Yeast Genomic DNA Digestion and Analysis
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Corresponding Organization : University of Kansas Medical Center
Protocol cited in 17 other protocols
Variable analysis
- Digestion of yeast genomic DNA overnight at 37°C with 5 units each of BamHI and AscI (New England Biolabs, NEB, Beverly, MA, USA)
- Production of a 3.2 kb BamHI wild-type sequence fragment (Figure 1B), or a 2.9 kb mutant fragment, resulting from introduction of the additional AscI site (Figure 1C)
- RNAse cocktail (0.25 μl, Ambion, Inc., Austin, TX, USA) was included in the digests to remove contaminating RNA
- DNA was fractionated on a 0.8% Seakem GTG agarose gel (BMA, Rockland, ME, USA) in 0.5X TBE (44.5 mM Tris, 44.5 mM boric acid, 1 mM EDTA)
- DNA was blotted onto positively charged ZetaProbe GT nylon membrane (Bio-Rad, Hercules, CA, USA) in 10X SSC (1.5 M NaCl, 0.15 M sodium citrate, pH 7.0)
- The blot was hybridized using a standard protocol with 1 × 10^6 cpm probe per ml of hybridization solution
- The probe was a 683 bp ScaI-SfiI fragment located upstream of 5'HS5, and was radiolabeled using a DecaPrime II Kit (Ambion) in the presence of α-32P-dCTP (Amersham Pharmacia Biotech, Pisscataway, NJ, USA)
- Following two 15-minute washes [5% SDS, 20 mM sodium phosphate (pH 7.2)] the blot was exposed on a phosphorimager screen for three hours
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