TG and CG samples were subjected to PCR amplification for human chromosome 18 (to ensure the amplifiability of the DNA) and for HSV-1 sequences. A human genomic primer set
(Table 2) was used to amplify a 150-bp sequence of human chromosome 18. Primers encoding a single-copy, noncoding region of chromosome 18, D18S1259 (sequences obtained from Robin Leach, Department of Cellular and Structural Biology) were constructed by the Center for Advanced DNA Technologies, UTHSCSA, San Antonio, Texas. The HSV-1 primer set (from the U
L30 encoding the HSV-1 DNA polymerase;
Table 2 ) used in the amplification of viral DNA from samples and controls resulted in a 90-bp product.
20 The HSV-1 primer set did not amplify human CMV, murine CMV, varicella zoster virus, or Epstein-Barr virus DNA sequences. The minimum level of detection of the HSV-1 primer set was 20 pg (6083 copies) of HSV-1 DNA (not shown).
PCR reaction conditions for the chromosome 18 primer set were as follows: initial denaturation was at 95°C for 5 minutes followed by an annealing cycle at 55°C for 1 minute and a primer extension cycle at 72°C for 1 minute. Forty-four additional identical cycles were performed, except that the denaturation cycle was limited to 1 minute. PCR reaction conditions for the HSV-1 primer set were as follows: initial denaturation was at 94°C for 5 minutes, followed by a 75-second annealing cycle at 55°C and a primer extension period for 95 seconds at 72°C (with a 2-second subsequent cycle autoextension). Twenty-nine additional identical cycles were performed, except that the denaturation cycle was limited to 75 seconds. A negative control (1× TE; 10 mm Tris-HCl, 1 mm EDTA, pH 8.0) was included in every TG and CG PCR assay. In addition to the negative control, 100 pg/μL HSV-1 (KOS strain in 1× TE) was also used in every TG and CG PCR assay as a positive control.
PCR products from CG samples were separated electrophoretically in 1.5% agarose gels and PCR products from TG samples were separated in 4% 3:1 agarose gels (NuSieve Plus; FMC Bioproducts, Rockland, ME) containing 0.75 μg/mL ethidium bromide (GibcoBRL, Gaithersburg, MD) in 0.5× Tris-borate EDTA buffer (TBE; GibcoBRL). Gels were photographed and blotted to nylon membranes (Hybond-N+; Amersham Pharmacia Biotech, Piscataway, NJ). The identity of PCR products was confirmed by hybridization to digoxigenin-labeled probes. Before hybridization, the filters containing the bound DNA were soaked in a prehybridization solution (125.0 mL 20× SSC [final concentration, 5×], 5.0 g blocking reagent [final concentration 1.0% wt/vol; Roche Molecular Biochemicals], 0.5 g N-lauryl sarcosine [final concentration 0.1% wt/vol], 1.0 mL 10% SDS [final concentration 0.02%], and 368.5 mL glass-distilled water [GDW] at 42°C) for 1 hour. Afterward, the membranes were soaked overnight in this same solution to which 75 μL (1 μg/μL) of the appropriate (HSV-1 or D18S1259) digoxigenin-labeled probe was added. Both probes bound DNA sequences internal to the PCR primers, and both probes were labeled with digoxigenin-11-dUTP with terminal deoxynucleotidyl transferase. The membranes were washed, and the probes were allowed to bind to anti-digoxigenin-alkaline-phosphatase-conjugated monoclonal antibodies. Visualization of the labeled-probes bound to the target sequences of DNA was achieved using 75 mg/mL nitroblue tetrazolium salt (NBT) and 50 mg/mL 5-bromo-4-chloro-3-indolyl phosphate toluidine salt (BCIP; Sigma-Aldrich Co., St. Louis, MO).