Project description:YerA41 is a myoviridae bacteriophage that was originally isolated due its ability to infect Yersinia ruckeri bacteria, the causative agent of enteric redmouth disease of salmonid fish. Several attempts to determine its genomic DNA sequence using traditional and next generation sequencing technologies failed, indicating that the phage genome is modified such way that it is an unsuitable template for PCR amplification and sequencing. To determine the YerA41 genome sequence we isolated RNA from phage-infected Y. ruckeri cells at different time points post-infection, and sequenced it. The host-genome specific reads were substracted and de novo assembly was performed on the unaligned reads.
Project description:Given the gut microbiota involve aging processing, we performed comparative analysis of gut bacteriophage between older and young subjects using next-generation sequencing (NGS). In our previous study, we found that the Ruminococcaceae is higher in aged subjects comparing to young one. To identify the bacteriophage targeting to the Ruminococcaceae, we also access the composition of phage in the Ruminococcaceae (ATCC, TSD-27) after incubated with human stool samples. The Lactobacillus (ATCC, LGG) targeting phage was used as the control. The virome sequencing analysis using NGS indicated that Myoviridae are high enrich in young subjects and predominate in TSD-27 targeting phage.
Project description:Capsule is a critical virulence factor that significantly contributes to phage resistance in Acinetobacter baumannii. To investigate the interplay between capsule-based defense and phage predation, we applied phage selection pressure to A. baumannii to generate isogenic phage-resistant mutants. Utilizing transcriptomic analysis, we subsequently characterized the global alterations in the biological regulatory network of a capsule-deficient, phage-resistant mutant in comparison to its parental strain. This approach allowed us to identify key transcriptional reprogramming events associated with the acquisition of phage resistance in the absence of a functional capsule.
