title: Characterization of Functional Prophages in Clostridium difficile.
abstract: Bacteriophages (phages) are present in almost, if not all ecosystems. Some of these bacterial viruses are present as latent "prophages," either integrated within the chromosome of their host, or as episomal DNAs. Since prophages are ubiquitous throughout the bacterial world, there has been a sustained interest in trying to understand their contribution to the biology of their host. Clostridium difficile is no exception to that rule and with the recent release of hundreds of bacterial genome sequences, there has been a growing interest in trying to identify and classify these prophages. Besides their identification in bacterial genomes, there is also growing interest in determining the functionality of C. difficile prophages, i.e., their capacity to escape their host and reinfect a different strain, thereby promoting genomic evolution and horizontal transfer of genes through transduction, for example of antibiotic resistance genes. There is also some interest in using therapeutic phages to fight C. difficile infections.The objective of this chapter is to share with the broader C. difficile research community the expertise we developed in the study of C. difficile temperate phages. In this chapter, we describe a general "pipeline" comprising a series of experiments that we use in our lab to identify, induce, isolate, propagate, and characterize prophages. Our aim is to provide readers with the necessary basic tools to start studying C. difficile phages.
authors: Département de Microbiologie et d'infectiologie, Faculté de Médecine et des Sciences de la Santé, Université de Sherbrooke, 3201 rue Jean Mignault, Sherbrooke, QC, Canada, J1E 4K8.
authors: Ognjen
authors: O
authors: Sekulović
authors: Département de Microbiologie et d'infectiologie, Faculté de Médecine et des Sciences de la Santé, Université de Sherbrooke, 3201 rue Jean Mignault, Sherbrooke, QC, Canada, J1E 4K8. Louis-Charles.Fortier@USherbrooke.ca.
authors: Louis-Charles
authors: LC
authors: Fortier
mesh_terms: D016360:Clostridioides difficile / Q000235:genetics / Q000821:virology*; D004279:DNA, Viral / Q000235:genetics* / Q000378:metabolism; D022761:Gene Transfer, Horizontal; D016680:Genome, Bacterial; D016679:Genome, Viral; D059014:High-Throughput Nucleotide Sequencing; D058507:Host Specificity; D008242:Lysogeny; D046529:Microscopy, Electron, Transmission; D016685:Mitomycin / Q000494:pharmacology; D017900:Myoviridae / Q000145:classification / Q000235:genetics / Q000254:growth & development / Q000302:isolation & purification; D039002:Prophages / Q000145:classification / Q000235:genetics* / Q000254:growth & development / Q000302:isolation & purification; D017906:Siphoviridae / Q000145:classification / Q000235:genetics / Q000254:growth & development / Q000302:isolation & purification; D014161:Transduction, Genetic; D014466:Ultraviolet Rays; D010948:Viral Plaque Assay; D014775:Virus Activation / Q000187:drug effects / Q000528:radiation effects
chemical_list: D004279:DNA, Viral; D016685:Mitomycin
keywords: Clostridium difficile; Electron microscopy; Lysogen; Mitomycin C; Prophage; Temperate phage