Snowcat

December 18, 2013 • 11:32 am

Reader Ron sent in this cat decked in a cute snowman suit for the holidays. I love its expression.  Ron’s note:

This is Cat – he owns my daughter Pam. You’ve seen him before as one of the cat-beards. I’m not sure if he’s unhappy with the costume, or with the up and coming Christian festivities.

Snowman cat

If Cat could talk in this photo, what would he say?

A later addendum from Ron:

 And just to show he isn’t as grumpy as he looks, see the attached. He’s a cat of many faces.

Compare the sweet cat face below to the angry one above, and note which facial features change to make a cat look mad.

NYC-2011-12-7527

Prominent Muslim doctor in Britain opposes all vaccination

December 18, 2013 • 10:16 am

One of the things that religion poisons is human health. I’ve posted extensively on how Christian sects that spurn modern medicine, like the oxymoronically-named “Christian Science,” have caused the deaths of many. And the rest of us, including “moderate” believers, enable this poisoning by making laws that allow people to withhold medical care from children on religious grounds. Since the children are either uncomprehending, brainwashed, or powerless, I see this as one of the most horrible effects religion has on society. It’s also a blatant demonstration of the incompatibility between religion and science, which is another way of saying the incompatibility between rationality and irrationality.

And the medical irrationality is not just limited to Christians.

Dr. A. Majid Katme is a spokesman for the “Islamic Medical Association (UK)” and its former head, described by Brian Whitaker in The Guardian as a “respected figure in the British Muslim community. ” Katme is also a big danger to society. He opposes vaccination—all vaccination—as un-Islamic.

If you want to read a pernicious and ignorant document, go see Dr. Katme’s post, “Islam, vaccines, and health,” written in 2011 for the “International Medical Council on Vaccination” (IMCV). Orac has posted several times on the IMCV (e.g., here), which, although it has Ph.D.s and M.D.s as members, is basically just a crackpot anti-vaxer group.  In the case of Katme’s piece, it’s suborning quackery.

Katme’s document asserts several things:

  • That vaccines contain poisons. He mentions “heavy metals, pus from sores of diseased animals, horse serum, calf serum, faecal matter, foetal cells, urine, macerated cancer cells, sweepings from diseased children, formaldehyde (a carcinogen used in embalming fluid), phenol (a carcinogen capable of causing paralysis, convulsions, coma, necrosis and gangrene), lactalbumin hydrolysate (an emulsifier), aluminium phosphate (an aluminium salt that is corrosive to tissues), retro-virus SV-40 (a contaminant virus in some polio vaccines), antibiotics (e.g., neomycin tm) that lead to antibiotic resistance, chick embryo (as a growth medium for the virus), sodium phosphate (a buffering salt), and foreign animal tissues containing genetic material (DNA/RNA) from the growth medium.”  Some of these are correct, some not, but what they do contain contain is antigens that protect against disease.   The list of chemicals (none of which are in any one vaccine, and really, “pus from sores of diseased animals?”) is there as a scare tactic.
  • That vaccines are based on a flawed theory: “the long-discredited theory that stimulation of antibodies in the human body equals protection from disease.  This theory has not only failed to be proved, but has been repeatedly disproved.  Stimulation of antibodies does not equal immunity and certainly does not equal permanent immunity.” He’s wrong here, unless by “proved” he means “logically proved.” In fact, immunity to disease is conferred by prompting the production of antibodies.  Some immunity is permanent, some not (ergo revaccination, usually orally, for polio).  But the fact that the theory is wrong is just pure misrepresentation.
  • That vaccines haven’t been tested against controls: “Unthinkably, vaccine studies do not include placebo groups.  Instead, they use other vaccines in ‘control’ groups, making it impossible to properly note actual rates of adverse events between a test group and real control group.” He’s wrong here, too, as you can see by doing about 30 seconds of Googling about control groups in the history of vaccination. Controls were there from the beginning, including Jenner’s tests on cowpox. And the controls weren’t “other vaccinations”; they were either the injection without the antigen, or no injection at all. And of course the vaccinated group had significantly less disease than the unvaccinated one.

Of course, none of this comes from science. What it comes from is religion, which Katme makes clear:

  • “The case of vaccination is first an Islamic one, based on Islamic ethos regarding the perfection of the natural human body’s immune defense system, empowered by great and prophetic guidance to avoid most infections.”

