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Open Access Research article

UFV-P2 as a member of the Luz24likevirus genus: a new overview on comparative functional genome analyses of the LUZ24-like phages

Monique R Eller1, Pedro M P Vidigal2, Rafael L Salgado3, Maura P Alves1, Roberto S Dias4, Cynthia C da Silva46, Antônio F de Carvalho1, Andrew Kropinski78 and Sérgio O De Paula45*

Author Affiliations

1 Department of Food Technology, Federal University of Viçosa, Av. PH Rolfs, s/n, Campus da UFV, Viçosa, Minas Gerais 36570-000, Brazil

2 Bioinformatics Laboratory, Institute of Applied Biotechnology to Agriculture (BIOAGRO), Federal University of Viçosa, Av. PH Rolfs, s/n, Campus da UFV, Viçosa, Minas Gerais 36570-000, Brazil

3 Department of Biochemistry and Molecular Biology, Federal University of Viçosa, Av. PH Rolfs, s/n, Campus da UFV, Viçosa, Minas Gerais 36570-000, Brazil

4 Laboratory of Molecular Immunovirology, Federal University of Viçosa, Av. PH Rolfs, s/n, Campus da UFV, Viçosa, Minas Gerais 36570-000, Brazil

5 Department of General Biology, Federal University of Viçosa, Av. PH Rolfs, s/n, Campus da UFV, Viçosa, Minas Gerais 36570-000, Brazil

6 Department of Microbiology, Federal University of Viçosa, Av. PH Rolfs, s/n, Campus da UFV, Viçosa, Minas Gerais 36570-000, Brazil

7 Public Health Agency of Canada, Laboratory for Foodborne Zoonoses, Guelph, Ontario N1G 3 W4, Canada

8 Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario N1G 2 W1, Canada

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BMC Genomics 2014, 15:7  doi:10.1186/1471-2164-15-7

Published: 3 January 2014

Abstract

Background

Phages infecting spoilage microorganisms have been considered as alternative biocontrol agents, and the study of their genomes is essential to their safe use in foods. UFV-P2 is a new Pseudomonas fluorescens-specific phage that has been tested for its ability to inhibit milk proteolysis.

Results

The genome of the phage UFV-P2 is composed of bidirectional modules and presented 75 functionally predict ORFs, forming clusters of early and late transcription. Further genomic comparisons of Pseudomonas-specific phages showed that these viruses could be classified according to conserved segments that appear be free from genome rearrangements, called locally collinear blocks (LCBs). In addition, the genome organization of the phage UFV-P2 was shown to be similar to that of phages PaP3 and LUZ24 which have recently been classified as a Luz24likevirus.

Conclusions

We have presented the functional annotation of UFV-P2, a new Pseudomonas fluorescens phage. Based on structural genomic comparison and phylogenetic clustering, we suggest the classification of UFV-P2 in the Luz24likevirus genus, and present a set of shared locally collinear blocks as the genomic signature for this genus.