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Rumen Uncultured Genome RUG14919

Identifiers
BioSample: SAMEA6153058; SRA: ERS3953092
Organism
uncultured Prevotellaceae bacterium
cellular organisms; Bacteria; FCB group; Bacteroidota/Chlorobiota group; Bacteroidota; Bacteroidia; Bacteroidales; Prevotellaceae; environmental samples
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 nameRUG14919
ENA-CHECKLISTERC000047
ENA-FIRST-PUBLIC2019-11-14T04:04:37Z
ENA-LAST-UPDATE2019-11-01T20:36:46Z
External IdSAMEA6153058
INSDC center nameTHE ROSLIN INSTITUTE
INSDC first public2019-11-14T04:04:37Z
INSDC last update2019-11-01T20:36:46Z
INSDC statuspublic
Submitter IdRUG14919
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwareIDBA-UD; v1.1.3; --num_threads 16 --pre_correction --min_contig 300
binning parameterstetra-nucleotide frequencies and abundance
binning softwareMetaBAT2
completeness score94.5
completeness softwareCheckM
contamination score1.01
geographic location (latitude)55.861398
geographic location (longitude)-3.206493
metagenomic sourcebovine gut metagenome
sample derived fromERS3947738
scientific_nameuncultured Prevotellaceae 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 RUG14919 uncultured Prevotellaceae bacterium

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

Submission
EBI; 2019-11-17
Accession:
SAMEA6153058
ID:
13310145

BioProject Nucleotide

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