Difference between revisions of "Team:Austin UTexas/Protocols"

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This is the recipe to make 1L of HS (High Salt) medium.

Procedure

1. Add the following compounds
   • 5 g of Yeast Extract
   • 5 g of Peptone
   • 2.7 g of Sodium Phosphate, dibasic anhydrous (Na₂HPO₄)
   • 1.5 g of Citric Acid
   • 16 g of Agar (if making solid media)
2. Add distilled water to reach final volume
3. Autoclave the solution
4. Add 50 mL of Sterile 40% (w/v) glucose after the solution has been autoclaved

DO NOT ADD GLUCOSE PRIOR TO AUTOCLAVING THE SOLUTION TO AVOID CREATING TOXIC BYPRODUCTS
This recipe is from the [http://barricklab.org/twiki/bin/view/Lab/ProtocolsMediaRecipes#LB_Lysogeny_Broth_Luria_Bertani Barrick Lab LB Protocol]

This is the recipe to make 1L of YPD medium which is a complete medium for yeast growth.

Procedure

1. Add the following compounds
   • 10 g of Yeast Extract
   • 20 g of Peptone
   • 16 g of Agar (if making solid media)
2. Add distilled water to reach final volume of 1 L
3. Autoclave the solution
4. Add 50 mL of Sterile 40% (w/v) glucose after the solution is autoclaved

DO NOT ADD GLUCOSE PRIOR TO AUTOCLAVING THE SOLUTION TO AVOID CREATING TOXIC BYPRODUCTS

Introduction

This is the recipe to make 500 mL of PBS which is used in a variety of procedures.

Procedure

1. Add 400 mL to an empty bottle
2. Add and dissolve each of the following compounds in the water:
   • 4.0 g of Sodium Chloride (NaCl)
   • 0.1 g of Potassium Chloride (KCl)
   • 0.72 g of Sodium Phosphate, dibasic anhydrous (Na₂HPO₄)
   • 0.12 g of Potassium Phosphate, monobasic (KH₂PO₄)
3. Autoclave the solution

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Introduction

This is the recipe to make 472.5 mL of 4x Sucrose Solution.

Procedure

1. Add 1 cup of Sucrose to a bottle
2. Fill the bottle with distilled water until it reaches a final volume of 472.5 mL
   • As the bottle is being filled, swirl the contents so that the sucrose can begin to dissolve
3. Autoclave the solution

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Introduction

This is the protocol for conjugating a plasmid using a DAP dependent donor strain and a targeted recipient strain.

Materials

1. .3 mM Diaminopimelic Acid (DAP)
2. DAP Auxotroph strain with a plasmid
   • This plasmid should have an antibiotic resistant gene, an origin of transfer and a gene of interest.
3. Recipient Strain
4. LB+DAP Plates
5. LB+Antibiotic Plates
   • The antibiotic should be the one that plasmid has a resistance to.
6. Phosphate Buffered Saline (PBS)

Procedure

1. Grow up the donor and recipient strains
   • For the donor cells, inoculate liquid LB+antibiotic+DAP (the one that the plasmid is resistant to). Depending on the amount of liquid media used, the volume should be divided by 1000 and then multiplied by 3 in order to determine the amount of DAP used. Ex. 5 mL of media will need 15 µL of DAP.
   • For the recipient cells, grow them in the required liquid media and an antibiotic if needed.
2. Wash the donor and recipient cells
   • After sufficient growth, transfer 1 mL of each strain into a microcentrifuge tube.
   • Centrifuge the tubes at 3,000 RPM for 1 minute, for a pellet to form.
   • After centrifugation, decant the supernatant, add 1 mL of PBS to the tube, and resuspend the pellets by vortexing it.
   • Centrifuge these tubes again at 3,000 RPM for 1 minute and 30 seconds.
   • Decant the supernatant and resuspend the pellets with 1 mL of PBS.
3. Combine the cells into a microcentrifuge tube
   • Take an OD600 for both cell types and make a 1:1 ratio of donor and recipient cells
   • Combine 50 µL of each cell type at a 1:1 ratio into a microcentrifuge tube
   • Spin down the solution for 3 seconds in a mini centrifuge.
4. Plate the solutions and incubate
   • Transfer 100 µL of the solution onto a LB+DAP plate. Do not spread. You can make 5 different conjugations on a plate by dividing up the plate.
   • Incubate these plates overnight
5. Scrape up the growth
   • After incubation, scrape up the growth with an inoculating loop and resuspend the colonies in 1 mL of PBS.
6. Wash the solution
   • Spin down the microfuge tubes at 3,000 RPM for 1 minute and 30 seconds.
   • Decant the supernatant.
   • Repeat
   • Resuspend the mixture of cells in 1 mL of PBS
7. Plate the mixture of cells
   • Plate 50 µL of each mixture of cells on a LB+the antibiotic the plasmid is resistant to. However, this plate can't have DAP.
   • Make sure to plate 1 mixture per plate and spread it.
   • Incubate overnight
8. Pick the transconjugants
   • With a sterile loop, pick an isolated colony that appears to have been successfully conjugated.
   • Streak out this colony onto another plate of the same kind (LB+Antibiotic).
   • Incubate this plate for 24 hours.
9. Create a liquid culture
   • Pick an isolated colony with a sterile loop and inoculate it into 5 mL of LB + 5 µL of the antibiotic.
   • Place these tubes into a shaker incubator for 24 hours.
10. Freeze down the isolate
    • Pipette 1.6 mL of the liquid culture into a cryovial.
    • Add 400 µL of 100% DMSO.
    • Turn upside down and back a few times to mix.
    • Place into a -80℃ freezer for future use.

