Thursday, December 3, 2009

Let’s Start a Fight

I’ve bought myself a bit of reprise in doing a blog entry this week by getting my latest nonfiction project into print: an article about my former town and what it’s been doing to stop the wholesale devouring of its woods. It’s certainly nice to get back on that horse — I’d done a bunch of work for the Pittsburgh City Paper back in the late ’90s and early aughts, but not recently.

Seems I’ve been scooped by th’wife — “Professor Chaos” indeed. Let me say this about anything that might be said on that particular blog: I remember the day she talks about, and will admit I purposely avoided the farm for a long time because I knew I’d react the same way she did. As Treebeard said:

“Many of those trees were my friends, creatures I had known from nut and acorn; many had voices of their own that are lost for ever now. And there are wastes of stump and bramble where once there were singing groves. I have been idle. I have let things slip. It must stop!”

The reasons for my unwillingness entirely to condemn the new wave of developers are now a matter of record; I don’t feel it necessary to respond to comments from the Peanut Gallery.

Thursday, November 19, 2009

Context

On a summer day quite a few years ago, Lilly and I were waiting for Mel and Heather to find us on a beautiful fallow farm that today is rapidly become a bulldozed memory. Sitting on the lee side of a collapsing barn, I knew they’d have a bit of trouble getting us — scent tends to get trapped on the downwind side of structures — and that therefore Lilly and I had some time to kick back and just enjoy a golden southwest Pennsylvania afternoon.

Lilly, as she often did, was chowing down on the tall, broad grass leaves (they were, I found out later, timothy) growing around the abandoned farm buildings. Now, usually we humans have a (justified) skepticism about the culinary preferences of someone who finds cat shit an irresistibly crunchy snack; but just that once, I decided to give it a try.

I chewed the tough, raspy leaves, and soon got a wonderful note of garlic and green. Very tasty, actually.

That day, I got one of many ongoing lessons about giving my dog the benefit of the doubt.

Heather gave me minor hell for the framing story in What Died? — my skeptical account of Lilly apparently detecting 20-year-old graves. Her basic point was, “Why didn’t you just trust your dog, idiot?”

I think she missed an important point of context, a point that a lot of dog handlers get chronically wrong: when and how you express your skepticism matters to the level of trust you’re showing your dog. To make it more concrete, handlers tend to build their dogs’ performance in retrospect: pure confusion the day of a search becomes, with the hindsight of knowing the subject’s eventual location, a clear indication that the dog was on the right track. Some dog handlers compound it by historically revising their level of certainty: “I knew Sparkie was onto it.”

No, our dogs don’t lie to us: but neither do we always understand what they’re trying to tell us.

Though I can’t hold myself forward as any sort of example, I think we need just the opposite approach. In the context of a search task, we need to be respectful of the dog’s abilities but coldly honest: if it had been a real search, the proper report for the potter’s field alert would have been, “I could be wrong, but Lilly sure looked like she was detecting cadaver. I think we need to check it out.” The proper line to take now, nearly 20 years later, is that I don’t really know for sure what she was doing, though the corroborative evidence I’ve seen encourages me to take that alert at face value.

It’s a matter of context.

Context of a different sort is the gist of today’s entry, care of Jostein Gohli and Göran Högstedt at the University of Bergen, Norway: namely, when does garish coloration make a prey animal safe rather than lunch?

The classic explanation is that prey critters like the monarch butterfly use bright colors to warn predators (a strategy called aposematism) that they taste very bad — short-circuiting the potential problem that tasting bad is a little late to really help you not get killed or seriously hurt by a predator. But that explanation poses its own problem: a bird that tries to eat one monarch won’t try for a second. But that still leaves the first pretty much screwed.

The predators could be genetically disposed to avoiding the bright colors — but that argument just moves the issue further back in time, since at some point the first, behaviorally and genetically naïve, predator had to give it a try.

Gohli and Högstedt put it extremely well: “When aposematism first evolved, all predators were inexperienced and the population of aposematic prey would have been very small. Sampling (killing) would likely have led to an early extinction of this fragile population.”

Word.

The explanation, as you may have guessed from the context that I’m talking about it, hinges on smell. If a bad-tasting prey animal also smelled bad, that smell would double down with the bright colors to warn even a truly naive predator off. Both individual associative learning and evolution of the population would strengthen the predators’ reluctance to take the first bite.

But why bother with the color when you already smell bad? While you could argue a number of ways that you get from camouflaged and stinky to neon-bright and stinky, the Norsemen have provided a compelling explanation via mathematical modeling: the stink may actually have driven the evolutionary change in color.

