Module 1: Degenerate PCR and Topoisomerase (TOPO)-based DNA Cloning
Equipment and Materials
Week 1
- Previously harvested frozen grape leaves
- Qiagen DNeasy Plant Mini Kit (50) (Qiagen, Valencia, CA)
- 70% EtOH
- Liquid N2
- Mortar and pestle
- Homogenization pestle for 1.5 ml microcentrifuge tubes
- 0.2 ml PCR tubes
- Degenerate PCR primers
- LM 638 (5′-GGIGGIGTIGGIAAIACIAC-3′)
- LM 637 (5′-A(A/G)IGCTA(A/G)IGGIA(A/G)ICC-3′)
- NanoDrop™ One microvolume UV-Vis spectrophotometer (Thermo Scientific, Wilmington, DE)
- T-100 Thermal Cycler (BioRad USA, Hercules, CA)
- Promega 2X PCR Master Mix (Promega US, Madison, WI)
- JumpStart Taq DNA polymerase (MilliporeSigma, Burlington, MA)
Week 2
- 1000X GelRed (Phenix Research Products, Candler, NC)
- 50X TAE buffer
- Agarose
- Power supply
- Ice bucket
- QIAquick PCR Purification Kit (Qiagen, Valencia, CA)
- Agarose gel electrophoresis apparatus
- Biospectrum UVP GelDoc-It®2 Imager (Analytik Jena, Upland, CA)
Week 3
- Pre-cut parafilm strips
- 37°C incubator
- Ice bucket
- L-shape spreader
- 42°C water bath
- 37°C shaker
LB Agar (per Liter)
- 10 g of NaCl; 10 g of tryptone; 5 g of yeast extract; 20 g of agar
- Add deionized H2O to a final volume of 1 liter.
- Autoclave, pour into Petri dishes (~25 ml/100 mm plate)
LB Broth (per Liter)
- 10 g of NaCl, 10 g of tryptone, 5 g of yeast extract
- Add deionized H2O to 1 liter
- Autoclave
LB-Ampicillin Agar (per Liter)
- 1 liter of LB agar, autoclaved, cool to 55°C
- Add 10 ml of 10 mg/ml filter-sterilized ampicillin
- Pour into Petri dishes (~25 ml/100 mm plate)
LB-Kanamycin Agar (per Liter)
- 1 liter of LB agar, autoclaved
- Cool to 55°C; add 2.5 ml of 20 mg/ml filter-sterilized kanamycin
- Pour into Petri dishes (~25 ml/100 mm plate)
2% X-gal (per 10 ml)
- 0.2 g of 5-Bromo-4-chloro-3-indolyl-β-Dgalactopyranoside (X-gal)
- 10 ml of dimethylformamide (DMF)
- Store at -20°C. Spread 40 µl per LB agar plate.