Genomic and proteomic features of mycobacteriophage SWU1 isolated from China soil

Abstract

Mycobacteriophage SWU1 is a newly isolated phage from soil sample collected in Sichuan province, China using Mycobacterium smegmatis mc2155 as host. Plaque, phage morphology and one-step growth curve were characterized. The complete genomic sequence of phage SWU1 was determined by shotgun sequencing. The ends of SWU1 were determined. Structural proteins of SWU1 were analyzed by NanoLC-ESI-MS/MS. Seven ORFs were identified as structural protein encoded by SWU1 genome. The genetic basis underlying the SWU1 plaque was explored using comparative genomics. Prophages homologous to SWU1 were identified in two pathogens, Segniliparus rugosus ATCC BAA-974 and Mycobacterium rhodesiae JS60. Genus Segniliparus is a member of the order Corynebacteriales. To our knowledge, this is the first report of Mycobacterium prophages in different genera.

The Global Reciprocal Reprogramming between Mycobacteriophage SWU1 and Mycobacterium Reveals the Molecular Strategy of Subversion and Promotion of Phage Infection

“…One-step growth analysis as described in prior report (Fan et al, 2015 ) revealed that the eclipse period of SWU1 was about 30 min, and burst period about 270 min. To define the gene expression of SWU1 during infection, we used RNA-seq to determine transcription profiles (Figure 1A ) in early, middle, and late phage of SWU1 infections, namely 30, 180, and 315 min after absorption, respectively, according to the one-step growth curve.…”

Mycobacteriophage putative GTPase-activating protein can potentiate antibiotics

“…The E. coli DH5α used for molecular cloning was grown in the Luria-Broth (LB) medium at 37°C. Mycobacteriophage SWU1 (GenBank ID: JF946695) from Sichuan Province, China, was isolated by using M. smegmatis mc 2 155 as the host (Fan et al 2012;Fan et al 2015). Antibiotics (Sigma-Aldrich) were added at the following indicated concentrations: ampicillin, 100 μg/ml; kanamycin, 50 μg/ml for E. coli and 20 μg/ml for M. smegmatis mc 2 155.…”

A Review on Mycobacteriophages: From Classification to Applications

“…Interestingly, SWU1 forms bull’s eye-like plaques on M. smegmatis mc 2 155 lawn, and plaques are distinguished from adjacent ones via a line-like feature. Multiple sequence alignment in DNAman and NCBI megablast comparison revealed that DNA sequences in SWU1 and L5 mycobacteriophages are highly similar by 94.66% and 97%, respectively [ 80 ]. However, they are morphologically detectable.…”

“…Lytic [80] Yes [80] Che12/Siphoviridae [111] Diagnosis of tuberculosis [82] A/A2 [61] Soil [82] 62.9 [97] M. tuberculosis H37Rv [112] and M. smegmatis mc 2 155 [82] Temperate [82] Yes [97] DS6A/Siphoviridae [109] Formation of plaque only on MTBC, loss of acid fastness, generation of shuttle plasmid [62] Singleton [3] Unknown 68.4 [63] M. tuberculosis H37Rv [113], M. tuberculosis complex [63] Temperate Yes [114] CRB2/Siphoviridae [76] Non-transducing profile; ORFs in its genome have a probable function [76] B/B9 [76] Unknown 69.78 [76] M. smegmatis mc 2 155 and M. tuberculosis Lytic [76] Yes [76] vB_MapS_FF47/Siphoviridae [5] Lytic activity, no virulent or temperate genes [5] Unpublished Bovine feces [5] 58.6 [5] MAP ATCC19698 [5] and M. smegmatis mc 2 155 [5] Lytic [5] Yes [5] AN3/Siphoviridae [115] Used for typing of M. avium intracellular scrofulaceum [116] Unpublished Unknown Unpublished M. smegmatis mc 2 155 [115] and M. avium intracellular scrofulaceum [116] Unpublished Yes [115] AN9/Siphoviridae [117] Used for typing of M. avium intracellular scrofulaceum [116] Unpublished Unknown Unpublished M. smegmatis mc 2 155…”