In their computer model, bright colors only tended to get you killed more often, up until a certain level of stink — at that point, the e-animals with subdued coloring tended to get munched more often. And once that potential is there, the small variations generated by genetic drift will inevitably start to push you toward brighter and brighter colors.

It all hinges on the idea that a garish prey animal makes a predator stop and assess rather than jump in to feed, giving it a chance to notice the bad smell. This makes sense; I’ve seen videos of divers chasing after fleeing great white sharks in clear water — while I wouldn’t think this is a bright thing to try in any case, nobody would venture it in murky water, where the fish are known to bite first and ask questions later.

Predation is, after all, an extremely dangerous lifestyle; it pays for a predator to be a bit conservative. Prey fights back, so if you see something you don’t already know is tasty and relatively easy to catch, it makes sense to stop and think rather than risk tangling with something that may seriously injure you (or, in the case of aposematism, poison you).

The theoretical argument even pays itself back. The Viking Veracitators note that, to work on completely naive predators, you need to excrete your stink continuously, even though almost no insects with chemical defenses do this today: they use it only when they need it. The authors’ suggestion: as the heavy lifting shifted from smell to color, continual stink became less necessary to ward the predators off. While they haven’t reported that calculation, it would be nice to see, in future work, whether the bright coloration, once it comes, eases the pressure on the animal to expend the metabolic cost of permanent funk.

Of course, computer modeling ain’t the real world. The experimentalists will need to take this model and run with it, see if it plays out in the field. But it’s a nicely self-consistent argument that seems more than worthy of the experimental verification.

In the context of plausible ideas, it’s a winner.

Saturday, November 7, 2009

Still Ticking

Doing well on surgery +5, now on one crutch -- huge in terms of improved mobility, I can climb stairs and sleep in the bed instead of downstairs like another of the dogs. Hopefully the stitches will come out next Friday, but we'll see.

Heather and Pip are in Virginia, helping look for a kid who went missing after a Metallica concert in October. Sucks for a lot of reasons, but there's always the hope that they'll find something that helps the family -- mainly, evidence that the kid just ran away and will be calling home sometime.

Right now I have some writing to do -- stay tuned for a post on a freelance project that hopefully will be web-posted so I can send yinz there.

Thanks for all the well wishes -- hoping I'll be back on something like a normal routine shortly.

By the way, anybody know how to take your own picture using that @$#%^$ little camera at the top of the Mac screen? I can't find anything in iPhoto that refers to it, and the search function in Macs always seems to miss the point for me ...

Monday, November 2, 2009

Is Roof!


It was even more of a squeaker than it looks -- sundown came moments afterward.

Anyhow, next stop is the hospital -- I'll post subsequently, but at least that's done!

Saturday, October 31, 2009

We Who Are about to Be Butterflied II

Well, I've been remiss again, but have a good reason. In addition to the desperate attempt to re-roof our barn by the drop-deadline, I have the reason for that deadline: left-foot surgery this Monday.

So. "Low risk" surgery aside, petitions to the appropriate deities, wooden fetishes, and beneficent secular concepts are appreciated -- under the circumstances, I'm not fussy. In the next two weeks of my convalescence I will, hopefully, have some time to do an entry or two ...

Monday, October 19, 2009

What Died?

One day, in the Before Time, Heather, I, and our beloved Lilly were out taking a walk on the grounds of a certain defunct Massachusetts mental hospital. The state had abandoned the place decades earlier, and though the buildings stood ominous and dilapidated, the surrounding woods — themselves adjacent to a community park called Rock Meadow — were a wonderful place to train for SAR, ski, ride bikes, or just play.

I think that day we were doing the latter: just walking around, enjoying a beautiful New England autumn day. Lilly was little more than a puppy; Heather and I were little more than children. I’m not much given to wistful reflection on times past, but I think that the three of us were pretty damned happy with each other that day.

Anyhow, we were walking across a clearing alongside the old, unpaved road that ran back from the rear of the facility when Lilly’s body went taut, her tail came up, and she began frantically sniffing at the ground.

Curious as to what she was scenting, I walked behind her, looking at the ground. I saw a puzzling series of rectangular stones set flush with the earth, inscribed with mysterious numbers: P-17; P-33; P-48. Then the numbers changed: C-54; C-22; C-12. Like that.

It wasn’t until I approached a stone dais bearing only the bottom of a crumbled statue that the penny dropped for me: all that remained was the feet, but they were unmistakable: emerging from under a dress or robes, they stood upon a snake.

This Sicilian boy didn’t need to be reminded of his iconography: this had been a statue of the Virgin Mary [1]. And the numbers now made sense: Protestant number 17; Catholic number 22.

