ENA-FIRST-PUBLIC
2023-01-18
ENA-LAST-UPDATE
2023-01-18
External Id
SAMEA112352702
INSDC center alias
UNIVERSITY OF COPENHAGEN
INSDC center name
UNIVERSITY OF COPENHAGEN
INSDC first public
2023-01-18T20:18:44Z
INSDC last update
2023-01-18T20:18:44Z
INSDC status
public
Submitter Id
ERR4647712_bin.9_MetaWRAP_v1.1_bin
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 v1.1
broad-scale environmental context
Chicken digestive system
broker name
EMG broker account, EMBL-EBI
collection date
2019-03-11
completeness score
72.41
completeness software
CheckM
contamination score
0.0
environmental medium
Ileum
geographic location (country and/or sea)
Spain
geographic location (latitude)
41.170048
geographic location (longitude)
1.168491
investigation type
metagenome-assembled genome
isolation_source
chicken gut metagenome
local environmental context
Digestive tube
metagenomic source
chicken gut metagenome
project name
Metagenomic raw reads, assemblies, and bins derived from HoloFood chicken caecum and ileum samples. Samples selected for this batch were randomised among trials (feed), age, and breed to overcome batch effect. The caecum samples in this project contributed to the chicken caecum MAG catalogue (project: PRJEB55374 [ERP140263]), and the ileum samples contributed to the chicken ileum MAG catalogue (project: PRJEB55375 [ERP140264]).
sample derived from
SAMEA7368177
sample name
ERR4647712_bin.9_MetaWRAP_v1.1_bin
sequencing method
DNBSEQ-G400
taxonomic classification
The taxonomy of this binned metagenome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus johnsonii
taxonomic identity marker
multi-marker approach