john hawks weblog

paleoanthropology, genetics and evolution

Flores

  • Mechanisms of development and body size

    Wed, 2008-03-12 11:34 -- John Hawks

    I'm just doing some background reading about the body size of pygmies (for both obvious and not-so-obvious reasons) and I thought it worth making a note of this quote, from last year's paper by Andrea Migliano, Lucio Vinicius, and Marta Lahr:

    Finally, the data presented here show that pygmy body size evolved through earlier cessation of growth, being therefore the result of changes in late rather than early stages of growth. This explains why brain growth, which is completed years before the onset of adolescence (28), is not affected in human pygmies (29). Therefore, if Homo floresiensis is a dwarfed form of Homo erectus, as proposed in ref. 29, the evolution of small body size on Flores could be understood as the life history consequence of ecological conditions in islands, such as increased extrinsic mortality rate and reduced resource availability (30); however, its small brain size and low encephalisation require the postulation of different adaptive mechanisms affecting earlier stages of development.

    That's the concluding paragraph of what is a very nicely-done study of mortality and fertility in pygmy populations. It came out the during the acceleration press flurry in December, so I wasn't able to write it up at the time. It's certainly worth doing so, though.

    The paper proposes that pygmy human populations are small because of a life history tradeoff. A "tradeoff" is the idea that a phenotypic change in either direction may have advantages and disadvantages, and selection may arrive at different optima in different populations.

    In the case of life history and body size, both growing longer (and larger) and maturing faster (and smaller) have possible payoffs. Growing longer may have a fertility payoff, as larger size facilitates larger infants and shorter birth intervals. But maturing faster has a direct payoff of shortening the generation length -- all other things equal, an individual improves her fitness by reproducing younger.

    So either younger or older maturation may enhance fitness, in some circumstances. Which will work in any given population depends on other factors -- in particular, the mortality pattern. If individuals have a high risk of death in early adulthood, delaying reproduction will be a bad strategy. In short, individuals should reproduce at 16 (or earlier) if there is a fair chance they will be dead by 25 or 30.

    Naturally, everyone would rather live longer. But assuming that people can't control when they die, the only way to insure their fitness is to reproduce earlier.

    This hypothesis, presented by Migliano et al., is about the proximate mechanism of evolution. The authors seem content to rely on traditional hypotheses about locomotion, nutrition, and thermoregulation to explain the ultimate causes of small body size -- "ultimate" in the sense that these may be the environmental causes of high mortality:

    If our hypothesis is correct, the causes of the extremely high mortality rates among human pygmies need to be explained. It is here that the traditional hypotheses explaining the small body size of pygmies may prove useful. Although the challenges posed by thermoregulation, locomotion in dense forests, exposure to tropical diseases, and poor nutrition do not account for the characteristics of all pygmy populations, as pointed out by Diamond (5), they may jointly or partially contribute to the similarly high mortality rates in unrelated pygmy populations. We argue that the small body size of African and Asian pygmy populations evolved independently as a case of evolutionary convergence, resulting from a life history tradeoff between the fertility benefits of larger body size and the costs of late growth cessation under the circumstance of significant young and adult mortality.

    The demographic data presented in the paper are sobering -- particularly the low survivorship values for pygmy populations across late childhood and early adulthood. However, I wonder how much of the early adult mortality in the pygmy demographic data is attributable to new pathogens. These are certainly important today, but they would not have been during most the time that small body size was being selected in these groups. On the other hand, ancient endemic pathogens and parasites also may contribute to those mortality numbers, and these might well have occurred at higher intensities in forest peoples across their histories.

    References:

    De Souza R. 2006. Body size and growth: The significance of chronic malnutrition among the Casiguran Agta. Ann Hum Biol 33:604-619. doi:10.1080/03014460601062759

    Migliano AB, Vinicius L, Lahr MM. 2007. Life history trade-offs explain the evolution of human pygmies. Proc Nat Acad Sci USA 104:20216-20219. doi:10.1073/pnas.0708024105

  • A hard bolide to swallow?

    Fri, 2008-03-07 11:21 -- John Hawks

    For those of you who may be wondering what is wrong with paleoanthropology that we can't just resolve the hobbit problem, I can only say one thing: We are not alone.

    For instance, there is the idea that a "mammoth-killing" impact caused the Younger Dryas, suggested in a paper last year by R. B. Firestone and colleagues.

    If you like the idea, this seems like a bad sign:

    Archaeologist Vance Haynes, professor emeritus at the University of Arizona, Tucson, is finding likely looking magnetic spherules in the darnedest places. He has spent 30 years studying Clovis sites, many of which the Firestone group sampled. As a check on his own ongoing independent analysis of YD samples, he collected a modern sample. "I got 300 grams of dust off the roof [of my house], and it's full of magnetic microspherules," he says. Whether they are the melted, iridium-rich micrometeorites that continually drift down from the upper atmosphere or the product of high-temperature industrial processes such as coal burning, he doesn't yet know. Either way, they could be trouble. The cosmic dandruff of microspherules could have salted sediments forming 12,900 years ago with iridium, while the humanmade variety might have settled on modern outcrops before sampling.

