Phage gene expression in resistant cyanobacteria. (A–C) Early gene transcription of generalist T4-like cyanophages in resistant Prochlorococcus (Pro.; green) and Synechococcus (Syn.; orange) strains relative to a sensitive Synechococcus strain (blue) (n = 3). Results with specialist cyanophages are shown in SI Appendix, Fig. S1. (D–H) Phage transcript levels of 2 genes in each transcription cluster: early (red), middle (green), and late (blue) genes are shown for resistant cyanobacteria relative to those in a sensitive cyanobacterium (Cyanobact.) (n = 3). The sensitive strain was Synechococcus WH8102 for the 3 generalist phages (Syn9, P-TIM40, and S-TIM4) and Prochlorococcus MED4 and MIT9515 for the specialist P-SSP7 and P-TIM68 phages, respectively. (I and J) Numbers of phage proteins detected by MS for 2 generalist phages are shown for interactions with a sensitive and multiple resistant cyanobacteria (n = 3). Unclassified, proteins for S-TIM4 without sequence homology to Syn9. Color-coding of strains is as in A–C. Fewer phage proteins were found in all expression classes and interactions in resistant cyanobacteria relative to the sensitive strain (P ≤ 0.05), except for Syn9 early proteins in Synechococcus WH5701 (P = 0.5), as determined from the Mann–Whitney U test.