Methionine: A Visit to Novus International

The amino acid methionine, aka 2-amino-4-(methylthio)butanoic acid.
The amino acid methionine, aka 2-amino-4-(methylthio)butanoic acid.

During the last interim, we paid a visit to Novus International, a large, multinational, animal nutrition company. And now that we’re talking about proteins in biology, there’s some extra relevance because students are aware of Novus’ major products that are precursors to the amino acid, methionine (they sell about a billion dollars a year).

Solid and liquid forms of the methionine precursor MHA.
Solid and liquid forms of the methionine precursor MHA.

I particularly liked the set of speakers they chose for us, because they covered such a broad span of the company: from business, to marketing, all the way through to the science. They also gave us a tour of their highly energy efficient building, and grounds that they’re landscaping with native plants and vegetable gardens.

It was definitely a worthwhile trip. Thanks to Ms. Mertz for arranging it.

Novus' metaphorical metal cow.
Novus’ metaphorical metal cow.

Transit

NWI Instruments transit.
NWI Instruments transit.

This spring I was nominated by my head of school for a small, Teacher of Distinction award offered by the Independent Schools of St. Louis (ISSL). I proposed to get a survey transit that our students could use to map ecological change on campus. My outdoor group has been slowly cutting down the invasive Bradford pear saplings on the slope and I’ve been curious to see if mapping their locations would help us better understand where they’re coming from.

Measuring the distance down to the creek.
Measuring the distance down to the creek.

The transit would also be a great tool for math. Geometry, algebra, and pre-calculus classes could all benefit because surveying can require quite a bit of geometry and trigonometry.

View through the transit.
View through the transit. The middle mark on the reticule allows you to measure elevation change, while the upper and lower marks are used to measure distance. There’s a 100:1 conversion from the distance between the upper and lower marks and the distance from the transit to the measuring rod.

So, I’ve started training a few of my outdoor group in making the measurements. They’ve spent a few weeks learning how to use the transit; we only meet once a week so it goes slowly. However, we’ll start trying to put marks on paper at our next class.

Students trying out the transit.
Students trying out the transit.

Following the Energy

As an exercise to transition from ecology to biochemistry in Biology class, I had students follow the energy from the Sun to humans via potatoes. After all, we’ve been putting together food webs, following energy through the food chain, and now I want to start talking about the short and long chained biochemical molecules like glucose and starch, at least at a general level.

Leaves in the forest canopy capturing sunlight. Photosynthesis in action. Because of all the captured (and reflected) sunlight the floor of the forest beneath the canopy is dark with very little undergrowth. Note: these are not potato trees, potatoes tend to grow under the ground, and potato plants are short, bushy herbs.
Leaves in the forest canopy capturing sunlight. Photosynthesis in action. Because of all the captured (and reflected) sunlight the floor of the forest beneath the canopy is dark with very little undergrowth. Note: these are not potato trees, potatoes tend to grow under the ground, and potato plants are short, bushy herbs.

So, we start with photosynthesis. The leaves of the potato plant capture sunlight and combine water and carbon dioxide to produce glucose with oxygen as a by-product.

 6 H_2O + 6 CO_2 \xrightarrow{light} C_6H_{12}O_6 + 6 O_2

This reaction takes radiative energy from the Sun, and stores it as chemical energy in the bonds of the glucose molecule.

A glucose molecules with the carbon and oxygen atoms in the ring highlighted.
A glucose molecule that stores the energy from photosynthesis. The carbon and oxygen atoms in the ring are highlighted.

Glucose is a simple sugar, one of the basic carbohydrate molecules (my bio class has not done the testing for carbohydrates yet, but we will soon). Simple carbohydrates are monomers that can be chained together to produce more complex molecules.

Sizable packets of solar energy stored in the chemical bonds of the carbs.
Sizable packets of solar energy stored in the chemical bonds of the carbs.

The potato plant chains together a series of glucose molecules it produces by photosynthesis into long chained polymers called starches. Starches are good for long-term storage of the energy because, for one thing, they don’t dissolve in water the way glucose does. (A good metaphor for this might be to have students carry a handful of beads to represent a bunch of glucose molecules versus carrying a string of beads to represent the starch).

Starch molecules form by chaining together glucose molecules. Water is a byproduct.
Starch molecules form by chaining together glucose molecules. Water is a byproduct.

The large stash of energy consolidated into the starch is an inviting target for animals like humans. We eat things like potatoes to get the starches, only we usually refer to them by their other name, carbs. Carbs are short for complex carbohydrates: since glucose is a simple carbohydrate, a chain of glucoses is called a complex carbohydrate. This is why people on low-carb diets try to avoid foods like potatoes.

For those of us who do eat potatoes, however, we need to break the starches down into their constituent glucose molecules to get the energy. When we eat potatoes, we chew (masticate) them to break down the cell walls and expose the starches to the enzymes, like amylase in our saliva, that breaks apart the long carbohydrate chains into simple glucose molecules. Enzymes, like amylase, are catalysts. Catalysts are substances that accelerate a chemical reaction, but are not used up in the process.

The body extracts these glucose molecules from the digested food in the small intestines. The glucose is absorbed through the small, finger-like, capillary-filled villi that line the small intestines, and gets into the blood plasma. The circulatory system transports the glucose in the plasma to cells throughout the body.

Cells use the glucose for energy by reversing the photosynthesis reaction, in a reaction called respiration:

 C_6H_{12}O_6 + 6 O_2 \xrightarrow{}   6 H_2O + 6 CO_2 + Energy

So the cells use respiration to liberate the energy the potato plant captured from the Sun.