    That's from a long news article in Science by Richard Kerr, titled "Experts find no evidence for a mammoth-killer impact."

    Like almost every other temperature fluctuation of the last 80,000 years, the Younger Dryas has been attributed with quasi-magical power: in this case, the power to kill mammoths and extinguish cultures. And hey, maybe it really did...but I have a lot of skepticism when associations are made on the basis of dating uncertainty. It would help if these climate changes would affect every species and culture, rather than showing catastrophic effects on particular ones without showing any signs of affecting others.

    Of course, without the biological and cultural fallout, the story of a particular climate cycle isn't very interesting. Nobody would care. With the Younger Dryas, we have human archaeological evidence from all over the world 12,900 years ago. Surely something will match! Of course, the megafauna didn't become extinct precisely then, exactly. But no matter -- it's close enough. Surely these events would have been devastating for animals and plants, right? Most of them were lucky enough to escape the devastation with their lives, but a few unlucky victims because extinct, thousands of years afterward.

    A meteor helps to spice it up, and in this case we have the whole package:

    The catastrophe had taken place a geologic instant ago--closely coinciding with the disappearance of North America's mammoths and the continent's earliest human culture (Science, 1 June 2007, p. 1264). Then came the 26-author paper last October in the Proceedings of the National Academy of Sciences (PNAS), not to mention the hourlong National Geographic Channel documentary running on cable since last October, with more coverage on the way from the History Channel and PBS's prestigious program NOVA.

    Uh, yep. Sounds familiar so far. Now is the time to bring out the spurned skeptics:

    "The whole thing is contrived," says geochemist and impact specialist Christian Koeberl of the University of Vienna, Austria. "Their data don't agree with anything we know about impacts. It just doesn't make any sense. Occam's razor has been put safely in a drawer somewhere."

    Kerr lists an impressive array of scientists who think the evidence for an impact doesn't add up. I don't have any particular opinion -- my main skepticism concerns the proposed link between climate change and Clovis, which is a separate issue from whether an impact occurred.

    But the story is a good one to watch, and has many parallels to the Flores hobbit story, considering different standards of evidence, the interactions of specialists from different scientific specialties, and the use (or abuse) of the press.

    P. S. A number of abstracts from the 2007 AGU meetings pick up the question.

    References:

    Firestone RB and lots of others. 2007. Evidence for an extraterrestrial impact 12,900 years ago that contributed to the megafaunal extinctions and the Younger Dryas cooling. Proc Nat Acad Sci USA, 104:16016-16021. doi:10.1073/pnas.0706977104

    Kerr RA. 2008. Experts find no evidence for a mammoth-killer impact. Science 319:1331-1332. doi:10.1126/science.319.5868.1331

  • Hobbit cretin FAQ

    Thu, 2008-03-06 22:00 -- John Hawks

    It's all over the news this week: Australian researchers Peter Obendorf, Charles Oxnard, and Ben Kefford claim that the Homo floresiensis skeleton LB 1 belonged to an individiual suffering from congenital hypothyroidism, or cretinism. The disorder has a number of developmental and skeletal effects, including short stature, and they run through a list of LB 1's characters that appear to match the disorder.

    Needless to say, others disagree. So here is my take:

    Is LB 1 a cretin?

    No.

    The authors of this research provide a list of characters of the fossil that are consistent with the diagnosis of cretinism. Some of them are interesting, in that they have not previously been connected to any pathology. But the most important observation is simply wrong. With that falls the hypothesis.

    Is the pituitary fossa of LB 1 large?

    The diagnosis of cretinism would be most strongly supported by the authors' claim that LB 1 has a large pituitary fossa.

    If you haven't learned this lesson yet, take note: If Ralph Holloway and Dean Falk agree on an anatomical observation, then it is correct.

    The two have been interviewed in a number of the press articles. My favorite comes from Kate Wong, where both Holloway and Falk give long statements. These are really too long for me to block quote, so go read them. But I'll take one sentence from each:

    Falk:

    Now that we've reexamimined the CT images, we can tell
    you that there is absolutely no way that the length of the pituitary fossa could be 12.9 mm.

    Holloway:

    ...the pituitary fossa on my endocast is, to my mind, tiny, and I don't get much more than about 6 mm in dimensions, either [anterior-posteriorly] or in breadth, so I don't understand where they have data to make such a claim.

    That's the end of this story.

    How did the paper get that so wrong? I mean, didn't they just measure it?

    They took the images of CT scans presented in the supplementary data to Falk and colleagues' 2005 paper on the LB1 endocast, blew them up, and attempted to measure the length of the pituitary that way. To understand where they went wrong, I did the same thing. Here's the picture, blown up:

    LB1 endocast, basal view

    Supplementary Figure 2e from Falk et al. 2005, focusing on LB1

    An estimate of 12.9 mm is wrong on many levels. For one thing, how many significant digits do you think you could get out of that figure? The blown-up version is clearly very pixelated. That by itself might not be so bad -- after all, a medical CT begins with limited resolution anyway -- but in this case there is no clear way to identify the borders of the pituitary fossa. We might well do better with the endocast itself, or with the ability to rotate and relight the CT image, because we could explore the contours more thoroughly. Here all we have is a computerized rendering of the surface in which our recognition of the detail depends entirely on the simulated lighting.

