Skeptophilia (skep-to-fil-i-a) (n.) - the love of logical thought, skepticism, and thinking critically. Being an exploration of the applications of skeptical thinking to the world at large, with periodic excursions into linguistics, music, politics, cryptozoology, and why people keep seeing the face of Jesus on grilled cheese sandwiches.
Showing posts with label organic chemistry. Show all posts
Showing posts with label organic chemistry. Show all posts

Wednesday, January 4, 2023

Completing the recipe

Last week, I wrote a piece on the peculiarities of Jupiter's moon Io -- surely one of the most inhospitable places in the Solar System, with hundreds of active volcanoes, lakes of liquid sulfur, and next to no atmosphere.  But there's a place even farther out from the warmth of the Sun that is one of our best candidates for an inhabited world -- and that's Saturn's icy moon Enceladus.

It's the sixth largest of Saturn's eighty-some-odd moons, and was discovered back in 1789 by astronomer William Herschel.  Little was known about it -- it appeared to be a single point of light in telescopes -- until the flybys of Voyager 1 and Voyager 2 in 1980 and 1981, respectively, and even more was learned by the close pass in 2005 by the Cassini spacecraft.  

One of Cassini's spectacular photographs of Enceladus [Image is in the Public Domain courtesy of NASA/JPL]

Enceladus, like Io, is an active world.  It has a thick crust mostly made of water ice, but there are "cryovolcanoes" -- basically enormous geysers -- that jet an estimated two hundred kilograms of water upward per second.  Some of it falls back to the surface as snow, but the rest is the primary contributor to Saturn's E ring

Where it gets even more interesting is that beneath the icy crust, there is an ocean of liquid water estimated to be ten kilometers deep (just a little shy of the depth of the Marianas Trench, the deepest spot in Earth's oceans).  Like Io's wild tectonic activity, the geysers of Enceladus are maintained primarily by tidal forces exerted by its host planet and the other moons.  But that's where any resemblance to Io ends.  Chemically, it could hardly be more different.  Analysis of the snow ejected by the cryovolcanoes of Enceladus found that dissolved in the water was ordinary salt (sodium chloride), with smaller amounts of ammonia, carbon dioxide, methane, sulfur dioxide, formaldehyde, and benzene.

What jumped out at scientists about this list is that these compounds contain just about everything you need to build the complex organic chemistry of a cell -- carbon, nitrogen, oxygen, hydrogen, and sulfur.  I say "just about" because one was missing, and it's an important one: phosphorus.  In life on Earth, phosphorus has two critical functions -- it forms the "linkers" that hold together the backbones of DNA and RNA, and it is part of the carrier group for energy transfer in the ubiquitous compound ATP.  (In vertebrates, it's also a vital part of our endoskeletons, but that's a more restricted function in a small subgroup of species.)

But just last month, a paper was presented at the annual meeting of the American Geophysical Union describing the research that finally found the missing ingredient.  There is phosphorus in Enceladus's ocean -- in fact, it seems to have a concentration thousands of times higher than in the oceans of Earth.

This is eye-opening because phosphorus is a nutrient that is rather hard to move around, as vegetable gardeners know.  If you buy commercial fertilizer, you'll find three numbers on the package separated by hyphens, the "N-P-K number" representing the percentage by mass of nitrogen, phosphorus, and potassium, respectively.  These three are often the "limiting nutrients" for plant growth -- the three necessary macronutrients that many soils lack in sufficient quantities to grow healthy crops.  And while the nitrogen and potassium components usually (depending on the formulation) "water in" when it rains and spread around to the roots of your vegetable plants, phosphorus is poorly soluble and tends to stay pretty much where you put it.

The fact that the snow on Enceladus has amounts of phosphorus a thousand times higher than the oceans of Earth must mean there is lots down there underneath the ice sheets.

This strongly boosts the likelihood that there's life down there as well.  Primitive life, undoubtedly; it's unlikely there are Enceladian whales swimming around under the ice.  But given how quickly microbial life evolved on Earth after its surface cooled and the oceans formed, I feel in my bones that there must be living things on Enceladus, given the fact that all the ingredients are there.  (The oceans on Earth formed on the order of 4.5 billion years ago, and the earliest life is likely to have begun on the order of four billion years ago; given a complete recipe of materials and an energy source, complex biochemistry seems to self-assemble with the greatest of ease.)

Maybe I'm being overly optimistic, but the discovery of phosphorus in the snows of Enceladus makes me even more certain that extraterrestrial life exists, and must be common in the universe.  If we can show that there are living things down there, on a mostly frozen moon 1.4 billion kilometers from the Sun, then it will show that life can occur almost anywhere -- as long as you have all the ingredients for the recipe.

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Tuesday, February 15, 2022

The recipe for life

Back in my teaching days, I was all too aware of how hard it was to generate any kind of enthusiasm for the details of biology in a bunch of teenagers.  But there were a few guaranteed oh-wow moments -- and one that I always introduced by saying, "If this doesn't blow your mind, you're not paying attention."

What I was referring to was the Miller-Urey experiment.  This phenomenal piece of research was an attempt to see if it was possible to create organic compounds abiotically -- with clear implications for the origins of life.  Back in the early twentieth century, when people started to consider seriously the possibility that life started on Earth without the intervention of a deity, the obvious question was, "How?"  So they created apparatus to take collections of inorganic compounds surmised to be abundant on the early Earth, subject them to various energy sources, and waited to see what happened.