We were in a graveyard — the place where the hospital had buried patients who had died without family to take their remains. And though it took me about five minutes to piece that together, Lilly had known almost instantly.

I can’t be sure, either then or today, whether that last statement is actually true. After 18 years of working and training with search dogs, even I have trouble believing what I saw that day: Heather checked later, that graveyard hadn’t had a new tenant in the 20 years since the facility had closed.

Like most wilderness SAR handlers, we had cross-trained our dog to find human remains. But we’d been thinking in terms of finding a fresh, whole body for those tragic but inevitable times when we arrived too late — not detecting the bare bones of a two-decade-old Potter’s Field. I still don’t really know for sure, wonder if my eyes had tricked me somehow.

Well, today’s offering speaks to this question in a fairly direct way: Arpad Vass and homeys, from the Oak Ridge National Laboratory and the FBI’s Laboratory Division, were able to detect 478 unique decomposition-associated gasses from over human graves at the University of Tennessee Anthropological Research Facility. Even more interesting, they observed this nasty bouquet beyond 18,000 “burial accumulated degree days” — the number of days the body was buried times the average daily temperature in that location. Since that part of Tennessee gets 5,234 BADD per year, that means that at least some of the smelly compounds are still going strong three and a half years after burial, and after all the soft tissues are gone.

Pretty amazing, really.

The researchers did a couple of things that puzzled me. They ranked 30 of the compounds they found by “perceived importance,” but don’t seem to define that term in this paper. It appears that an earlier paper from 2004 sampled gases from a decomposing exposed body and ranked them somehow, but I haven’t been able to get hold of it yet. My guess is somebody smelled the test tubes and the rankings correspond with each compound’s contribution to the stink, but I need to get hold of that paper to be sure.

The guys also had a puzzling series of pie charts that show “differences in bone odor composition” in dogs, humans, deer, and pigs — but instead of the intuitive series of a pie chart for each animal showing the percent of aldehydes, amides, alcohols, and ketones in that beast, a la:

they have one chart for each chemical compound with percentages for each animal, thusly:

It shows amply that the four critters have major differences even at this broad level, I suppose, but I’m stumped as to what each percentage means in the latter — they don’t add to 100, for each animal, between graphs. May just be relative proportions reduced to percentages, but I find that a bit confusing.

Anyhow, they pick up only 19 of the 30 gases from cadavers on the surface. They don’t know whether the missing compounds, only seen in buried bodies, are the product of anaerobic decomposition that can’t take place on the surface, or are products of the interaction between the scent gases and the dirt and its microbes, so that’s a question for another day. They also identified 12 of the 30 that emanate from human bones.

This paper pokes a hole in a couple of old dog handlers’ tales: One, that pigs are chemically similar enough to humans to stand in for us as “training materials” for cadaver dogs: the pigs showed profoundly different scent signatures. The other — a rumor circulating among us scent wonks, if not the general dog-handler community — was that polyamines such as cadaverine and putrescine would prove central to “death smell,” and were pretty much the whole sum of certain commercial artificial scents. As I’d understood that these compounds were pretty much characteristic of decomposition, their total absence was a bit of a stunner for me. Gotta get hold of that earlier paper, because it might cast a different light, but right now the only thing even reminiscent of a polyamine on the list is methenamine, at number 28, and as a cyclic it isn’t really the same thing. Other expected stinkies, like the sulfur-containing compounds — dimethyl disulfide and –trisulfide, sulfur dioxide, carbon disulfide, etc. — are present and accounted for.

Again, I need that earlier paper to find out what the rankings actually mean — either the polyamines aren’t as important as I’d thought, or they’re present in a body at the surface but not underground. The latter would be remarkable, given that polyamines are the products of the kind of anaerobic decomposition you’d expect from a buried body especially. So I’ve got more work to do in understanding this one.

While the authors trot out the old trope of the “robotic scent detector” — one that doesn’t really impress me, as a wilderness handler, because the localization problem in my field is far more difficult than the detection problem — but also come down on the side of the angels in that they’re interested in producing standard, verified, published scent tools [2] that can be used to train and verify cadaver dogs. While I remain not-yet-entranced by the idea of artificial scents — you’d better be damned sure you’re giving the dogs something that really is representative of the target scent to train them, or you’re screwed — I recognize that real “training aids” suffer from a huge amount of quality variation [3]. I’m skeptical, but more than willing to see where the research leads.

Most amazing, though, is how this study really leaves the door open for how long these scents persist. I hope the researchers left their apparatus in place, and intend to come back in 10 years or so and see what’s coming out of these graves.