    This is where they went wrong. No replicable estimate is possible from that rendering, but they went with one anyway.

    But everyone knows that you can never do any real research using photographs. You must examine the original specimens!

    In my opinion, that would be exactly the wrong conclusion to draw from this case. The problem was not that they attempted a new measurement on a photograph; it was that this rendering is not a photo, and does not provide sufficient information for such a measurement.

    In some cases, a well-resolved photograph can give better basis for a measurement or comparison. In almost all cases, a research article accompanied with original photos will allow experts to assess the accuracy of claims and replicate the observations. Making work as easily replicable as possible should be the goal of every good scientist.

    It doesn't help to read things like this, from the Rex Dalton article in Nature:

    [Peter] Brown is critical of the cretin theory. "I am the only person on the planet to have seen what's left of the pituitary fossa," he declares. "It is very poorly preserved and not capable of meaningful measurement."

    It may be true, but that doesn't make it science. If nobody can see it, then nobody can replicate it. Which means we have no reason to believe it.

    Happily, in this case independent experts have access to the scans and can tell us what they look like. On the other hand, if I were sitting on scans like these, with people publishing critical articles every couple of months, you can bet I would put them on an FTP site and let everybody have them. Three quarters of the problems would immediately vanish, because people could refute their own hypotheses before they went anywhere, and reviewers could work from the best information also.

    The remaining quarter of the problems would at least be interesting!

    Oh, now that can't be the most boorish of the comments in the press. I mean, after all, this is the hobbit!

    Well, let's see....from The Australian:

    The [cretinism] notion's been ignored for good reason, said evolutionary anatomist and paleoanthropologist William Jungers of Stony Brook University in New York state.

    "The cretin and hobbit (body types) exhibit virtually no similarities except for short stature. That is, they're both short. End of story," said Professor Jungers who has studied the hobbit remains first-hand.

    "The only merit to this paper is their correct dismissal of a competing 'pathology du jour' called Laron Syndrome (which causes skeletal deformities). The rest is a rather large and stinky pile of misinformation and wild speculation," he claimed.

    Or, this one, from the same article:

    A final kick came from biological anthropologist Colin Groves of the Canberra's Australian National University: "I recall spending an hour or so in the pub with Peter Obendorf about three years ago when he confided to me about this latest bee in his bonnet."

    "As fast as he produced supposed similarities I put stumbling blocks in his way. I warned him that he would simply be laughed to scorn if he produce what is mainly idle speculation," Professor Groves claimed.

    Ha, ha, ha! Here's Groves again, in The Guardian:

    "I regret to say that this paper cannot be regarded as a contribution to our understanding of the Flores hominin," said Prof Colin Groves, a bioanthropologist at the Australian National University, Canberra. "Many of the claims lack evidence (ie they are sheer speculation), some even fly in the face of the evidence. I am very sorry indeed to see serious scientists involved in such a travesty."

    Remind me never to sit in a pub with Colin Groves!

    Then there's this piece of legal news:

    "The Tolkien trustees do not file lawsuits lightly, and have tried unsuccessfully to resolve their claims out of court," Steven Maier, an attorney for the Tolkien estate based in Britain, said in a statement. "New Line has not paid the plaintiffs even one penny of its contractual share of gross receipts despite the billions of dollars of gross revenue generated by these wildly successful motion pictures."

    Ooops....wrong hobbit....

    Is there anything salvageable out of this?

    Well, they wrap up a number of the skeletal features of LB 1 into their cretinism hypothesis. My personal opinion is that you have to start by explaining the brain size, and cretinism doesn't. None of their comparative sample of European cretin specimens has a brain size smaller than 1000 g. The paper claims that these would "scale with height" down to 700 g, but that is just a projection outside the data's range based on the regression.

    Without an explanation for the brain size, and without any unique character to confirm the cretinism hypothesis (like the pituitary size), they have to resort to a list of the known problematic characters of LB 1, such as the Tomes root, the humeral torsion, the relatively large foot and broad diaphyseal breadths. But these match other pathological explanations as well -- most of them were cited in the Laron syndrome paper, for example.

    To the extent that these features are "developmental abnormalities," they may be explained by any number of conditions. It's possible that they may have resulted from a unique evolutionary history, either as side effects of other adaptive changes in a small population, or as fixed deleterious variants.

    The multivariate analysis of the skull measurements is not convincing. Of course, it is extraordinarily rare for me to find a multivariate comparison convincing about anything.

