Tag Archives: ddw effects on life

Yeast Time Trial Growth: Starter Culture Setup

This is, I believe, the fourth trial of doing yeast growth time points. I setup the starter cultures and made some new YPD broth and here is how I did it:

  1. I still had some YPD from the last time I made broth, so I used that for the starter cultures.
    1. 10ml of each type of YPD (DI, DDW, and D2O) in test tubes
    2. Inoculated a single colony from agar media into each sample
    3. Mix, cover, and incubate at 30C at 150RPM in shaker.
  2. To make YPD broth:
    1. Measure appropriate amount of YPD powder for each sample (5g for DI and DDW, 4.6g for D2O)
    2. Measure out water (100ml of DDW and DI, 92ml of D2O)
    3. Stir in beaker
    4. Use syringe and filters to filter large particles and possible microbes in water/broth and syringe into closeable bottles.
    5. Place in fridge for storage.

Notes:

  • There was a bunch of mold in some samples of the yeast colonies, so I threw those out in biowaste. In some other samples, the colonies were overgrown so I also put those in biowaste. I started another agar media colony (just streak a colony onto a ypd agar plate, pre-purchased) to replenish my stash.
  • I used only 92ml of D2O because that is all there was in the bottle. Since I’m using 50g/L ypd powder that means I need 4.6g of powder for my liquid media. Hence the numbers provided above.

Tomorrow begins the time trials, yay!

Yeast and E. coli Growth: What’s next?

There are several things I can do with the yeast experiments:

  • Another but longer time trial experiment (data every hour)
  • Time Trials in larger quantities: maybe 100ml or 50ml – I want to see if the growth in such small volumes affects the measurements any
  • Adapt yeast to D2O and then grow in DDW – I’ll have to do cultures daily in D2O and see if they begin to grow faster in D2O over time. I’m thinking this will let me know they’ve adapted to their environment. I can also try to grow cultures in less D2O (like 10%) and incrementally increase it over time to see if that causes adaptation. Both methods seem viable.

I’m open to suggestions as to what to do next as well.

As for E. coli, those experiments are very inconclusive even in 99% D2O and I wouldn’t have the foggiest as to how to deal with this. Suggestions would be much appreciated here. Ayuda me!

Hourly Yeast Growth Trial 3: Results

Via Figshare:

Hourly Yeast Growth in DDW, DI Water, 30%, 60% and 99% D2O. Anthony Salvagno. Figshare.
Retrieved 21:17, May 30, 2012 (GMT)
hdl.handle.net/10779/03ec08019a22d82c66167d5e7d914de5

This experiment went much better and more predictably. Yeast (unlike E. coli) is more sensitive to deuterium content and grows accordingly. Interestingly (in this experiment) the DDW sample exhibited more growth. I’ll have to experiment on this a bit more.

It should be noted that while it appears that pure D2O grows much slower than the rest (cause it does), I also started with a much lower amount of cells. The cells did not grow well in the starter culture, and they didn’t grow well here either. See the data (or the live results) for starting absorbance readings.

Yeast Time Trial Live Results

Feel free to check in every hour (refresh this page)!

Yeast in DI, DDW, 30%, 60%, and 99% D2O Trial 3: Setup

Yesterday I made starter cultures in D2O, DI water, and DDW. Today I’m doing the time trial experiment and here is the setup:

  1. Setup of five samples:
    1. 9ml of DI YPD + 1ml of DI starter culture
    2. 9ml of DDW YPD + 1ml of DDW starter culture
    3. 6ml of DDW YPD + 3ml of D2O YPD + 1ml of DDW starter culture (30% D2O sample)
    4. 3ml of DDW YPD + 6ml of D2O YPD + 1ml of DDW starter culture (60% D2O sample)
    5. 9ml of D2O YPD + 1ml of D2O starter culture
  2. Measuring:
    1. 400ul of each starter culture in semi-micro cuvettes – to measuring starting absorbance
    2. 400ul of each timed culture (the samples to be measured over time) in semi-micro cuvettes – to measure the time=0 value (should be close to 1/10 of the starting measurements)
    3. repeat B every hour
  3. Blanking:
    1. Before each hourly measurement you need to blank the nanodrop
    2. Blank the DI samples with DI YPD (no yeast added)
    3. Blank the DDW, 30% D2O, and 60% D2O samples with DDW YPD
    4. Blank the D2O samples with D2O YPD

 

Starter Cultures: D2O, DDW, and DI YPD

I just started three new starter cultures for another timed experiment tomorrow. Hopefully this time it goes better than last time.

Setup:

  • 10ml of YPD broth in test tubes
  • The water component of each test tube is different, one is DDW, one is DI water, and the other is 99% D20.
  • The YPD was made last week and stored in the fridge.

Yeast hourly growth in DI, DDW, and 30%, 60%, 90%, and 99% D2O

Results:

Yeast growth in DI, DDW, and 30%, 60%, 90%, and 99% D2O. Anthony Salvagno. Figshare.
Retrieved 21:20, May 24, 2012 (GMT)
hdl.handle.net/10779/caa57855586213d79eea5576f8da23d0

Notes:

  • I don’t think this is a reliable data set. Several of the samples actually read a lower absorbance after the first hour than they initially do. And then they all dip again at hour 4.
  • I noticed a considerable amount of cell settling after hour 3 on the bottom of each test tube. I mixed prior to reading the absorbance values, but this is likely to skew the results. Next trial I will have to mix before reading every hour.
  • The data between DI, 30%, 60%, and 99% D2O look consistent with Tuesday’s results, but it scares me that the DDW and 90% D2O are completely out of whack.