Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation
Abstrak
Abstract We describe a method that adds long-read sequencing to a mix of technologies used to assemble a highly complex cattle rumen microbial community, and provide a comparison to short read-based methods. Long-read alignments and Hi-C linkage between contigs support the identification of 188 novel virus-host associations and the determination of phage life cycle states in the rumen microbial community. The long-read assembly also identifies 94 antimicrobial resistance genes, compared to only seven alleles in the short-read assembly. We demonstrate novel techniques that work synergistically to improve characterization of biological features in a highly complex rumen microbial community.
Topik & Kata Kunci
Penulis (21)
Derek M. Bickhart
Mick Watson
Sergey Koren
Kevin Panke-Buisse
Laura M. Cersosimo
Maximilian O. Press
Curtis P. Van Tassell
Jo Ann S. Van Kessel
Bradd J. Haley
Seon Woo Kim
Cheryl Heiner
Garret Suen
Kiranmayee Bakshy
Ivan Liachko
Shawn T. Sullivan
Phillip R. Myer
Jay Ghurye
Mihai Pop
Paul J. Weimer
Adam M. Phillippy
Timothy P. L. Smith
Format Sitasi
Akses Cepat
- Tahun Terbit
- 2019
- Sumber Database
- DOAJ
- DOI
- 10.1186/s13059-019-1760-x
- Akses
- Open Access ✓