FIG 1.

Genomic characterization of vΔUL47 and vΔUL48. (A) Restriction fragment length polymorphism analysis of BACs pRB1B, pΔUL47, and pΔUL48. Purified BAC DNA was digested with XhoI and examined for the absence of an 1,818-bp band indicative of the deletion of the UL47 and UL48 genes (green arrows). The absence of the larger UL47 gene is also shown by the shift of a 3.8-kb band to 3.2 kb (red arrows). Note that this shift is absent in the vΔUL48 BAC. (B and C) List of all differences observed between the sequence of pRB1B and pΔUL47 (B) and pΔUL48 (C). Many of the putative mutations listed here are common artifacts linked to the multiple homopolymeric repeats present in the genome. The deletions in UL36 listed at positions 78879 in pΔUL48 and 78993 in pΔUL47 were absent from the corresponding BAC, as assessed by Sanger sequencing of these regions. Note that many mutations being present in inverted repeated regions, including insertions of telomeric sequences in a-like sequences, they are present twice. ND, not determined; Hyp protein, hypothetical protein; SNP, single nucleotide polymorphism. *, RB-1B reference genome accession number EF523390.