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- Title
A metagenomic study of the rumen virome in domestic caprids.
- Authors
Namonyo, Samuel; Wagacha, Maina; Maina, Solomon; Wambua, Lillian; Agaba, Morris
- Abstract
This project sought to investigate the domestic caprid rumen virome by developing a robust viral DNA isolation and enrichment protocol (utilizing membrane filtration, ultra-centrifugation, overnight PEG treatment and nuclease treatment) and using RSD-PCR and high throughput sequencing (HTS) techniques. 3.53% of the reads obtained were analogous to those of viruses denoting Siphoviridae, Myoviridae, Podoviridae, Mimiviridae, Microviridae, Poxviridae, Tectiviridae and Marseillevirus. Most of the sequenced reads from the rumen were similar to those of phages, which are critical in maintaining the rumen microbial populations under its carrying capacity. Though identified in the rumen, most of these viruses have been reported in other environments as well. Improvements in the viral DNA enrichment and isolation protocol are required to obtain data that are more representative of the rumen virome. The 102,130 unknown reads (92.31%) for the goat and 36,241 unknown reads (93.86%) for the sheep obtained may represent novel genomes that need further study.
- Subjects
METAGENOMICS; RUMEN (Ruminants); NUCLEIC acid isolation methods; PODOVIRIDAE; MYOVIRIDAE
- Publication
Archives of Virology, 2018, Vol 163, Issue 12, p3415
- ISSN
0304-8608
- Publication type
Article
- DOI
10.1007/s00705-018-4022-4