DNA Hard Drives

Adam Cole has an excellent NPR article on some fascinating researchers who are storing data — text files, web pages, sonnets — on DNA.

This should be a interesting introduction for middle-schoolers to the idea of DNA as a means of storing and transferring information. The question I hope to get is, “How did they do that?”

Converting text into a DNA sequence. From Goldman et al. (2013).

Atom Builder

This app lets you drag and drop electrons, protons, and neutrons to create atoms with different charges, elements, and atomic masses. You can also enter the element symbol, charge and atomic mass and it will build the atom for you.

Note, however, it only does the first 20 elements.

Wiggle Matching: Sorting out the Global Warming Curve

To figure out if the climate is actually warming we need to extract from the global temperature curve all the wiggles caused by other things, like volcanic eruptions and El Nino/La Nina events. The resulting trend is quite striking.

I’m teaching pre-Calculus using a graphical approach, and my students’ latest project is to model the trends in the rising carbon dioxide record in a similar way. They’re matching curves (exponential, parabolic, sinusoidal) to the data and subtracting them till they get down to the background noise.

Carbon dioxide concentration (ppm) measured at the Mona Loa observatory in Hawaii shows exponential growth and a periodic annual variation.

The Smog in Beijing

We talked today about the smog in Beijing.

Smog in Beijing. Image via NASA Earth Observatory.

[A]t the time of the image, the air quality index (AQI) in Beijing was 341. An AQI above 300 is considered hazardous to all humans, not just those with heart or lung ailments. AQI below 50 is considered good. On January 12, the peak of the current air crisis, AQI was 775 the U.S Embassy Beijing Air Quality Monitor—off the U.S. Environmental Protection Agency scale—and PM2.5 was 886 micrograms per cubic meter.

–Carlowicz (2013): via NASA Earth Observatory

The pollution in Beijing seems to be a result of automobiles and construction, and not factories as you might think. One of my Chinese students (A.S.) pointed out that the Chinese government had moved a whole lot of factories out of Beijing about 10 years ago in preparation for the Olympics. Curiously, the factories were relocated to poorer areas as the cities have become wealthier; something we’ve seen at a global scale as well.

The relocation of factories out of Beijing is part of a mass migration of Chinese industry in recent years from wealthier cities, which have become environmentally conscious, to less-developed ones.

–Cha (2008): Relocation of Beijing factories only moved the problem in the Washington Post via the Seattle Times.

Photosynthetic Salamanders?

Spotted Salamander (Ambystoma maculatum). Image by Camazine via Wikipedia.

The salamanders themselves don’t do photosynthesis, but they host symbiotic algae that do.

Spotted salamanders, too, are in a long-term relationship with photosynthetic algae. In 1888, biologist Henry Orr reported that their eggs often contain single-celled green algae called Oophila amblystomatis. The salamanders lay the eggs in pools of water, and the algae colonise them within hours.

By the 1940s, biologists strongly suspected it was a symbiotic relationship, beneficial to both the salamander embryos and the algae. The embryos release waste material, which the algae feed on. In turn the algae photosynthesise and release oxygen, which the embryos take in. Embryos that have more algae are more likely to survive and develop faster than embryos with few or none.

Then in 2011 the story gained an additional twist. A close examination of the eggs revealed that some of the algae were living within the embryos themselves, and in some cases were actually inside embryonic cells. That suggested the embryos weren’t just taking oxygen from the algae: they might be taking glucose too. In other words, the algae were acting as internal power stations, generating fuel for the salamanders.

–Marshall (2013): Zoologger: The first solar-powered vertebrate in New Scientist based on Graham et al. (2012).

Patterns in the Periodic Table

The rapid increase and slow decline of atomic radius repeats itself every 8 elements in the first 20 elements.

Why is the periodic table called the periodic table? Because of the periodic changes in the properties of the elements: there are patterns to the properties that repeat, time after time, as you go through the sequence of the elements. One key repetition, which affects the way different elements react, is in the electron configurations, however, other properties change as well. In fact, history of the periodic table
is a story of scientists trying to figure out the properties of unknown elements (not to mention figuring out that there were undiscovered elements) based on what they knew about the periodicity of the known elements.

File: periodic-table-properties.xls

In this exercise, we look at four different properties that students need to be aware of: density, melting point, ionization energy, and electronegativity. I’ve compiled the data in this spreadsheet: periodic-table-properties.xls; and I handed out the first page, with the properties of the first 38 elements (periodic-table-properties.xls.pdf).

The repeating pattern in electronegativity shows up quite well in the first 20 elements.

I broke the class into pairs and had each pair graph one of the four sets of data. With 16 students that meant that we had a replicate of each graph, so I could use the redundancy as a quick check that they’d done them correctly.

The pattern with density is harder to discern, but it’s still there if you know where to look.

As they put drew their graphs I went around the classroom, paying special attention to the students working on ionization energy and electronegativity. Especially for the latter, I’d picked pairs who I figured would be able to get the graphs done quickly but would appreciate the extra challenge of figuring out what electronegativity actually is. This way, when everyone was done, the students could use their graphs to look for the patterns and explain what they’d found to the rest of the class.

The patterns of electronegativity rises across the first twenty elements.