Well, we know what the “pure” Islamic way of not vaccinating leads to: smallpox, polio, whooping cough, measles, mumps, and all manner of avoidable diseases. Oh, and HPV as well, which is totally preventable by vaccination.  Here’s Katme’s take on that:

  • “Sexual immorality and adultery are stirred by offering our daughters HPV vaccination against cervical cancer.”

Good Lord! He’s one of those who, like some Catholics, prefers young women to die than to have sex. (He also notes, wrongly, that “Notably and incredibly, the HPV vaccine is shown to make some recipients even more susceptible to cervical cancer.”)

If people tell us that Islam is innocuous, a religion of peace, just cite the above. If Muslims took Katme’s advice and stopped vaccinating children, the world would experience dreadful epidemics of smallpox and polio.  With the vaccines, we’ve wiped smallpox off the face of the earth. We’d get rid of polio, too, but Islamic clerics in Afghanistan, Pakistan, and Nigeria urge believers to oppose polio vaccination, claiming it’s a plot to sterilize Muslims. And, of course, it’s in those places that polio keeps popping up.

Oh, I forgot: maybe we can blame the anti-vaxer stance of many Muslims not on religion—even though that’s the motivation they claim—but on those colonialist oppressors with their Western medicine and needles.

New date on first domesticated cats: ca. 5300 years ago—and in China

December 18, 2013 • 6:51 am

Several readers sent me a link to or news report about a new paper in Proceedings of the National Academy of Sciences by Yaowu Hu and colleagues (reference and link at bottom).  The paper reports the discovery of cat remains associated with a 5200-5500-year-old human settlement in east-central China. Since the earliest domesticated cats from China were previously known from only 2000 years ago, this pushes Chinese cats back a considerable distance.

The question is to determine whether these really were semi-domesticated cats, and that’s the main problem of this paper. The evidence is suggestive, but not super-compelling. But first let me tell you what we know about the history of cat domestication. Rather than rewrite the paper’s introduction, I’ll just present it verbatim, as it’s clear enough.

Studies of mitochondrial DNA from modern wildcats and domestic cats demonstrate that ancient populations of Near Eastern wildcats (Felis silvestris lybica) were the maternal ancestors of domestic cats. A wildcat phalanx from the site of Klimonas shows that they were introduced to Cyprus 11000–10500 B.P. (all dates are reported in calibrated years before present), providing the earliest connection between humans and cats. The earliest cat to demonstrate a close association with humans is also from Cyprus, where a young wildcat was interred next to a human at the site of Shillourokambos ca. 9,500 y ago. Isolated cat bones have been found at Near Eastern sites, such as Jericho, but little is known about the crucial period for cat domestication between 9,000 and 4,000 y ago. Healed fractures on the forelimbs of a young swamp cat (Felis chaus) buried in a ca. 5,500-y-old grave at Hierakonpolis in Upper Egypt indicate that wildcats were actively cared for by ancient Egyptians. However, the first evidence for domestic cats is based on Middle Kingdom Egyptian art dated to ca. 4000 B.P. Trade in cats was prohibited in ancient Egypt, but they were nevertheless exported to Greece around 3,000 y ago and from there to Europe. Cats were thought to have first appeared in China around 2,000 y ago. Claims for earlier cats in the region have been made (Table S1), but without precise dates or detailed biometric measurements these have been difficult to evaluate.

The authors hypothesize that some subspecies of Felis silvestris (perhaps native, or perhaps a semi-domesticated immigrant from the Middle East) was becoming more domesticated by associating with the people from this site, who raised and ate grain (the authors found remains of millet and a bit of rice). Because the bowls for storing grain at the site were shaped in a way to discourage rodents, and because the authors also found rodent bones at the site (including the Chinese “zokor”), the idea is that cats domesticated themselves by hanging around the settlement nomming the grain-attracted rodents.  Then, the story goes, they became tamer, their flight distance became reduced, and, at least in China, humans began feeding them grain. This is not a new story: it’s the old idea that cats weren’t domesticated by humans, but domesticated themselves.

