLIC
2022-07-28
ENA-LAST-UPDATE
2022-07-28
External Id
SAMEA110426307
INSDC center alias
EMG
INSDC center name
EMG
INSDC first public
2022-07-28T16:25:48Z
INSDC last update
2022-07-28T16:25:48Z
INSDC status
public
Submitter Id
SRR12203236_bin.6_metaWRAP_v1.3_MAG
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
megahit v1.2.9
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
Pig digestive system
broker name
EMG broker account, EMBL-EBI
collection date
not provided
completeness score
77.4
completeness software
CheckM
contamination score
1.03
environmental medium
Feces
geographic location (country and/or sea)
USA
geographic location (latitude)
39.8687
geographic location (longitude)
-75.7547
investigation type
metagenome-assembled genome
isolation_source
pig gut metagenome
local environmental context
Intestine
metagenomic source
pig gut metagenome
project name
Shotgun metagenomic sequencing of fecal samples collected from 18 pregnant sows at days 37 (beginning) and 114 (immediately pre-farrowing) of pregnancy reveal that parity is associated with changes in the porcine gut microbiome at the end, and not the beginning, of pregnancy. Shotgun metagenomic sequencing of fecal swabs from 3 offspring from each mother 10 days after birth reveals that maternal parity is associated with the early infant gut microbiome composition.
sample derived from
SAMN15497270
sample name
SRR12203236_bin.6_metaWRAP_v1.3_MAG
sequencing method
NextSeq 500
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__;g__;s__
taxonomic identity marker
multi-marker approach