What happened was that they basically created smog and dirty water.  No organic compounds.  In 1922, Soviet biochemist Alexander Oparin suggested that the problem might be that they were starting with the assumption that the Earth's atmosphere hadn't changed much -- and looking at (then) new information about the atmosphere of Jupiter, he suggested that perhaps, the early Earth's atmosphere had no free oxygen.  In chemistry terms, it was a reducing atmosphereOxygen, after all, is a highly reactive substance, good at tearing apart organic molecules.  (There's decent evidence that the pathways of aerobic cellular respiration originally evolved as a way of detoxifying oxygen, and only secondarily gained a use at increasing the efficiency of releasing the energy in food molecules.)

It wasn't until thirty years later that anyone tested Oparin's hunch.  Stanley Miller and Harold Urey, of the University of Chicago, created an apparatus made of sealed, interconnected glass globes, and filled them with their best guess at the gases present in the atmosphere of the early Earth -- carbon monoxide, methane, hydrogen sulfide, sulfur dioxide, water vapor, various nitrogen oxides, hydrogen cyanide (HCN), and so on.  No free (diatomic) oxygen.  They then introduced an energy source -- essentially, artificial lightning -- and sat back to wait.

No one expected fast results.  After all, the Earth had millions of years to generate enough organic compounds to (presumably) self-assemble into the earliest cells.  No one was more shocked than Miller and Urey when they came in the next day to find that the water in their apparatus had turned blood red.  Three days later, it was black, like crude oil.  At that point, they couldn't contain their curiosity, and opened it up to see what was there.

All twenty amino acids, plus several amino acids not typically found in living things on Earth.  Simple sugars.  Fatty acids.  Glycerol.  DNA and RNA nucleotides.  Basically, all the building blocks it takes to make a living organism.

In three days.

A scale model of the Miller-Urey apparatus, made for me by my son, who is a professional scientific glassblower

This glop, now nicknamed the "primordial soup," is thought to have filled the early oceans.  Imagine it -- you're standing on the shore of the Precambrian sea (wearing a breathing apparatus, of course).  On land is absolutely nothing alive -- a continent full of nothing but rock and sand.  In front of you is an ocean that appears to be composed of thick, dark oil.

It'd be hard to convince yourself this was actually Earth.

Since then, scientists have re-run the experiment hundreds of times, checking to see if perhaps Miller and Urey had just happened by luck on the exact right recipe, but it turns out this experiment is remarkably insensitive to initial conditions.  As long as you have three things -- (1) the right inorganic building blocks, (2) a source of energy, and (3) no free oxygen -- you can make as much of this rather unappealing soup as you want.

So, it turns out, generating biochemicals is a piece of cake.  And a piece of research at Friedrich Schiller University and the Max Planck Institute have shown that it's even easier than that -- the reactions that create amino acids can happen out in space.

"Water plays an important role in the conventional way in which peptides are created," said Serge Krasnokutski, who co-authored the paper.  "Our quantum chemical calculations have now shown that the amino acid glycine can be formed through a chemical precursor – called an amino ketene – combining with a water molecule.  Put simply: in this case, water must be added for the first reaction step, and water must be removed for the second...  [So] instead of taking the chemical detour in which amino acids are formed, we wanted to find out whether amino ketene molecules could not be formed instead and combine directly to form peptides.  And we did this under the conditions that prevail in cosmic molecular clouds, that is to say on dust particles in a vacuum, where the corresponding chemicals are present in abundance: carbon, ammonia, and carbon monoxide."

The more we look into this, the simpler it seems to be to generate the chemicals of life -- further elucidating how the first organisms formed on Earth, and (even more excitingly) suggesting that life might be common in the cosmos.  In fact, it may not even take an Earth-like planet to be a home for life; as long as a planet is in the "Goldilocks zone" (the distance from its parent star where water can exist in liquid form), getting from there to an organic-compound-rich environment may not be much of a hurdle.

That's still a long way from intelligent life, of course; chances are, the planets with extraterrestrial life mostly have much simpler organisms.  But how exciting is that?  Setting foot on a planet covered with life -- none of which has any common ancestry with terrestrial organisms.

I can think of very little that would be more thrilling than that.

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People made fun of Donald Rumsfeld for his statement that there are "known unknowns" -- things we know we don't know -- but a far larger number of "unknown unknowns," which are all the things we aren't even aware that we don't know.

While he certainly could have phrased it a little more clearly, and understand that I'm not in any way defending Donald Rumsfeld's other actions and statements, he certainly was right in this case.  It's profoundly humbling to find out how much we don't know, even about subjects about which we consider ourselves experts.  One of the most important things we need to do is to keep in mind not only that we might have things wrong, and that additional evidence may completely overturn what we thought we knew -- and more, that there are some things so far out of our ken that we may not even know they exist.

These ideas -- the perimeter of human knowledge, and the importance of being able to learn, relearn, change directions, and accept new information -- are the topic of psychologist Adam Grant's book Think Again: The Power of Knowing What You Don't Know.  In it, he explores not only how we are all riding around with blinders on, but how to take steps toward removing them, starting with not surrounding yourself with an echo chamber of like-minded people who might not even recognize that they have things wrong.  We should hold our own beliefs up to the light of scrutiny.  As Grant puts it, we should approach issues like scientists looking for the truth, not like a campaigning politician trying to convince an audience.

It's a book that challenges us to move past our stance of "clearly I'm right about this" to the more reasoned approach of "let me see if the evidence supports this."  In this era of media spin, fake news, and propaganda, it's a critical message -- and Think Again should be on everyone's to-read list.

[Note: if you purchase this book using the image/link below, part of the proceeds goes to support Skeptophilia!]