At any rate, here’s a sketch of one of the anti-rodent pots, taken from the paper’s “supplemental material.” I guess zokors couldn’t climb up the outward-sloping sides:

Picture 1

More evidence for domestication: the authors found 8 cat bones at the site (mandible, humerus, pelvis, tibia, and femur) from at least two individuals (though, curiously, the graph below suggests three). One of the jawbones—”A” in the figure below—showed a “worn fourth premolar and first molar.” The authors imply that aged cats mean semi-domesticated and well-fed cats, though I’m sure some cats in the wild can live long enough to get worn teeth. Carbon-14 dating put the cat bones at about 5300 years old.

Picture 2

The third piece of evidence is based on body size. The cat from the Chinese site (they measured just one set of bones) is larger than modern house cats measured in Czechoslovakia, but smaller than modern European wildcats, although this intermediacy is not uniform. The pelvis of the Chinese cat, for instance, is 79 mm in “GL” (not sure what that means, though perhaps “girth left,” since they measured only the left side), compared to a mean of 44 mm for modern Czech cats and 53 mm for modern European wildcats from the Carpathians. The cat is also a tad smaller in some bone measurements than cats from ancient Egyptian sites.

From the intermediacy of these measurements between modern house cats and modern wild cats, they conclude that the data “are suggestive of domesticated cats.” But I don’t find this at all convincing. They’re implying that domestication leads to smaller cats, which may be true, but size is also determined by nongenetic factors like health and nutrition. Moreover, if there was an ancient subspecies of Felis silvestris in China that was smaller than the modern European wildcat, these could be pure wildcats that were hanging around the settlement. I find the size measurements unconvincing evidence for domestication.

Finally, the authors give isotope data (carbon and nitrogen) taken from bone collagen collected from specimens at the site. From this they try to infer something about diet.  Here are the plots for δ13C (the ratio of C13/C12) and δ15N (the ratio of N15/N14) for each animal measured, including humans. Here are the plots. The cats (why are there three dots instead of two?) show intermediate values for the nitrogen ratio and higher values for the carbon ratio. Sadly, no pure carnivores were measured, as there were none at the site.

From these data the authors conclude—well, nothing that I can sign onto.  For example, it’s clear that the cats weren’t eating the same stuff as deer and fish, but since cats are carnivores and neither fish nor deer are, that’s not surprising.  But they also say that the high δ13C ratio for humans “suggested that the individual consumed a large amount of C4-based animal protein”.  Just a few paragraphs later, though, they say that “the common Chinese zokor [a rodent] had a high δ13C value, indicative of the consumption of millet products”. Well, which is it? The data also suggested to the authors that the cats were eating millet, too. But cats are carnivores, and why weren’t they eating rodents? Will cats eat millet if they can get it, or are fed it by humans? Do the data even suggest that cats were eating millet?

Picture 1 08-15-08

In the end, I can’t make heads or tails of the isotope data (though it may be simply reflect my own ignorance). Nevertheless, interpreting that data seems to involve a lot of speculation. The authors say, for instance:

Together, the spread of millet farming and commensal rodent populations attracted cats and provided incentives for farming communities to support them. The cat population at Quanhucun survived for several hundred years, with one of the individuals that we studied living to a considerable age, suggesting a favorable environment for cat survival. One animal stands out from the others, with a high δ13C value (−12.3‰) and low δ15N value (5.8‰), suggesting that it ate large quantities of agricultural products and did not rely as heavily as expected on rodents or other small animals for food. These data are intriguing, raising the possibility that this cat was unable to hunt and scavenged for discarded human food or that it was looked after and fed by people.

That is a LOT of speculation. Had I been the editor of this paper (it was Dolores Piperno from the Smithsonian), I would have suggested that the authors need to clarify a lot of things, and avoid so much speculation. If I can’t understand the isotope data after two readings, then neither will the average reader.

But the paper is still valuable in other ways. It gives evidence, for instance, that cats were living in at least loose association with humans more than 5,000 years ago in China, just at the time when they were supposed to be getting domesticated in the Middle East. (Mitochondrial DNA tells us that all modern housecats descend from Felis silvestris lybica from the Middle East.) So if these are domesticated cats, and ones not domesticated in situ in China, how did they get from the Middle East to Shaanxi? There are Asian subspecies of F. silvestris, too, and perhaps those were domesticated independently and later acquired their mitochondrial DNA by hybridizing with cats brought from the Middle East. (Mitochondrial DNA introgresses rapidly between subspecies and species, while nuclear DNA can remain distinct.)

