Still Something to Discover: Novel Insights into Escherichia coli Phage Diversity and Taxonomy

Viruses

Manfred Rohde¹  MarkJ. van Raaij²  AndrewM. Kropinski³  JanP. Meier-Kolthoff⁴  ImkeH. E. Korf⁴  Johannes Wittmann⁴  Manfred Nimtz⁵  EvelienM. Adriaenssens⁶ 

[1] Central Facility for Microscopy, Helmholtz-Centre for Infection Research (HZI), 38124 Braunschweig, Germany;Department of Macromolecular Structure, Centro Nacional de Biotecnologia CNB-CSIC, 28049 Madrid, Spain;Departments of Food Science and Pathobiology, University of Guelph, Guelph, ON N1G 2W1, Canada;Leibniz Institute DSMZ–German Collection of Microorganisms and Cell Cultures, 38124 Braunschweig, Germany;Protein Analytics Platform, Helmholtz-Centre for Infection Research (HZI), 38124 Braunschweig, Germany;Quadram Institute Bioscience, Norwich Research Park, Colney Lane, Norwich NR4 7UQ, UK;

关键词: bacteriophage;    Escherichia coli;    taxonomy;    diversity;    genomics;   

DOI  :  10.3390/v11050454

来源: DOAJ

【 摘 要 】

The aim of this study was to gain further insight into the diversity of Escherichia coli phages followed by enhanced work on taxonomic issues in that field. Therefore, we present the genomic characterization and taxonomic classification of 50 bacteriophages against E. coli isolated from various sources, such as manure or sewage. All phages were examined for their host range on a set of different E. coli strains, originating, e.g., from human diagnostic laboratories or poultry farms. Transmission electron microscopy revealed a diversity of morphotypes (70% Myo-, 22% Sipho-, and 8% Podoviruses), and genome sequencing resulted in genomes sizes from ~44 to ~370 kb. Annotation and comparison with databases showed similarities in particular to T4- and T5-like phages, but also to less-known groups. Though various phages against E. coli are already described in literature and databases, we still isolated phages that showed no or only few similarities to other phages, namely phages Goslar, PTXU04, and KWBSE43-6. Genome-based phylogeny and classification of the newly isolated phages using VICTOR resulted in the proposal of new genera and led to an enhanced taxonomic classification of E. coli phages.

【 授权许可】

Unknown