synphage: a pipeline for phage genome synteny graphics focused on gene conservation.

Motivation: Visualization and comparison of genome maps of bacteriophages can be very effective, but none of the tools available on the market allow visualization of gene conservation between multiple sequences at a glance. In addition, most bioinformatic tools running locally are command line only, making them hard to setup, debug, and monitor.

Results: To address these motivations, we developed synphage, an easy-to-use and intuitive tool to generate synteny diagrams from GenBank files.

Ampicillin Treatment of Intracellular Triggers Formation of Persistent, Drug-Resistant L-Form Cells.

is an opportunistic intracellular pathogen causing an infection termed listeriosis. Despite the low incidence of listeriosis, the high mortality rate in individuals at risk makes this bacterium one of the most dangerous foodborne pathogens. Reports about a relapse of infection after antibiotic treatment suggest that the bacteria may be able to evade antibiotic treatment and persist as a dormant, antibiotic-tolerant subpopulation.

Myovirus V22 Represents a New Genus of Marine Bacteriophages Requiring a Tail Fiber Chaperone for Host Recognition.

Marine phages play a variety of critical roles in regulating the microbial composition of our oceans. Despite constituting the majority of genetic diversity within these environments, there are relatively few isolates with complete genome sequences or in-depth analyses of their host interaction mechanisms, such as characterization of their receptor binding proteins (RBPs). Here, we present the 92,760-bp genome of the targeting phage V22.

A Proteogenomic Resource Enabling Integrated Analysis of Genotype-Proteotype-Phenotype Relationships.

is an opportunistic foodborne pathogen responsible for listeriosis, a potentially fatal foodborne disease. Many different strains and serotypes exist, but a proteogenomic resource that bridges the gap in our molecular understanding of the relationships between the genotypes and phenotypes via proteotypes is still missing. Here, we devised a next-generation proteogenomics strategy that enables the community to rapidly proteotype strains and relate this information back to the genotype.