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. 2003 Jul;85(1):402–408. doi: 10.1016/S0006-3495(03)74484-1

FIGURE 3.

FIGURE 3

Primer extension assay of permanganate-treated DNA. The products of primer extension were electrophoresed with control sequence ladders. Permanganate oxidation was performed in vitro (A and B) and in situ (C and D). (A and C) The results with M13 forward primer; (B and D) M13 reverse primer. Asterisks and arrows at the left of the panels indicate the positions of the inverted repeat symmetry. Summary of the susceptive sites (indicated by arrowheads) for permanganate oxidation is shown at the bottom. (A and B) Lanes 1 and 4, 1 min permanganate reaction; lanes 2 and 5, 2 min permanganate reaction; lanes 3 and 6, 4 min permanganate reaction. Reactions in the neutral buffer are lanes 1, 2, and 3; reactions in acidic buffer are lanes 4, 5, and 6. Lanes T, C, G, and A are control sequence ladders. Although the permanganate reacted with DNA more efficiently in the acidic conditions (lanes 4, 5, and 6), the profile of permanganate oxidation was essentially identical in both neutral and acidic conditions. (C and D) Lane 1, permanganate reaction with the mid-log growth phase (5 h culture) of E. coli cells; lane 2, permanganate reaction with the late-log growth phase (8 h culture) of E. coli cells. Lanes T, C, G, and A are control sequence ladders.