Research Article

Lentiviral Protein Transduction with Genome-Modifying HIV-1 Integrase-I-PpoI Fusion Proteins: Studies on Specificity and Cytotoxicity

Figure 2

ChIP-sequencing-mapped IN-chromatin interactions at (a) the rDNA repeat area, (b) within the 28S rRNA gene, and (c) in the non-rDNA-localized genomic I-PpoI sites (±different window sizes around the I-PpoI site). In (a) and (c), the results are shown as a percentage of , where indicates the numbers of unique interactions aligning to the genome version GRCh37/Hg19. In (b), the results are shown as a percentage of all interactions aligning to the ChrUn_gl000220. “Random” represents the theoretical probability of an interaction occurring in one of the ~600 copies 43 kb rDNA repeats, in 28S RNA inside ChrUn_gl000220, or into any of the 15 bp I-PpoI recognition sites with window sizes of ±250 bp, 2.5 kb, or 25 kb surrounding the I-PpoI site. Statistical significances are calculated using the chi-square ((a) and (c)) and Fisher’s exact test ((b)). Statistical analyses are conducted against wt IN (random value is not included in statistical analyses; shown for illustrative purposes only). In (a), the differences between wt IN and all the IN-I-PpoI-containing groups are significant ( ). The situation is the same in (b) and (c) ( ), except for the IN-I-PpoIH78A, which has a value of 0.0174 in (b) and zero interactions localizing within the non-rDNA I-PpoI site (±0 bp) in (c). ; to ; to .
(a) rDNA
(b) 28S RNA gene
(c) Non-rDNA I-PpoI sites