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Introduction

This is the protocol for making LB+DAP agar plates to be used during conjugation.

Materials

1. LB Agar
2. Diaminopimelic Acid (DAP)
3. Sterile Petri Dishes
4. 50 mL Falcon Tube

Procedure

1. Obtain a bottle of sterile, LB Agar. Heat the bottle in a microwave at half or medium power for approximately 5-8 minutes or until completely melted.
2. After allowing the LB agar to cool down slightly, using sterile technique, gently pour 25 mL of LB agar into the Falcon Tube.
3. Add 75 µL of DAP to the LB agar in the Falcon Tube.
4. With the lid tightly secured on the tube, gently invert the tube in order to mix the LB Agar and DAP sufficiently.
5. Lastly, pour the entire mixture into the plate and allow all of the plates to dry/solidify before moving or storing them.

This is the recipe to make 1L of LB media which is a nutritionally rich medium for bacterial growth.

Procedure

1. Add the following compounds
   • 10 g of Tryptone
   • 5 g of Yeast Extract
   • 10 g of Sodium Chloride (NaCl)
   • 16 g of Agar (if making solid media)
2. Add distilled water to reach final volume of 1 L
3. Autoclave the solution

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Introduction

This is the protocol for making a 5x Tea solution.

Materials

1. 4 HEB Ready to Brew Iced Tea Bags
2. 757 mL of diH₂O
3. 10-15 Coffee Filters
4. .2 µm Filter

Procedure

1. Boiling the Water
   • Heat up the distilled water in the microwave until it begins to boil. This should take around 3-4 minutes, depending on the microwave. However, due to the fact that the water does not have any impurities, it will not bubble like normal water would when boiling. YOU MUST BE CAREFUL WHEN HEATING THE WATER UP BECAUSE ONCE SOMETHING TOUCHES THE WATER, SUCH AS A TEA BAG, IT WILL INSTANTLY BEGIN TO BUBBLE AND MAY CAUSE SEVERE BURNS.
2. Steeping the Tea
   • Place 4 tea bags into the boiling water to steep for 5 minutes. Be careful to not burn yourself.
3. First Filtration
   • After steeping, filter the tea through a 10-15 in order to strain out the large particulates.
4. Second Filtration
   • Pour the tea through a .2 µm filter in order to strain out smaller particulates.

Note- You might have to run the tea through more coffee filters in order for all of the solution to filter through the .2 µm filter

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Introduction

This is the protocol for making 1L of Tea Media.

Materials

1. 200 mL of 5x Tea filtered through a .2 µm filter
2. 250 mL of Sterile 4x Sucrose
3. 550 mL of Sterile diH₂O (With 16 g of Agar (if making solid media)

Procedure

1. Add all of the materials together

This is the recipe to make 1L of R2A Media.

Procedure

1. Add the following compounds
   • 0.5 g of Proteose Peptone No. 3
   • 0.5 g of Yeast Extract
   • 0.5 g of Casamino Acids
   • 0.5 g of Dextrose
   • 0.5 g of Soluble Starch
   • 0.3 g of Sodium Pyruvate (C₃H₃NaO₃)
   • 0.3 g of Dipotassium Phosphate (K₂HPO₄)
   • 0.05 g of Magnesium Sulfate (MgSO₄
   • 16 g of Agar (if making solid media)
2. Add distilled water to reach final volume of 1 L
3. Autoclave the solution

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This is the recipe to make 1L of M9 minimal media.

Procedure

1. Add the following compounds
   • 3 g of Potassium Phosphate Monobasic (KH₂PO₄)
   • 0.5 g of Sodium Chloride (NaCl)
   • 6 g of Sodium Phosphate, Dibasic Anhydrous (Na₂HPO₄)
   • 1 g of Ammonium Chloride (NH₄Cl)
   • 16 g of Agar (if making solid media)
2. Add distilled water to reach final volume
3. Autoclave the solution
4. Add the following sterile compounds after the solution has been autoclaved
   • 1 mL of 1M Magnesium Sulfate (MgSO₄)
   • 1 mL of 0.1M Calcium Chloride (CaCl₂)
   • 10 mL of 10% (w/v) Glucose (or other carbon source)