    References:

    Dalton R. 2008. Hobbit was 'a cretin.' Nature 452:12. doi:10.1038/news.2008.643

    Culotta E. 2008. Were the Flores hobbits really cretins? ScienceNOW March 5, 2008. Full text

    Obendorf PJ, Oxnard CE, Kefford BJ. 2008. Are the small human-like fossils found on Flores human endemic cretins? Proc Roy Soc Lond B (early) doi:10.1098/rspb.2007.1488a>

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  • New Year's predictions, 2008 edition

    Sun, 2008-01-06 08:34 -- John Hawks

    It's that time of year again -- the time when those boring ``Year in Review'' magazines are on newsstands, and when pundits make fools of themselves predicting what will happen in the next year.

    Well, I'm not too proud to join the fools, as I've shown the last two years. In 2006, I got five predictions right out of ten. Not bad for my first outing, but you'll see that last year's predictions fared even better:

    • 10. Sahelanthropus postcrania will be published. I'm frankly shocked that this didn't happen. I don't doubt the rumors, but I'm starting to wonder whether this story is more interesting than it looks....
    • 9. Two words: Holocene evolution. OK, this was a little unfair, considering that my work was an important part of making this prediction come true. Still, Discover made ``recent human evolution'' one of its top 100 science stories of the year, even before our December paper came out -- mainly on the strength of the paper by Scott Williamson and colleagues from earlier this year. And "Human genetic variation" was Science's "Breakthrough of the Year" -- most of that variation representing recent evolution.
    • 8. Despite (or because of) the success of the Neandertal genome project, there will be no genetics of any kind published on early modern skeletal material. Puzzling, isn't it? But then, considering the trouble with Neandertal contamination reported in August, maybe we're better off leaving the early Upper Paleolithic alone for a while.
    • 7. The mitochondrial history of human dispersals will become more and more detailed, but no paper will test against other loci. D'oh! Reading this one a year later, it's pretty obvious that I should have included Y chromosome in this one, since those two get compared all the time! Proofread, Hawks!
    • 6. Another (yes, another) paper about the chimpanzee-human divergence will peg it between 5 and 7 million years ago. Will they never tire of these? Hobolth et al. (2007, PLoS Genet 3:e7) pegged the divergence at 4.1 million years. That's too recent to fit my prediction. Instead, I have to turn to Ebersberger et al. (2007, Mol Biol Evol 24:2276), who placed the divergence at 5.7 million years ago. Both estimates are too recent for Sahelanthropus, which the geneticists have started to figure out....
    • 5. Three papers with new Ethiopian fossils. The last few years, one annual Ethiopian find seemed to be predictable enough. So I figured, why not three? We got a not-nearly-noted-enough paper this summer by Gen Suwa and colleagues descringing the Konso Homo erectus remains. Then, Suwa brought us Chororapithecus -- hey, I didn't say "hominid!" That's two. But despite the long-ago announcement of the Woranso-Mille skeleton, its appearance in a meetings abstract and a mid-summer press release about further Mille fossils, all we got from the peer review system is a lousy faunal list. Well, the faunal list does include the hominids. Should it count as a "paper with new Ethiopian fossils?" I'll say yes -- hey, unlike Aramis, at least the Mille fossils are new!
    • 4. Another early Upper Paleolithic specimen will emerge from a museum collection. The only bizarre thing about this one was the location: South Africa. Hoffmeyr may not be that convincing as a European early Upper Paleolithic skull, but it was sure sold that way. Weird.
    • 3. A big year for Miocene apes, which will look increasingly important in the story of human brain evolution. No brains, but it sure was a big year for Miocene apes, with two significant East African discoveries claiming to push back the timeline of African ape divergence.
    • 2. Maturation rate in early Homo becomes a dead issue, because of the variation in dental and skeletal maturation in living people. Wishful thinking. Still, did Tanya Smith (2007) breathe new life into perikymata? Let's just say that unresolved questions remain.
    • 1. The year will end without a single new hominid species having been named. This one was like dodging a bullet, since new species riffle out of paleoanthropologists' minds all the time. From 2001 to 2006, there were six (six!). In 2007, none.
    • BONUS: A dramatic development in the problem of pre-2.0-million-year-old Homo. Rats.

    OK, that's seven out of ten. It's beyond belief that I did better in the top five than the bottom five -- I picked those because they were far out there. I mean, really -- a new Upper Paleolithic specimen from a museum collection? After Muierii, that's like calling lightning to strike twice. But there it is, and in January, no less.

    I'm clearly going to have to pick stranger predictions this year. And I'll have to be careful about that "dramatic development" line -- I mean, it's appropriately Delphic, but what is it supposed to mean, really? I wonder whether "operatic development" might be better.

    And do I dare call down my non-lightning strike for a third year? It's ruining my percentage! It's starting to reek of desperation -- I mean, it starts to look like the stopped watch effect even if it happens.

    Oh, well. I mean, those are just the risks of predictions, right? Suppose in the preseason I had picked Kansas to win the Orange Bowl!

