attributes |
ENA first public |
2019-11-13 |
ENA last update |
2019-11-01 |
ENA-CHECKLIST |
ERC000047 |
External Id |
SAMEA6148357 |
INSDC center alias |
THE ROSLIN INSTITUTE |
INSDC center name |
THE ROSLIN INSTITUTE |
INSDC first public |
2019-11-13T17:04:45Z |
INSDC last update |
2019-11-01T20:33:40Z |
INSDC status |
public |
Submitter Id |
RUG10224 |
assembly quality |
Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs |
assembly software |
IDBA-UD; v1.1.3; --num_threads 16 --pre_correction --min_contig 300 |
binning parameters |
tetra-nucleotide frequencies and abundance |
binning software |
MetaBAT2 |
collection date |
not collected |
completeness score |
93.4 |
completeness software |
CheckM |
contamination score |
0.94 |
environment (biome) |
Bos taurus |
environment (feature) |
stomach |
environment (material) |
bodily fluid |
geographic location (country and/or sea) |
United Kingdom |
geographic location (latitude) |
55.861398 |
geographic location (longitude) |
-3.206493 |
investigation type |
metagenome |
isolation source |
cattle rumen |
metagenomic source |
bovine gut metagenome |
project name |
Metagenomic sequencing of the rumen of 240 cattle from Scotland |
reference for biomaterial |
Stewart 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 derived from |
ERS3617817 |
sample name |
RUG10224 |
sequencing method |
Illumina HiSeq 4000 |
taxonomic identity marker |
multi-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 |
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