Genomic DNA Labeling Protocol
We typically use 0.5ug of E. coli genomic DNA in a labeling reaction for each hybridization. The genomic DNA was fragmented to 500 to 1000bps before labeling. The following protocol should produce enough labeled probe for 8 hybridizations.
For labeling 4ug Genomic DNA:
Genomic DNA
1.9ug/ul
2.1ul
Random Hexamer
5mg/ml
1ul
H2O
14.9
Total
20ul
Heat to 95C for 5min, place on ice for 5min
Labeling
DNA Mix
20ul
dAGC
5mM each
5ul
EcoPol Buffer
10x
5ul
CyDye-dUTP
1mM
2ul
H2O
17ul
Klenow Fragment
50u/ul
1ul
Total
20ul
Incubate at 37°C for 3.5 hours
Add 2.5ul 0.5M EDTA to stop reaction