    • 10. A dramatic development in the Sahelanthropus story.
    • 9. Both major-party candidates for the 2008 U.S. Presidential election will accept evolution.
    • 8. This year's featured piece of anatomy: the femur.
    • 7. No new hobbits, at least, not from Flores.
    • 6. An incisive example of introgression in East Asia.
    • 5. A viral insertion in the human genome will tell us about a disease of the australopithecines.
    • 4. Another language gene joins FoxP2. No word on whether Neandertals have the human version.
    • 3. Homo habilis: an endangered species?
    • 2. This year, something new from three A's: A. afarensis. A. africanus. Atapuerca.
    • 1. Oh, and one more A. Ardipithecus.
    • BONUS: A big, big year for Neandertals. I mean, besides the election.

    There you have it. I'm not sure which of these is the riskiest, but I'm sure they're more out on a limb than last year!

  • How fast to Australia?

    Fri, 2007-10-19 19:17 -- John Hawks

    Science's Michael Balter reviews the recent Cambridge conference on "Global Origins and Development of Seafaring". The article begins with a suggestion that the first inhabitants of Flores floated there on vegetation rafts by accident -- channel crossings being otherwise impossible for Lower Paleolithic hominids:

    "Flores is the exception that proves the rule in terms of when seafaring really began," says Atholl Anderson, a prehistorian at the Australian National University (ANU) in Canberra. [Jon] Erlandson agrees: "Otherwise, H. erectus should have colonized Australia and the surrounding islands."

    It mostly seems to be about Wallacea, Sahul, and Melanesia.

    The article features a disagreement concerning the colonization of these regions. Some think that island colonizations started before seafaring technology was quite ready for prime time. In that scenario, the initial habitation of parts of Wallacea along with Australia and New Guinea was a sort of accidental chain of small founding events, possibly as early as 60,000 years ago or earlier.

    The opposing viewpoint holds that these islands (and continent) were inhabited relatively late and quite suddenly, by people who had developed an advanced seafaring skill. Balter quotes University of Utah archaeologist Jim O'Connell to good effect:

    In the last few years, O'Connell, together with archaeologist Jim Allen of La Trobe University in Bundoora, Australia, has argued from a detailed analysis of radiocarbon dates for a "short chronology" that puts the occupation of Sahul no earlier than about 50,000 years ago. He pointed out that by 45,000 years ago modern humans had colonized a number of islands between Sunda and Sahul, called the Wallacean Archipelago, which stretched at least 1000 kilometers even when sea levels were at their lowest. Reaching many of these islands required sea crossings of 30 to 70 kilometers, sometimes against the currents. Most animals from Asia never achieved these crossings, implying that humans must have used technology to do it. That 5000 years of colonization, O'Connell said, represented a relatively short "archaeological instant."

    O'Connell also argues that some of the island sites before 40,000 years ago include deep-water fish, suggesting relatively advanced ocean-going boats at that time -- something I noted in a post on the East Timor site, Jerimalai.

    Which side is right? I don't know, but it's good that they are formulating hypotheses this way, involving the technological trajectory, genetic constraints on small populations, and various ecological parameters.

    References:

    Balter M. 2007. In search of the world's most ancient mariners. Science 318:388-389. doi:10.1126/science.318.5849.388

  • Tools of the hobbits

    Tue, 2007-10-09 13:02 -- John Hawks

    Julien Riel-Salvatore figures the Liang Bua "hobbit" tools aren't so complicated after all:

    Personally, I have never been especially convinced by the claims for systematic blade technology associated with LB1. The two 'macroblades' (a, b) and two 'microblades' (e, f) illustrated by Morwood et al. (2004: Fig. 5) aren't very regular (the central dorsal ridges are not straight in any of them) and none of their platforms (from what can be seen) are truly 'lipped', unlike the platforms usually generated by soft-hammer production (which is largely employed in true blade production). Furthermore, the illustrated "burin core" really looks to me like a flake core from which a series of small flakes with subparallel edges were knocked off, not a bladelet core. None of this really conforms to the "narrow blades removed sequentially from blade cores" alluded to by some detractors (in Culotta 2007:741) who considers they can only be produced by H. sapiens (a misleading assertion anyway [Bar-Yosef and Kuhn 1999]). Rather, M. Moore and T. Sutkina , who have studied the tools, argue that they represent fairly "simple stone artifacts" (in Culotta 2007:741), which happen to include a few flakes that are twice as long as they are wide - the traditional, if slightly outdated, definition of a blade.

    Julien notes that archaeologists often illustrate the "best looking" tools in their papers, and the LB tools aren't all that good looking -- to his mind, they aren't convincing as intentional blades. He connects the idea of rudimentary tools to the wrist morphology, suggesting that the wrist may mean a lack of fine motor control.

    As for myself, I agree it's hard to tell. I find Mark Moore's papers on the technology in SE Asia/Australasia to be informative, but it's not entirely clear which direction to interpret them. One consistent point (c.f. Brumm and Moore 2005, Camb Arch J 15:157) is that modern humans in the area did not create anything clearly more "Upper Paleolithic-like" than the LB tools. The abilities of local modern humans don't really address whether a "Homo floresiensis" population might have produced similar artifacts.

    Nor is the anatomy of the wrist very convincing on the question of tool manufacture: Until we know about the wrist morphology of late Acheulean/early MSA people, we simply aren't going to know whether "complex" or "sophisticated" tools need any particular wrist architecture.

