Metadata retrieved
using the EBI API
Cattle rumen microbiome RUG RUG13817 uncultured Elusimicrobium sp.
- BioSample Accession(s)
- SAMEA6151955, ERS3951990
- assembly software
- IDBA-UD; v1.1.3; --num_threads 16 --pre_correction --min_contig 300
- environment (material)
- bodily fluid
- collection date
- not collected
- sample derived from
- ERS3615211
- geographic location (longitude)
- -3.206493
- binning parameters
- tetra-nucleotide frequencies and abundance
- contamination score
- 2.25
- 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.
- ENA-FIRST-PUBLIC
- 2019-11-14
- ENA-LAST-UPDATE
- 2019-11-01
- completeness software
- CheckM
- environment (biome)
- Bos taurus
- environment (feature)
- stomach
- geographic location (country and/or sea)
- United Kingdom
- ENA-CHECKLIST
- ERC000047
- binning software
- MetaBAT2
- organism
- uncultured Elusimicrobium sp.
- assembly quality
- Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs
- 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
- completeness score
- 96.96
- geographic location (latitude)
- 55.861398
- scientific_name
- uncultured Elusimicrobium sp.
- investigation type
- metagenome
- metagenomic source
- bovine gut metagenome
- project name
- Metagenomic sequencing of the rumen of 240 cattle from Scotland
- sequencing method
- Illumina HiSeq 4000
- isolation_source
- cattle rumen