| attributes |
| ENA first public |
2019-11-13 |
| ENA last update |
2019-11-01 |
| ENA-CHECKLIST |
ERC000047 |
| External Id |
SAMEA6148346 |
| INSDC center alias |
THE ROSLIN INSTITUTE |
| INSDC center name |
THE ROSLIN INSTITUTE |
| INSDC first public |
2019-11-13T17:04:44Z |
| INSDC last update |
2019-11-01T20:33:39Z |
| INSDC status |
public |
| Submitter Id |
RUG10213 |
| 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 |
93.87 |
| 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 |
ERS3617739 |
| sample name |
RUG10213 |
| 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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