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      Cryptococcus neoformans DNA Extraction Method

      Amy Gladfelter

      Published: 2023-06-02 DOI: 10.17504/protocols.io.4r3l2522jl1y/v1
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      Abstract

      Extraction method to obtain genomic DNA from Cryptococcus neoformans.

      Before start

      Attachments

      DNAextraction_Southerns.pdf

      Steps

      1.

      Grow a 50mL YPD culture overnight (16h 0m 0s), shaking at 30°C.

      2.

      Pellet cells in tabletop centrifuge in a 50 ml disposable tube.

      Note
      Optional: wash pellet with water and repeat spin.

      3.

      Freeze cells at -20°Cto -80°C for <30 min, then dry in a freeze drying machine.

      4.

      Add the equivalent of 3mL to 5mLof 2 mm glass beads and vortex/shake until the cell pellet is broken and a fine powder is created.

      5.

      In fume hood , add 10mL CTAB extraction buffer (see Guidelines) and mix.

      6.

      Incubate at65°C for 0h 30m 0s.

      7.

      In fume hood , add 10mL chloroform and gently mix for approximately 0h 1m 0s.

      8.

      Spin in a table top centrifuge for 0h 10m 0s (2,500 – 3,000 rpm).

      9.

      Remove supernatant (c. 7 ml) and add to an equal volume of isopropanol in a 15 ml disposable tube.

      10.

      Gently rock back and forward to mix.

      If the DNA precipitates in strands and clumps, spool out with a glass pipette and transfer to eppendorf containing 1mL70% ethanol.

      Otherwise, spin in a table top centrifuge for 0h 10m 0s, pour off supernatant and use 1mL 70% ethanol to wash DNA pellet and transfer it to an eppendorf tube.

      11.

      Spin sample in microcentrifuge for 5-10 minutes. Remove ethanol and allow to air dry.

      12.

      Resuspend DNA in either water or TE buffer (c. 500 μl).

      RNase can be added to final concentration of 20 μg/ml if needed.

      Run 1µL on an agarose gel to check concentration and quality.

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