Teachers’ Note

I very much liked how this exercise worked. Trying to follow the energy through the plant and human, while using as much biological vocabulary as possible, really worked to integrate our discussions of anatomy and ecology, and helped introduce biochemistry. I think I’ll try other exercises like this, where students try to follow a specific atom through the human body or through the environment (as we study global biogeochemical cycles). It might also be useful to use this as an example of how isotopic tracers work.

The Effect of Baking Soda on Cookies

Cookies about to come out of the oven.
Cookies about to come out of the oven.

My chemistry students did a little experiment to investigate the effect of varying baking soda amounts on cookies. They did four batches of cookies based off of the recipe on the back of a bag of chocolate chips. The batches used:

  1. No baking soda.
  2. The amount of baking soda recommended by the recipe.
  3. Double the baking soda.
  4. The recommended amount of baking soda plus about 30 ml (1 tablespoon) of orange juice.

The last batch used orange juice for its acidity. We hypothesized that more baking soda, and more acidity, would increase the size of the cookies, making them fluffier. The hypothesis was supported by our rather tasty evidence.

Collecting data on cookie fluffiness and taste. Because of the smell emanating from the kitchen, there were no shortage of test subjects.
Collecting data on cookie fluffiness and taste. Because of the smell emanating from the kitchen, there were no shortage of test subjects.

Although our focus was on the physical chemical reaction of the baking soda (sodium bicarbonate) and acid to produce the carbon dioxide bubbles that make the cookies rise, the making of the cookies also allowed us to talk a little about the food science behind the role of the flour. Specifically, we discussed the long chain gluten proteins that stretch out and trap the bubbles. We’ll talk a bit more about this next time when we make bread.

Turning off the Lights: How we Behave in the Darkness

Darkness can conceal identity and encourage moral transgressions.

— Zhong et al., 2010: Good Lamps Are the Best Police: Darkness Increases Dishonesty and Self-Interested Behavior in Psychological Science.

My students asked me today if we could turn off the lights during biology class and just use the natural light from outside. I’m usually not opposed, but it was overcast, so it would have been a little dark.

I put it to a vote and we had just one or two students who were against it. My policy in these cases, where we’re changing the working environment, is to respect the wishes of the minority unless there’s a compelling argument about why we should change things.

One student proposed a compelling argument. At least he proposed to try to find a compelling argument.

“If I can find a study that says lower light is better for learning can we do it?” he asked, with his hands hovering over his iPad.

“Sure,” I replied, “But not today. You can do it on your own time.”

We’ll see what he comes up with tomorrow. I, however, ran into this article that describes a study (Zhong et al., 2010) that found that, “participants in a dimly-lit room cheated more often than those in a lighter one,” (Konnikova, 2013).

While both groups performed equally well on a set of math problems, students in the darker room self-reported that they correctly solved, on average, four more problems than the other group—earning $1.85 more as a result, since they were being paid for each correct answer. The authors suggested that the darkness created an “illusory anonymity”: even though you aren’t actually more anonymous in the dark than in the light, you feel as though you are, making you more likely to engage in behaviors you otherwise wouldn’t.

–Konnikova, 2013: Inside the Cheater’s Mind in The New Yorker.

Konnikova’s New Yorker article is worth the read, because it summarizes other factors that encourage cheating as well as things to prevent it. Things that encourage cheating:

  • a messy environment,
  • if your peers all do it,
  • when the people you’re stealing from seem to have a lot,
  • when you’re thinking that your behavior is set in your genes and your environemnt (and you have less free will),
  • when you’re in (or even think you’re in) a position of power,
  • when you have achievement goals (think test scores), as opposed to mastery goals,
  • when you’re tired, or sleep-deprived.

The things that discourage cheating are the things the encourage some self-reflection, like:

  • the feeling of being watched (even just the presence of mirrors or pictures of eyes,
  • writing down an honor code,
  • being asked to think about your previous immoral behavior.
  • having a strong moral compass (some people are just much less likely to cheat than others.

And finally, it’s important to note that we will tend to rationalize our cheating, so we’re more likely to do it later.

So, I think it’ll take a lot of convincing to get me to turn off the lights, except perhaps on very sunny days.

Steam Powered Sawmill (at the Deutsch Country Days)

Carefully supervising the sawing of a log. You can just make out the spinning saw blade slicing through the far side of the log.
Carefully supervising the sawing of a log. You can just make out the spinning saw blade slicing through the far side of the log.

A couple weekends ago, I took my kids to see the Deutsch Country Days. It’s one weekend each year where they set up a 19th century German immigrant village in Marthasville just east of St. Louis. They make cider, cheese, candles, rope, tin ornaments, and a lot more on the spot. You can see the wonderful household mechanisms in old log cabins and watch blacksmiths at work. But my favorite part had to be the sawmill where they were cutting large logs using a large, ~75cm, diameter blade powered by an actual steam engine.

The boiler for the steam engine.
The boiler for the steam engine.

The big boiler pipes steam into the engine which turns a wheel and axle, which drives a large belt, which connects via another wheel and axle to the large blade. It’s a nice example of a complex machine, which the middle schoolers have been discussing in class.

The steam engine. The rate at which it spins is controlled by a centrifugal governor (the red balls), which is quite an elegant device. The engine turns the large red wheels which are connected to the blade via a long belt.
The steam engine. The rate at which it spins is controlled by a centrifugal governor (the red balls), which is quite an elegant device. The engine turns the large red wheels which are connected to the blade via a long belt.
Sharpening the blade.
Sharpening the blade.

It was a great way to spend a wonderful fall day.