    So, with the tools, I wonder whether people have been trying to connect dots that don't need connecting.

    Meanwhile, Leigh Dayton of The Australian reports that the LB tools show "evidence of plant work and butchery":

    Working with University of Queensland colleagues Michael Haslam and Gail Robertson, Dr [Carol] Lentfer found evidence of plant work and butchery on stone flakes and cobbles from archeological layers ranging from 12,000 to 55,000 years old.

    They identified blood and bone on some tools, but more than 90 per cent of the residues were from woody and fibrous plants.

    ...

    Dr Lentfer said hobbits clearly enjoyed a barbecue, as evidenced by the remains of fires and numerous animal bones, especially of baby stegodons (small elephants), komodo dragons and giant rats. The animal bones were found near tools and hobbit remains, and had cut marks indicative of butchery.

    Well, that's more than we knew yesterday...

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  • Hands down, palms forward

    Wed, 2007-09-26 00:11 -- John Hawks

    I've seen the "palms facing forward" quote in a few news reports about last week's Dmanisi postcrania paper. It's pretty nonsensical when you see it devoid of context. Consider Bruce Bower's Science News article:

    However, the arms of Dmanisi hominids appear more like those of australopithecines, an earlier line of hominids. For instance, unlike people, the new specimens have upper arms that are straight rather than slightly curved, their shoulders are relatively narrow, and their palms are oriented forward rather than inward.

    This is quite a vision, isn't it? How exactly is that humerus curved, again? And they stand with their palms forward? What?

    OK, so it's tough to give a description of humeral torsion while making it sound important. Your humerus has two ends. The proximal end, called the head, attaches to your shoulder; the distal end is part of your elbow joint. When you are born, the head of your humerus faces toward the back (posteriorly). As you grow up, the humerus twists, so that the head faces inward toward your body (medially). The amount of twist is called the torsion; it is measured relative to the cross-section of the distal end of the humerus.

    Nobody really knows what purpose is served by this twisting growth pattern. Presumably, the twisting adjusts for a change in the orientation of the shoulder joint, although that growth pattern has yet to be documented. But humans are more twisted than apes, and low humeral torsion is the key link that people are pointing out between Dmanisi and Homo floresiensis. So the articles are forced to describe it somehow. As a paleoanthropologist, I'm used to describing skeletal changes in punchy ways. Humeral torsion is a challenge -- without a really clear explanation of its function, it is hard to describe it in concrete, memorable terms.

    Where does the "palms-forward" interpretation come from? We can trace it to Daniel Lieberman's commentary:

    In modern humans, the elbow joint is typically rotated relative to the shoulder joint, so that the forearm naturally hangs with the palms facing inwards; but the new Dmanisi humeri lack torsion, so their palms would have been oriented more forwards. Lack of humeral torsion, a highly plastic and variable feature, suggests something different about the shoulder in these specimens.

    Now, I'm sure that most of my readers will be scratching their heads over this one. People carry their hands palm-inward not because the humerus is twisted, but because the radius is habitually rotated across the ulna. That's the same reason why my hands are currently palm-downward on the computer keyboard. The humeral torsion is entirely irrelevant to the palm position when the arms are "naturally hanging" -- I can assure you, all of my children walk with their palms facing inward, despite the fact that their adult humeral torsion hasn't developed.

    And of course, if humeral torsion is really about the orientation of the shoulder joint, as Lieberman suggests, then it really has no importance to the function of the elbow at all -- different torsion values would maintain the same lower arm mechanics with different shoulder orientations.

    Still, neither the function nor adaptive value of humeral torsion are obvious. As Lieberman mentions, the trait is variable -- Larson and colleagues (2007) reported ranges in recent human populations extending from less than 110° to more than 170°. The value for the adult Dmanisi D4507 humerus is 110°, at the very lowest end of the modern human range; the value for the subadult D2680 is 104°. Humeral torsion continues to increase until age 16 in living people, although most change occurs before age 8 (Edelson 2000).

    Larson et al. (2007) suggest that low humeral torsion is related to a short clavicle -- the idea being that the shoulder joint (glenoid fossa) was anteriorly (forward) placed, and the head of the humerus therefore had to face more posteriorly. I'm not sure that explains the low torsion at Dmanisi, since the Dmanisi clavicles aren't especially short -- like the long bones, they are right in the middle of the modern human range. But they might have had an anteriorly-facing glenoid fossa even if their clavicles weren't short, and given the low humeral torsion I suppose they probably did.

    None of this means that the Dmanisi people or any other early hominids stood with their palms forward. Paleoanthropologists usually do a really good job of describing anatomy in down-to-earth terms, but humeral torsion seems to be a challenge!