What this all tells us, I think, is the unsatisfying but common conclusion that “more work needs to be done.” The problem is that it’s very difficult to look at nuclear DNA from bones, and I’m not sure how much to trust the isotope data. At any rate, we’re not justified in concluding either that cats were originally domesticated in China (which some newspapers have suggested), or that the cats domesticated themselves in China, eating both grain and rodents. That must await further work.

Hili, are you reading this?

_______

Hu, Y., S. Hu, W. Wang, X. Wu, F. B. Marshall, X. Chen, L. Hou, and C. Wang. 2013. Earliest evidence for commensal processes of cat domestication. 10.1073/pnas.1311439110 Proceedings of the National Academy of Sciences, early edition.

From my windowsill

December 18, 2013 • 5:28 am

My own bird photography can’t match that of several readers who contribute pictures, but I’ll proffer the picture of a bird who comes to eat seeds on my lab windowsill.  He gets along well with the sparrows; there’s no antagonism when they feed together.  I snapped this northern cardinal (Cardinalis cardinalis) two days ago when it was snowing. They’re truly beautiful birds.

Click to enlarge.

Cardinal

I have discovered that squirrels, if given food, will be active even on the coldest days in Chicago (I thought that though they don’t hibernate, they sleep most of the winter).  They are clearly burying most of the nuts I’m giving them rather than nomming them, and I’m doling out extra rations as I’ll be leaving soon for 19 days.  I know they’re burying them because one ran off with two peanuts the other day and returned five minutes later, his snout covered with snow.

But when they do nom and it’s cold, they use their tails as extra insulation, pressing them tightly against their backs, like this one eating a hazelnut. (Yes, I spoil them.)

Squirrel

Hooky!

December 17, 2013 • 1:16 pm

Unless I’m on vacation, I’m rarely out of the office on a weekday, so when I am, even when I have to do a chore, it feels like playing hooky.  Today I had to take The dinged-up CeilingCatMobile to the body shop, which involved a trip to downtown Chicago.  Since I was there already, I decided to have some fun (read “noms”), and I turned down a free ride home so I could go to nearby Xoco.

This is a restaurant opened several years ago by Rick Bayless, the Chicago chef who became famous for serving both upscale and authentic Mexican food. You may have seen his shows on PBS. It’s right next door to his other two places, the Frontera Grill and the fancier Topolobampo (the former is excellent though crowded, the latter overpriced).  Xoco is a different venture, serving fancy but tasty versions of Mexican street food, including caldos (soup), tortas (sandwiches), and snacks like hot chocolate and churros. It gets excellent reviews, and since it was about a ten-minute walk from the body shop, I went.  Here it is (click all photos to enlarge:

Xoco

Here’s the full menu (hungry yet? Click it!)

Xoco specials

And the special tortas of the day. The guy behind the counter recommended the Tuesday special, carne asada (steak) with ramp chimichuri, wild mushrooms, and homemade crema (Mexican sour cream).

P1040885

Here it is, with green chile chimichuri, and oy, was it good!

Sandwich

For dessert I had a pair of hot, fresh churros and the best cup of Mexican hot chocolate I’ve ever had. They grind the cocoa beans for you right before they make it:

Churros

For a digestif, I walked through the snowbound city. The view of downtown Chicago from the river is unparalleled, for it shows the diversity of architecture from classic and original skyscrapers to modern high-rises. There’s one thing about Chicago architecture: virtually all the big buildings are beautiful, and that can’t be said for cities like New York. Chicago prides itself on being the architectural capital of the U.S.

The classic view, with the 1959 “corncob” pair of towers, Marina City, and one of my favorite Art Deco buildings on the right, the Carbide and Carbon Building (1929) to the right and in the distance::

Chicago landscape

The corncobs:

Corncobs

And two new buildings. I love the new shiny one in the middle, though I don’t know its name. The white building on the right is the Wrigley Building, built by the chewing gum magnate in 1921.

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And the lovely Art Deco tower of the Carbide and Carbon Building, whose facade is black granite, deliberately used to mimic the color of carbon. Isn’t it a doozy?

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Oy, am I full!