Title |
A metagenomic study of the rumen virome in domestic caprids
|
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Published in |
Archives of Virology, September 2018
|
DOI | 10.1007/s00705-018-4022-4 |
Pubmed ID | |
Authors |
Samuel Namonyo, Maina Wagacha, Solomon Maina, Lillian Wambua, Morris Agaba |
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. |
X Demographics
Geographical breakdown
Country | Count | As % |
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Canada | 1 | 17% |
Unknown | 5 | 83% |
Demographic breakdown
Type | Count | As % |
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Members of the public | 5 | 83% |
Scientists | 1 | 17% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Unknown | 46 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 8 | 17% |
Student > Master | 6 | 13% |
Researcher | 5 | 11% |
Student > Bachelor | 4 | 9% |
Student > Postgraduate | 3 | 7% |
Other | 10 | 22% |
Unknown | 10 | 22% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 13 | 28% |
Biochemistry, Genetics and Molecular Biology | 8 | 17% |
Immunology and Microbiology | 6 | 13% |
Computer Science | 4 | 9% |
Veterinary Science and Veterinary Medicine | 2 | 4% |
Other | 1 | 2% |
Unknown | 12 | 26% |