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Rumen Uncultured Genome RUG11928

Identifiers
BioSample: SAMEA6150063; SRA: ERS3950101
Organism
Oscillospiraceae bacterium
cellular organisms; Bacteria; Terrabacteria group; Bacillota; Clostridia; Eubacteriales; Oscillospiraceae; unclassified Oscillospiraceae
Attributes
collection datenot collected
broad-scale environmental contextBos taurus
local-scale environmental contextstomach
environmental mediumbodily fluid
geographic locationUnited Kingdom
investigation typemetagenome
isolation sourcecattle rumen
project nameMetagenomic sequencing of the rumen of 240 cattle from Scotland
reference for biomaterialStewart RD, Auffret MD, Warr A, Walker AW, Roehe R, Watson M. Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery. (2019) Nat Biotechnol. 37(8):953-961. doi: 10.1038/s41587-019-0202-3.
sample nameRUG11928
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2019-11-13T17:04:44Z
ENA-LAST-UPDATE2019-11-01T20:34:26Z
External IdSAMEA6150063
INSDC center nameTHE ROSLIN INSTITUTE
INSDC first public2019-11-13T17:04:44Z
INSDC last update2019-11-01T20:34:26Z
INSDC statuspublic
Submitter IdRUG11928
assembly qualityMultiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs
assembly softwareIDBA-UD; v1.1.3; --num_threads 16 --pre_correction --min_contig 300
binning parameterstetra-nucleotide frequencies and abundance
binning softwareMetaBAT2
completeness score84.09
completeness softwareCheckM
contamination score0.45
geographic location (latitude)55.861398
geographic location (longitude)-3.206493
metagenomic sourcebovine gut metagenome
sample derived fromERS3619937
scientific_nameRuminococcaceae bacterium
sequencing methodIllumina HiSeq 4000
taxonomic identity markermulti-marker approach - MAGpy - Stewart RD, Auffret MD, Snelling TJ, Roehe R, Watson M. (2019) MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs). Bioinformatics. 35(12):2150-2152. doi: 10.1093/bioinformatics/bty905
Description

Cattle rumen microbiome RUG RUG11928 Ruminococcaceae bacterium

BioProject
PRJEB31266 Metagenomic sequencing of cattle
Retrieve all samples from this project

Submission
EBI; 2019-11-17
Accession:
SAMEA6150063
ID:
13313552

BioProject Nucleotide

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