Visualization of Phage Genomic Data: Comparative Genomics and Publication-Quality Diagrams

Dann Turner; J Mark Sutton; Darren M Reynolds; Eby M Sim; Nicola K Petty

doi:10.1007/978-1-4939-7343-9_18

Visualization of Phage Genomic Data: Comparative Genomics and Publication-Quality Diagrams

Methods Mol Biol. 2018:1681:239-260. doi: 10.1007/978-1-4939-7343-9_18.

Authors

Dann Turner¹, J Mark Sutton², Darren M Reynolds³, Eby M Sim⁴, Nicola K Petty⁴

Affiliations

¹ Centre for Research in Biosciences, Faculty of Health and Applied Sciences, University of the West of England, Coldharbour Lane, Bristol, BS16 1QY, UK. dann2.turner@uwe.ac.uk.
² Public Health England, Porton Down, Salisbury, SP4 0JG, Wiltshire, UK.
³ Centre for Research in Biosciences, Faculty of Health and Applied Sciences, University of the West of England, Coldharbour Lane, Bristol, BS16 1QY, UK.
⁴ The ithree institute, University of Technology Sydney, PO Box 123, Broadway, Sydney, New South Wales, Australia.

PMID: 29134600
DOI: 10.1007/978-1-4939-7343-9_18

Abstract

The presentation of bacteriophage genomes as diagrams allows the location and organization of features to be communicated in a clear and effective manner. A wide range of software applications are available for the clear and accurate visualization of genomic data. Several of these applications incorporate comparative analysis tools, allowing for insertions, deletions, rearrangements and variations in syntenic regions to be visualized. In this chapter, freely available software and resources for the generation of high-quality graphical maps of bacteriophage genomes are listed and discussed.

Keywords: Comparative genomics; Genomes; Phage; Software; Visualization.

Publication types

Comparative Study

MeSH terms

Bacteriophages / genetics*
DNA, Circular / genetics
Genome, Viral
Genomics / methods*
Image Processing, Computer-Assisted
Publications*
Software

Substances

DNA, Circular