| Literature DB >> 29134599 |
Katelyn McNair1, Ramy Karam Aziz2,3, Gordon D Pusch3, Ross Overbeek3, Bas E Dutilh4,5, Robert Edwards6,7.
Abstract
Phages are complex biomolecular machineries that have to survive in a bacterial world. Phage genomes show many adaptations to their lifestyle such as shorter genes, reduced capacity for redundant DNA sequences, and the inclusion of tRNAs in their genomes. In addition, phages are not free-living, they require a host for replication and survival. These unique adaptations provide challenges for the bioinformatics analysis of phage genomes. In particular, ORF calling, genome annotation, noncoding RNA (ncRNA) identification, and the identification of transposons and insertions are all complicated in phage genome analysis. We provide a road map through the phage genome annotation pipeline, and discuss the challenges and solutions for phage genome annotation as we have implemented in the rapid annotation using subsystems (RAST) pipeline.Keywords: Functional annotation; Gene predictions; Genome annotation; Phage; RAST
Mesh：
Year: 2018 PMID： 29134599 DOI： 10.1007/978-1-4939-7343-9_17
Source DB: PubMed Journal: Methods Mol Biol ISSN： 1064-3745