Supplementary information
From the following article:
Tropism switching in Bordetella bacteriophage defines a family of diversity-generating retroelements
Sergei Doulatov, Asher Hodes, Lixin Dai, Neeraj Mandhana, Minghsun Liu, Rajendar Deora, Robert W. Simons, Steven Zimmerly and Jeff F. Miller
Nature 431, 476-481(23 September 2004)
doi:10.1038/nature02833
Supplementary Figure 1
This figure shows the organization of the BPP-1 genomic region containing the tropism switching cassette and the results of gene deletion experiments. Deletions in only three genes – brt, atd, and mtd – abolish tropism switching, defining the extent of the cassette.
Supplementary Figure 2
This figure shows the results of adenine mutagenesis of TR. Addition of an adenine in TR, confers a corresponding site of variability to VR, while removal of TR adenines eliminates variability. Frequencies of variation at adenines are also shown.
Supplementary Figure 3
This figure shows the results of immunofluorescence experiments with purified BPP-1 Mtd protein and Bordetella bacteria. Mtd binds to Bvg+ and Prn-expressing Bvg- bacteria, but not Bvg- or Bvg+ 
prn bacteria, demonstrating that Mtd binding specificity determines phage tropism.
Supplementary Figure 4
This figure shows the results of in vitro variability assays with BPP-1 containing deletions in TR and VR. While 3' VR deletion eliminates variability (Fig. 1c), 5' deletion (61 phage) does not, indicating that the 5' boundary of homing is not precisely defined.
Supplementary Figure 5
This figure shows tropism switching frequencies of BPP- and BMP-MS1, MS2 and MS3 phages (Fig. 2). Deletion of recA has no effect on tropism switching.
Supplementary Figure 6
This figure shows the TR-VR nucleotide sequence alignments from each DGR. The differences between TRs and VRs suggest that adenine mutagenesis and homing to the 3' of VR may be conserved mechanisms among DGRs.
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