    References:

    Edelson G. 2000. The development of humeral head retroversion. J Shoulder Elbow Surg 9:316-318. doi:10.1067/mse.2000.106085

    Lieberman DE. 2007. Homing in on early Homo. Nature 449:291-292. doi:10.1038/449291a

    Larson SG, Jungers WL, Morwood MJ, Sutikna T, Saptomo EW, Duw RA, Djubiantono T. 2007. Homo floresiensis and the evolution of the hominin shoulder. J Hum Evol (in press) doi:10.1016/j.jhevol.2007.06.003

  • The Liang Bua report

    Fri, 2007-08-10 00:05 -- John Hawks

    Elizabeth Culotta's article on the Liang Bua conference appears in this week's Science. It's a real treat: around 2500 words worth of description of the proceedings, and quite balanced.

    Here's the passage relevant to Laron syndrome:

    At the meeting, Dean Falk of Florida State University in Tallahassee, who has concluded from computed tomography (CT) scans of the skulls of LB1 and microcephalics that the hobbit is a new species, tackled the Laron's hypothesis head-on. Hershkovitz and colleagues note that many Laron's patients also lack the sinuses of a normal human head. And although in most people the texture of the mastoid process--the bony bump behind the ear--is spongy and air-filled, in Laron's patients this bone is dense. CT scans of LB1's skull show that it has normal sinuses and a porous mastoid process, Falk said. "We don't think LB1 comes close to looking like their description of Laron's," she said firmly. Hershkovitz responds that some Laron's patients do have normal sinuses, and so their presence does not disprove the hypothesis.

    Obviously, I'm not going to quote the whole thing; the paragraph just before that one did a good job laying out the many, many similarities between LB 1 and Laron patients, which I wrote about earlier this summer.

    There is some discussion of paedomorphosis, with Christoph Zollikofer weighing in that the anatomy may represent the retention of juvenile traits in a derived, dwarf Homo erectus. I have to say, I don't buy that idea. The proposed juvenile features are the lack of humeral torsion (this develops during early childhood), the "flat face" and the short legs. But it's not clear that the legs are relatively short, and if "flat face" means a lack of facial projection, that is easily explained either by allometry or the fact that its teeth are smaller than H. erectus. The humeral torsion in particular has turned out to be a red herring, since Jungers and Larson have presented that LB 1 is within the range of recent Australians. And, of course, paedomorphosis can't explain the tiny brain -- which is only two-thirds the size of the 1-year-old Mojokerto endocast!

    The problem with invoking paedomorphosis is that, of course, you still have to account for why different features are juvenilized at different levels or rates. Since many have attributed the anatomy of living people to a paedomorphosis of Homo erectus characters, presumably LB 1 is a product of a different and distinct version of paedomorphosis. Which is as much as to say the idea is a non sequitur.

    Morwood is now arguing for descent from early pre-erectine Homo or Australopithecus, while there is some discussion about whether Dmanisi is a plausible ancestor. These are all attempts to minimize the amount of evolutionary change on Flores; I think that is misguided. If the island really generated a highly derived lineage, then let it be highly derived! On the other hand, the article notes that many are now looking (or seeking funding to look) for similar fossils on lots of other islands, from Sulawesi to the Philippines.

    There is some new information on the archaeology, notably the use-wear analysis of some of the artifacts:

    Because the tools were found near animal bones, especially baby pygmy elephants called Stegodon, researchers had inferred that the little people used the tools to process meat. But to [Carol] Lentfer's surprise, most of the tools she examined were used for working with woody and fibrous plants, perhaps to craft spear shafts of wood or bamboo or items like traps. "It looks like a tool kit for making other tools," she said in her talk.

    This is accompanied by some discussion of the archaeology including comments by James Phillips.

    Anyway, read the article. I doubt that we will hear anything new on this score for quite some time.

    References:

    Culotta E. 2007. The fellowship of the hobbit. Science 317:740-742. doi:10.1126/science.317.5839.740

  • A hobbit Internationale

    Sun, 2007-08-05 14:14 -- John Hawks

    There was an international meeting in Indonesia about the Flores hominids last week, including scientific presentations and a visit to the cave. I have a regular correspondent who very kindly gave me a short report on some of the proceedings, which included CT scans of the mastoid process (See here for why that may be relevant).

    Reporter Elizabeth Culotta was at the meeting, so there will likely be an article about it in Science somewhere in the next few issues.

    Tags: 
  • Another diagnosis for a hobbit

    Tue, 2007-07-03 12:18 -- John Hawks

    Israel Hershkovitz, Liora Kornreich, and Zvi Laron think they know the problem with Liang Bua 1. Almost 40 years ago, Laron began studying patients with a congenital deficiency of IGF-I (insulin-like growth factor, I). This deficiency occurs because of a defect to the growth hormone receptor, which then does not respond to growth hormone (GH). Hence, patients have a high circulating level of GH, but a low level of IGF-I. After Laron's description, this type of dwarfism was called Laron syndrome, or "Laron-type dwarfism". Since 1970, the disorder has been identified in families throughout the world, caused by a large variety of mutatations to the GHR gene. Much of this is reviewed in OMIM.

    In the last few decades, a large number of clinical cases of Laron syndrome have been compiled. Hershkovitz, Kornreich, and Laron (2007) review the characteristics of the LS sample. Patients were dwarfed -- significantly short in stature for their age -- by more than 4 standard deviations (SD) below the average for their population. Moreover, they had small endocranial volumes, as much as 5 SD below the average for their population.

