RNAseq analysis.

RNA was isolated from phage-infected cultures at an OD₆₀₀ of ∼0.8 (multiplicity of infection [MOI] = 3.0) at 30 min and 120 min postinfection. Cultures were lysed with TRIzol reagent (Gibco/BRL) (10-min incubation) followed by four rounds of bead beating. RNA samples were DNase treated with Turbo DNA-free (Ambion), and rRNA was depleted using Ribo-Zero kits (Illumina); cDNA library preparation was performed using a TruSeq stranded RNAseq kit (Illumina). The fastq reads were analyzed as described previously (10), and was coverage viewed and results presented with the Integrative Genomics Viewer (49). RNAseq data sets, with additional method details, have deposited in the Gene Expression Omnibus (GEO) with accession number GSE121959.