Fig. 4

Intra-individual CRISPR array diversity. Each numbered node represents a single, unique spacer, and directed edges represent the ordering of spacers in the CRISPR arrays. (A) Spacer graph of Type III-B CRISPR arrays from individual S01 isolates, consisting of 10 time points, showing low spacer diversity. (B) Spacer graph of Type II-C CRISPR arrays for individual S02. Green nodes are unique spacers identified from time point 1 (S02-0001), purple nodes are from time point 24 (S02-0024), and white nodes represent spacers found in multiple time points. (C) and (D) are the spacer graph, and the pileup view of five representative CRISPR arrays found in five isolates from individual S06, respectively. The five isolates were from two time points, including four from time point S06-0001 and one from time point S06-0122. The arrays involving spacers shown in green are unique to S06-0001 time point isolates, whereas the arrays involving spacers shown in open ovals are common to isolates from both time points. The numbers included in red boxes in figures A-C represent the number of isolates contributing to each major form of CRISPR arrays; for example, 1, 2, and 33 isolates contributed to the three forms of Type II-C CRISPR arrays in individual S06 shown in figure C, respectively