I still don’t know for sure that Lilly had been scenting 20-year-old graves. But I certainly can’t rule it out.

[1] I just love the poetry of this one: the saint whose bywords are nurture, forgiveness, gentleness is the only one who treads Satan below unprotected feet.
[2] Hear that, you companies with proprietary mixes who won’t even release data on how you verified their efficacy? We really aren’t too dumb to understand this stuff, you can keep your secrets but just tell us why you think it works.
[3] Very reminiscent of herbal medicines.

Wednesday, September 30, 2009

Connected

Every culture has its own comfort foods; every family samples from that culture; everyone has his own personal favorites, connected to a million intimate family memories.

For me, comfort foods stem from a little finished basement in South Hackensack, New Jersey. Several folks had a claim to sovereignty over that space: for example my grandfather, Salvatore Gulino, who owned the house; my great-grandfather, Melchiorre Occhipinti, who presided as a kind of family elder statesman over everything we did.

A quick word about my great-grandfather, my “Nannu” — that’s not a misspelling of the Italian, by the way, it’s Sicilian dialect for “grandpa” [1] — or as he was known by my mother’s generation, “Pop.” My mom and her sisters were terrified of him; I mean, this man was a holy terror in his day. My great-uncle, Pete Occhipinti, told a story about facing down union organizers in Pop’s small factory [2]: Uncle Pete told me about how he was yelling at the union rep, trying to scare him off, and that the guy started to get real pale, looked worried. “I thought I was scaring him real good,” my uncle said. “Then I turned around, and saw Pop standing behind me with a big lead pipe in his hand.” The other story was about Pop throwing a guy through a window because he didn’t like the way the guy was dancing with my great-grandmother.

We Sicilians can be an intense people. Very few of us are as placid and pleasant as yours truly.

By the time I came ’round, though, Pop was this kindly, gentle 90-something who, whenever I came by, would give me a dollar bill and a 7-Up and set me to drawing pictures on the vine-covered back porch of his house, next door to my grandparents’.

Man oh man, is it good to be the first grandson in a Sicilian family. I recommend it highly. But I digress.

Arguably, that big, second-kitchen, one-family events center in the basement of my grandparents’ house belonged most of all to my grandmother, Margherita Gulino. If my grandfather Sam was the strength of the family, quiet and gentle and protective, my grandmother, his profoundly beloved “Marge,” was the emotional center. We read the opening to Corinthians 13 at her funeral — a rare reading for a funeral — because it was just, so, her:


If I speak in the tongues of mortals and of angels but do not have love, I am a noisy gong or a clanging cymbal. If I have prophetic powers and understand all mysteries and all knowledge, and if I have all faith, enough to remove mountains, but do not have love, I am nothing. If I give away all my possessions and hand over my body to be burnt but do not have love, I gain nothing. Love is patient and kind. Love is not envious, boastful, arrogant or rude. Love does not insist on its own way. Love is not irritable or resentful. Love does not rejoice in wrongdoing, but rejoices in the truth. Love bears all things, believes all things, hopes all things, endures all things. Love never ends. Now faith, hope and love abide, these three; and the greatest of these is love [3].

Among many cherished memories, I remember, and try to emulate, my grandmother’s cooking. Variations on simple pasta are a mainstay in my house to this day [4]; I recently reproduced a promising, if not-quite-there, cauliflower pie; one of these days I’ll have to try to re-create her tomato-covered mackerel, which was amazing.

But if there’s one thing I remember most fondly of all, it was her ravioli. She’d make them from scratch, of course, rolling out a sheet of pasta dough, spooning out the cheese — her secret ingredient was a little sugar, and sometimes some cinnamon [5] — and then covering it with a second sheet, using a little tool I’ve got to get hold of to cut and crimp at the same time …

To this day, ravioli conjures up a flood of connected memories, partly because memory is so intrinsically linked to the sense of smell. I swear, if somebody exhumes the rotting carcass of Proust’s Madeleine passage one more frigging time, I’ll puke [6] — but the guy got it right nevertheless.

Today, however, we’re going to go a bit farther afield than the, in evolutionary retrospect, unsurprising idea that the structures in the brain that govern memory are connected to those that govern smell. We’re going to talk about the link between metabolic state and smell (as well as taste).

Submitted for your approval: Mssrs. Bronwen Martin & Co.’s review of connections between the metabolic hormones and the olfactory and gustatory systems.

I remember a lecture in a college endocrinology class, when the professor told us a harrowing story of a toddler with a fatal kidney dysfunction who would eat handfuls of salt. Somehow, the kid knew what he needed, even if it couldn’t save him … Then there are the women who become nauseated at the drop of a hat when they’re pregnant — maybe, their bodies are making them avoid any hint of toxin to protect the baby …

Well, today’s paper surveys what we know about how the body’s metabolic state modifies our sense of smell and taste to point us toward what we need.

