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Functional and comparative genome analysis of novel virulent actinophages belonging to Streptomyces flavovirens

Overview of attention for article published in BMC Microbiology, March 2017
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Title
Functional and comparative genome analysis of novel virulent actinophages belonging to Streptomyces flavovirens
Published in
BMC Microbiology, March 2017
DOI 10.1186/s12866-017-0940-7
Pubmed ID
Authors

A. Sharaf, F. Mercati, I. Elmaghraby, R. M. Elbaz, E. M. Marei

Abstract

Next Generation Sequencing (NGS) technologies provide exciting possibilities for whole genome sequencing of a plethora of organisms including bacterial strains and phages, with many possible applications in research and diagnostics. No Streptomyces flavovirens phages have been sequenced to date; there is therefore a lack in available information about S. flavovirens phage genomics. We report biological and physiochemical features and use NGS to provide the complete annotated genomes for two new strains (Sf1 and Sf3) of the virulent phage Streptomyces flavovirens, isolated from Egyptian soil samples. The S. flavovirens phages (Sf1 and Sf3) examined in this study show higher adsorption rates (82 and 85%, respectively) than other actinophages, indicating a strong specificity to their host, and latent periods (15 and 30 min.), followed by rise periods of 45 and 30 min. As expected for actinophages, their burst sizes were 1.95 and 2.49 virions per mL. Both phages were stable and, as reported in previous experiments, showed a significant increase in their activity after sodium chloride (NaCl) and magnesium chloride (MgCl2.6H2O) treatments, whereas after zinc chloride (ZnCl2) application both phages showed a significant decrease in infection. The sequenced phage genomes are parts of a singleton cluster with sizes of 43,150 bp and 60,934 bp, respectively. Bioinformatics analyses and functional characterizations enabled the assignment of possible functions to 19 and 28 putative identified ORFs, which included phage structural proteins, lysis components and metabolic proteins. Thirty phams were identified in both phages, 10 (33.3%) of them with known function, which can be used in cluster prediction. Comparative genomic analysis revealed significant homology between the two phages, showing the highest hits among Sf1, Sf3 and the closest Streptomyces phage (VWB phages) in a specific 13Kb region. However, the phylogenetic analysis using the Major Capsid Protein (MCP) sequences highlighted that the isolated phages belong to the BG Streptomyces phage group but are clearly separated, representing a novel sub-cluster. The results of this study provide the first physiological and genomic information for S. flavovirens phages and will be useful for pharmaceutical industries based on S. flavovirens and future phage evolution studies.

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Geographical breakdown

Country Count As %
Unknown 20 100%

Demographic breakdown

Readers by professional status Count As %
Student > Master 4 20%
Researcher 3 15%
Student > Ph. D. Student 3 15%
Student > Bachelor 2 10%
Student > Doctoral Student 1 5%
Other 3 15%
Unknown 4 20%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 7 35%
Agricultural and Biological Sciences 5 25%
Immunology and Microbiology 1 5%
Chemistry 1 5%
Unknown 6 30%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 27 September 2017.
All research outputs
#20,448,386
of 23,003,906 outputs
Outputs from BMC Microbiology
#2,701
of 3,208 outputs
Outputs of similar age
#270,721
of 310,530 outputs
Outputs of similar age from BMC Microbiology
#46
of 54 outputs
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