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Ruminants provide essential nutrition for billions of people worldwide. The rumen is a specialized stomach that is adapted to the breakdown of plant-derived complex polysaccharides. The genomes of the rumen microbiota encode thousands of enzymes adapted to digestion of the plant matter that dominates the ruminant diet. We assembled 4,941 rumen microbial metagenome-assembled genomes (MAGs) using approximately 6.5 terabases of short- and long-read sequence data from 283 ruminant cattle. We present a genome-resolved metagenomics workflow that enabled assembly of bacterial and archaeal genomes that were at least 80% complete. Of note, we obtained three single-contig, whole-chromosome assemblies of rumen bacteria, two of which represent previously unknown rumen species, assembled from long-read data. Using our rumen genome collection we predicted and annotated a large set of rumen proteins. Our set of rumen MAGs increases the rate of mapping of rumen metagenomic sequencing reads from 15% to 50–70%. These genomic and protein resources will enable a better understanding of the structure and functions of the rumen microbiota.
|Number of pages||9|
|Early online date||2 Aug 2019|
|Publication status||Print publication - 2 Aug 2019|
FingerprintDive into the research topics of 'Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery: Comprehensive resource of cow rumen genomes and a database of predicted proteins.'. Together they form a unique fingerprint.
- 1 Finished
Understanding the functional and genomic architecture of the rumen microbiome affecting performance traits in bovines
Roehe, R., Duthie, C. & Dewhurst, R.
1/09/16 → 31/08/19
- 201 Citations
- 1 Article
Identification of rumen microbial genes involved in pathways linked to appetite, growth and feed conversion efficiency in cattleLima, J., Auffret, M., Stewart, R. D., Dewhurst, RJ., Duthie, C-A., Snelling, T. J., Walker, A. W., Freeman, T. C., Watson, M. & Roehe, R., 8 Aug 2019, In: Frontiers in Genetics. 10, 701.
Research output: Contribution to journal › Article › peer-reviewOpen AccessFile