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This procedure has been optimized for the use of oligonucleotide probes or short "fragmented" probes i.e. hydrolzed RNAs or nick translated small restriction fragments.


  1. Materials

    1. 100X Denhardts
      Final Conc.
      2.0 gram BSA 2%
      2.0 gram Ficoll 2%
      2.0 gram PVP-360 2%
      100ml

    2. 10% SDS
      10 grams per 100ml

    3. 20X SSC
      Final Conc.
      175.3 grams NaCl 3M
      88.2 grams Na citrate 0.3M
      per liter Adjust to pH 7 with 10N NaOH

    4. Hybridization fluid
      Final Conc.
      1ml 100X Denhardt's 1X
      2ml 1M NaH2PO4, pH7.6 20mM
      200ul 500mM DTT 1mM
      25ml 20X SSC 5X
      10ml 1mg/ml poly(A) 100ug/ml
      20ml 50% dextran sulfate 10%
      100ml (Add SDS to 0.1% when using an RNA probe.)

    5. Wash sol'n #1 - SSC, 0.1% SDS
      SSC SDS
      Wash sol'n #1 2X 0.1%
      Wash sol'n #2 1X 0.1%
      Wash sol'n #3 0.1X 0.1%

  2. Methods

    1. Put the filter to be hybridized to in a seal-a-meal bag, & add 5-10ml (10ml, unless the filter is small) of hybridization sol'n. Squeeze out all the bubbles & seal. Sometimes it helps to "roll" out the bubbles with a pipette. Be SURE that the bag is well sealed & won't leak!
    2. Incubate at 65C for 1-2hr. This is best done in a water bath, & if the filter is vertically oriented the bubbles will float to the top, away from the filter. No shaking is required.
    3. Cut off a corner of the bag & add the radio-labeled probe. If the probe is double-stranded DNA, preheat the probe in a boiling water bath for 2 min., & quick chill on ice before adding to the bag. Hybridize at 65C overnight.
    4. Wash twice for 5 min. at RT in 40ml wash sol'n #1 at RT for 5min. each. This is done by cutting off a corner of the bag & draining all of the hybridization sol'n away (use a pipette to roll out the last of the sol'n) & then refilling the bag, via pipette or syringe, with the wash sol'n, & incubating. Check the filter with a geiger-counter; if the filter seems "cold", stop at this point & put the filter on film (see below, step 8).
    5. Wash with 20ml Wash sol'n #2 at 65C for 15 min.
    6. Wash with 20ml Wash sol'n #3 at 65C for 10 min.
    7. Drain the last wash sol'n, & use a pipette to "roll-out" the last of the fluid, then reseal the bag without trapping air.
    8. Autoradiograph as usual.



Pace (Dirk) , personal communication
Amersham Nytran specification sheet


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