Tag Archives: data

Arabidopsis Growth Try 4: Week 5

Arabidopsis Growth Try 4: Week 3

Growth of Arabidopsis in heavy water

Arabidopsis seeds in DI water (0.0156% D2O).
Arabidopsis seeds in DI water (0.0156% D2O).
Arabidopsis seeds in 33% D2O.
Arabidopsis seeds in 33% D2O.
Arabidopsis seeds in 66% D2O.
Arabidopsis seeds in 66% D2O.
Arabidopsis seeds in 99% D2O.
Arabidopsis seeds in 99% D2O.

Growth of tobacco seeds in low concentrations of deuterium

Growth of tobacco seeds in DDW.
Growth of tobacco seeds in DDW (0.0001% D2O).
Growth of tobacco seeds in DI water.
Growth of tobacco seeds in DI water (0.0156% D2O).
Growth of tobacco seeds in 1% D2O.
Growth of tobacco seeds in 1% D2O.
tobacco seed root length
Tobacco seed root length growth.

Growth of Tobacco Seeds in Heavy Water

Growth of tobacco seeds in DI water.
Growth of tobacco seeds in DI water.
Growth of tobacco seeds in DDW.
Growth of tobacco seeds in DDW.
Growth of tobacco seeds in 33% D2O.
Growth of tobacco seeds in 33% D2O.
Growth of tobacco seeds in 66% D2O.
Growth of tobacco seeds in 66% D2O.
Growth of tobacco seeds in 99% D2O.
Growth of tobacco seeds in 99% D2O.

Arabidopsis Growth Try 4: Week 2

The plants are one week old! They seem to be doing really well, for the most part. As expected, as the concentration of D2O increases the plants develop slower. Also as expected the plants also exhibit leaf decolorization. Notice how in 60, and 70% D2O the leaves are a pale green. In 80% the plants are too small to notice growth. It also seems that the plant in 5% D2O is growing the fastest, which seems to be in line with my observations from the last trial run, and also with hypotheses from my dissertation (to be posted as soon as it is all finished). I will have to record some observations of the plants in DDW and compare them to 5% D2O and 10% D2O.

Protein Aggregation Graphs

I just finished some beautiful graphs by combining the aggregation data sets from the protein aggregation studies (Ovalbumin and Catalase). Check them out:

ovalbumin visual aggregation: (left) non-aggregated sample, (right) after aggregation
ovalbumin visual aggregation: (left) non-aggregated sample, (right) after aggregation
plot of ovalbumin aggregation
plot of ovalbumin aggregation
Plot of catalase aggregation
Plot of catalase aggregation

Feb 28 Yeast Growth

I’ve been scratching my head about this for the past two days. I could have sworn that I did a measurement of yeast growth after adaptation and it turns out I did. Here is the data:

I’ll graph this data and publish that when I’m done (after I defend).

Tobacco Seed Growth Rates

I got some awesome new data to show. The first is the compilation of all the Repeating Crumley experiments. And the second is some new data that I’ve been meaning to create and now have with the help of Koch.

Tobacco seed germination rates
Tobacco seed germination rates

The data above is the compilation of all the RC data. Each trial had different water types, but I combined the samples that were the same in every set (DDW, DI water, 33% D2O, 66% D2O, and 99% D2O). Steve adapted his R-code that applies binomial confidence intervals to a data set and used it on this data. If that makes no sense, then just know that the dotted lines are the most probable range of germination rates. For instance, in 66% D2O there is a ~70% likelihood that seeds will germinate at a rate within the dotted yellow lines.

Now it’s time for some brand new data:

tobacco seed root length
tobacco seed root length

Here we went through the pictures from Trial 5 and compared the growth rates of the roots. We calculated the lengths of various seeds in each image and tracked the changes from image to image. We chose DI, DDW, and 1% D2O, because the D2O concentrations are relatively similar and because we wanted to test a hypothesis from a while ago. It’s interesting that the seeds in DDW and D2O grow at the same rate, while seeds in DI water grow at roughly half the speed.

WT E. coli colony (on D2O LB agar) morphology

Yesterday I posted some pictures of E. coli colony morphologies. This was one of the colonies, but it wasn’t as developed, so today I’m adding the extra day’s growth image.

WT E. coli grown on DI LB agar
WT E. coli grown on DI LB agar

Looks great! It’s interesting to note that the colonies grown on D2O agar grow out. Instead of getting thick like it normally does, it grows in an outward direction. I guess I would attribute that to the stress induced by being in D2O.

Comparing the results from today to WT E. coli grown onĀ  DI media and D2O adapted E. coli grown on D2O media, it seems there is an interesting mix of morphological behavior. The adapted E. coli is very “brainy” and obviously the normal WT is “smooth,” but today’s specimen is in between smooth and brainy. Unfortunately I can’t make out the topographical features because the E. coli (as I mentioned above) is very flat. But the contour is very feature rich.