Comparative analysis of 37 Acinetobacter bacteriophages

Kropinski, Andrew M.; Reynolds, Darren M.; Turner, Dann; Kropinski, Andrew; Ackermann, Hans Wolfgang; Lavigne, Rob; Reynolds, Darren M; Sutton, J. Mark

Abstract

© 2017 by the authors. Licensee MDPI, Basel, Switzerland. Members of the genus Acinetobacter are ubiquitous in the environment and the multipledrug resistant species A. baumannii is of significant clinical concern. This clinical relevance is currently driving research on bacterial viruses infecting A. baumannii, in an effort to implement phage therapy and phage-derived antimicrobials. Initially, a total of 42 Acinetobacter phage genome sequences were available in the international nucleotide sequence databases, corresponding to a total of 2.87 Mbp of sequence information and representing all three families of the order Caudovirales and a single member of the Leviviridae. A comparative bioinformatics analysis of 37 Acinetobacter phages revealed that they form six discrete clusters and two singletons based on genomic organisation and nucleotide sequence identity. The assignment of these phages to clusters was further supported by proteomic relationships established using OrthoMCL. The 4067 proteins encoded by the 37 phage genomes formed 737 groups and 974 orphans. Notably, over half of the proteins encoded by the Acinetobacter phages are of unknown function. The comparative analysis and clustering presented enables an updated taxonomic framing of these clades.

• Journal Article Type: Article
• Acceptance Date: Dec 22, 2017
• Online Publication Date: Dec 24, 2017
• Publication Date: Jan 1, 2018
• Deposit Date: Jan 4, 2018
• Publicly Available Date: Jan 4, 2018
• Journal: Viruses
• Electronic ISSN: 1999-4915
• Publisher: MDPI
• Peer Reviewed: Peer Reviewed
• Volume: 10
• Issue: 1
• Pages: 5
• DOI: https://doi.org/10.3390/v10010005
• Keywords: Acinetobacter baumannii, Acinetobacter phages, bacteriophages, bioinformatics, comparative genomics, protein clustering, phylogeny
• Public URL: https://uwe-repository.worktribe.com/output/903714
• Publisher URL: http://dx.doi.org/10.3390/v10010005
• Contract Date: Jan 4, 2018