Fig. 3: Comparison of VIP-Seq quantification with plaque- and epifluorescent microscopy counts. | The ISME Journal

Fig. 3: Comparison of VIP-Seq quantification with plaque- and epifluorescent microscopy counts.

From: Widespread and largely unknown prophage activity, diversity, and function in two genera of wheat phyllosphere bacteria

Fig. 3

A Comparison of phage titres for E. coli virulent phage T4, E. aphidicola strain B01_5 SIPs, E. sp strain W01_1 SIPs, and P. trivialis strain W02_4 SIPs. Prophage titres were measured using VIP-Seq, epifluorescence microscopy, and plaque counts using susceptible strains B01.10 (for B01.5 SIPs), and B01.5 (for W01.1 SIPs). W02_4 supernatant did not plaque on any tested strains. For VIP-Seq, supernatant from B01_5, W01_1, and W02_4 was concentrated using Amicon filters prior to DNA extraction, unlike the higher-titre T4 stock. Each error bar represents the standard deviation of three technical replicates. B−D Read coverage plots for VIP-Seq libraries built on untreated overnight cultures for B01_5, W01_1, and W02_4 respectively. Prophage regions were enlarged and collated for B01_5 and W01_1 (preserving relative scale), while the whole genome is shown in W02_4. Prophages Glittertind_A and Romsdalseggen_A are boxed in red, indicating they are the plaquing SIPs enumerated in (A).

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