Maybe the best-understood actor in this context is glucagon-like peptide 1, or GLP-1. It’s a key actor in the body’s system for sensing satiety — when your stomach says, “enough.” GLP-1 release by the intestines signals that the body has taken up a load of glucose, and that it’s time to ratchet up insulin production — which itself is a signal for cells to take up and store the sugar from the blood— and ratchet down glucagon, which has the opposite effects to insulin.

Turns out that GLP-1 is also produced in the taste cells of the tongue, and in the glomerular layer of the olfactory bulb that receives signals from the smell-sensing neurons in the olfactory epithelium. More interesting, GLP has the ability to shift the sense of taste, reducing sensitivity to sweetness and increasing sensitivity to umami, that meaty “fifth flavor” [7] that Westerners didn’t know about until relatively recently, because, well, we’re barbarians. That’s right, the same hormone that tells the body that we have enough sugar on board makes us hanker less for sweets [8]. Its role in smell isn’t as clear, but we know it’s there.

Martin’s crew talk about a number of hormonal actors: for example cholecystokinin, another intestinal signal that encourages digestion of fat and proteins, somehow affects social memory. Neuropeptide Y, a potent natural appetite stimulant/sedative with effects not unlike a good Thai stick, is a major affector of smell as well, encouraging the generation of new olfactory neurons — a process necessary for long-term reprogramming of the nose’s sensitivity to various smells.

Most topical, perhaps, was the mention of leptin, a hormone produced in fatty tissues and whose absence has recently been linked to obesity. Mice who have mutations that make them unable to produce leptin have increased preference for sweets (and also swell up like balloons). Harder to fit into the picture, but as provocative as it is interesting, is the fact that high serum leptin levels are associated with superior odor-discrimination ability in men — but low capacity for odor discrimination by women.

At one level, these connections are almost predictable: of course there are direct links between the body’s systems for digesting food and those that help us find, make us want, to eat more — and what to eat. Of course problems with maintaining healthy body weight are going to involve breakdowns in these signals. Hell, they haven’t even completely nailed all these connections down yet, but it seems a safe bet that, somehow, it will all connect up eventually.

But a step back, and the mind reels with the delicate intricacy of the signals and counter-signals. Everything is connected; from the simple quorum-sensing molecules that bacteria use to communicate with each other nature has developed a rich, complex dance of molecules and electric impulses that make it all work.

Connections.

One more food/connections story about, or rather from, the basement on Leuning Street: it’s from a day when Heather was a brand-new girlfriend, come down to meet my family maybe for the first time. My aunt Dorothy was still alive, and my aunt Barbara and my mother were still talking to each other. The discussion came down to braciola, a southern Italian specialty of flank steak, pounded flat, and rolled up with spices and pine nuts in tomato sauce — if you do it right, there’s a hard-boiled egg in the center. But not everybody does it right [8].

My aunt Dee was trying to remind my mother of a neighbor they’d had, decades before. “He lived in that brick house,” Aunt Dee said, and I wondered, from the way she’d said it, if the house even existed any more. Certainly, it wasn’t spurring any memories for Mom.

Dee thought for a moment, then brightened, and said, holding up a fork, “He choked to death on a braciola string.”

That did it: Mom had it now; everybody nodded, and went back to the meal.

[1] Note that many folks believe that Sicilian deserves status as a language in its own right, separate from Italian.
[2] What can I say: we were rare, for the period, Italian-American Republicans. I actually worked in that building one summer, for a machine shop that was leasing it from Uncle Pete. I’ll have to post on it sometime, but let’s just say if it hadn’t been for who my uncle was they’d have fired my clumbsy ass.
[3] Say what you want about Paul; I defy you to argue he didn’t get this one right.
[4] I consider myself no slouch. Maybe my best dish is cacciatore, which I admit I tinkered with for years to duplicate not my grandmother’s recipe, but
Michelle’s Restaurant’s, in Garfield, which now seems to have become a banquet hall. Not the same thing; you really can’t go home.
[5] I know it sounds a bit weird. But it works.
[6] Which I just did. Blaaaaaaaaaaaaaaaaaaaaaaaaaaaaaugh.
[7] Add it to sour, salty, sweet, and bitter, the four “classical” flavors. Everything else in flavor comes from the aroma, not the actual taste.
[8] Until I looked up the Wikipedia entry, I didn’t know the name braciola was a misnomer common to Italian-Americans. How ’bout that.