Week 08 DNA extraction

Week 08 DNA extraction kdorfman Mon, 07/24/2023 - 20:25

Dog DNA labs, week of 10/23/23

Isolate DNA

1 sample per pair, from:

QIAamp DNA minikit 51306

Equipment

  • Microfuge tubes
  • Sterile forceps (to pull swab from extraction buffer)
  • QIAamp columns
  • collection tubes
  • 56C heat block (10 min)
  • vortex mixers
  • centrifuge 6000 x g 1 min, 20K x g 3 min
  • Nanodrop (may need next class, also) (Need to calculate uL to get 100 ng)

Reagents (per swab)

  • PBS (400 UL)
  • Proteinase K (20 uL)
  • Buffer AL (400 uL)
  • 95% EtOH (400 uL)
  • QIAamp Mini spin column (1)
  • 2 mL collection tube (2?)
  • Buffer AW1 (500 uL)
  • Buffer AW2 (500 uL)
  • Buffer AE (50 uL)

Staff makes spreadsheet on Google Drive with:

  • sample # for each dog
  • concentration
  • quality

DNA from cultured cells

DNA from cultured cells kdorfman Tue, 08/22/2023 - 16:04

From QIAamp DNA Mini & Blood Mini Handbook, Apendix B, p 50

Do not use more than 5 x 10^6 cells

Important points before starting

  • Do not use more than 5 x 106 cells (with a normal set of chromosomes).
  • All centrifugation steps are carried out at room temperature (15–25°C).
  • Use carrier DNA if the sample contains <10,000 genome equivalents (see page 17).

Things to do before starting

  • Heat a water bath or heating block to 56°C.
  • Equilibrate Buffer AE or distilled water to room temperature (15–25°C) for elution.
  • Ensure that Buffer AW1, Buffer AW2, and QIAGEN Protease have been prepared according to the instructions on page 16.
  • If a precipitate has formed in Buffer AL, dissolve by incubating at 56°C.

Procedure