Fig. 3

Genome-wide transcription and replication activity along the genome. a Transcriptional activity across Chr1. RNA-seq reads were mapped along the Chr1 of V. cholerae. The histograms represent mapped read normalized to the genome-wide total volume along both replichores in ter1-ori1-ter1 order. Normalized expression values (NEV) are shown along the distance from ori1 in megabase pair which is shown on top. Each graph represents one strain: parental (purple), S10Tnp-510 (green), and S10TnpC2+479 (blue). The plots of the whole strain set are in Fig. S4. The 400-Kbp flanking ori1 are highlighted in orange. The arrow indicates the peak corresponding to the S10 locus. b MFA profiles are obtained by plotting the Log₂ frequency of reads (normalized against reads from a stationary phase of a parental strain control) at each position in the genome as a function of the relative position on the V. cholerae main chromosome with respect to ori1 (to reflect the bidirectional DNA replication) using 1000-bp windows. Results for the parental (purple), the S10Tnp+166 (black), the S10Tnp-510 (green), and the S10TnpC2+479 (blue) movants show their differences in read coverage. The arrow highlights the S10 position in the abscissa, reflecting dosage alterations. c S10 relocation effect on replication dynamics was quantified by averaging the obtained slope for each replichore for at least 4 independent MFA experiments in fast-growing conditions. Results are expressed as the mean slope with 95% CI. Statistical significance was analyzed by one-way ANOVA two-tailed test. Then, Tukey’s test was done to compare the mean values obtained for each strain. Statistically different slopes are indicated as follows: **p < 0.01 and ***p < 0.001