    Here, I have reproduced Table 1 of the paper, including the list of similarities between Laron syndrome patients and the LB 1 skeleton:

    There are two notable features of this list, besides its sheer length. First, it includes characters from around the skeleton. This is the first substantial examination we have seen of the LB 1 features that compare the full body to the effects of any kind of human dwarfism. Evidence from the postcrania are especially important, because they form a constellation that may be the result of a common developmental cause. Second, the list includes a broad range of features that are not "outside the range" of modern human variability -- the kinds of rare features that a clinician would recognize as symptomatic in combination with other features, but that by themselves may be found within otherwise normal humans.

    If you've been following closely, you may remember that Richards (2006) also proposed that the features of LB 1 might be explained by a mutation to the IGF-I pathway, possibly in combination with other changes affecting brain size. Richards pointed out that pituitary dwarfism, including Laron syndrome, may alter the proportions of the limbs in a way similar to LB 1, and I view that as an important conclusion of the current paper (Herskovitz et al. 2007) as well. In fact, Hershkovitz and colleagues argue that many of the purportedly "unusual" features of the skeleton are straightforward consequences of its small size. This includes not only the proportions of the limb bones, but other details such as their slight muscle markings.

    Interestingly, the low humeral torsion of LB 1 also figures into the LS diagnosis, and they spend nearly a page reviewing this feature. The torsion increases with age up to around 16, and developmental abnormalities including LS may cause it to fall below the general adult range. But this has become a very equivocal feature. Larson and colleagues (2007) reported that the humeral torsion exhibited by LB 1 was within the range of contemporary Australians. There's a huge range of torsion included within normal human populations, now -- extending as low as macaque values. The more comparisons are included, the more the LB 1 specimen seems to fall in the human range. This is not too surprising; if every unusual skeleton could be diagnosed by comparison with a small number of specimens, there would be no need for pathologists!

    Brain size

    Richards (2006) considered Laron syndrome briefly, but concluded that Laron syndrome patients have a cranium that is "near-normal in size." In the present paper, Hershkovitz et al. claim that the brain size is reduced by "up to 5 SD" in Laron syndrome. What gives?

    Here is the relevant text from Hershkovitz et al.:

    There is no doubt that the most striking characteristic of LB1 is not small stature but rather the minute cranial capacity. Despite the fact that the cranial volume in patients with LS is usually not decreased to the same degree as observed in LB1, three points should be mentioned: a) skulls of LS patients manifest most of the unique LB1 cranial features, b) a small head is a major characteristic of LS patients (up to 5 SD below the norm) and in IGF-I gene deletion (Woods et al., 1996). Jacob et al. (2006) reported that the LB1 cranial volume falls 5.5 SD below the combined sex Rampasasa mean, similar to what has been reported for LS patients, and c) there is a high degree of association between microcephaly and growth failure in general (O’Connell et al., 1965; Pryor and Thelander, 1968), GH deficiency (Dacuo-Voutetakis et al., 1974), and congenital IGF-I deficiency (Laron et al., 1968; Woods et al., 1996) in particular.

    Additionally, many of the unique anatomical landmarks left by the brain of LB1 on the endocranial bony surface (Falk et al., 2005), are seen also in LS patients, and derived from the reorganization of the brain to fit into a small cranial space... (Hershkovitz et al. 2007:7).

    Additionally, they point out that the genetic background of their sample of LS patients is different from that of recent and archaeological Southeast Asian islanders, which may also produce differences in the manifestation of growth deficiencies.

    Is this fully convincing? The radiographs in the paper do not show skulls as reduced in cranial volume as LB 1. As far as I know (they do not present a range) there are none. Perhaps Richards (2006) is correct that a second explanation is necessary besides GH/IGR-I to explain the small brain, or perhaps the manifestation of such disorders in this population really is different. Plausibly, an archaeological specimen from anywhere is simply not comparable to the development of modern agricultural populations. I think the brain size remains a big hole in the hypothesis.

    The hypothesis is testable!

    The best thing about the LS hypothesis is that it is testable. There are other features of the skeleton that reflect LS that have not yet been reported for the LB 1 skeleton, but that ought to be observable.

    Hershkovitz et al. (2007) point to the pneumatization of the mastoid region as possibly the most important test. LS patients have minimal or no pneumatization of this part of the cranial base; meaning that instead of spongy bone and open sinuses, they have dense compact bone:

    Unfortunately, no radiographs of LB1's skull are as yet available and therefore appreciation of the extent of pneumatization in the LB1 skull is impossible. Non-pneumatized (acellular) mastoid process (Fig. 4), lack of (or minimal) frontal sinus (Fig. 2), and small paranasal sinuses are characteristic of LS (Kornreich et al., 2002) (Hershkovitz et al. 2007:3).

    CT scans of LB 1 do exist, and they should be easy to check. Very easy. As in, somebody already knows the answer. That somebody just isn't me.

    But is it a species?

    What would it tell you if the hypothesis were true -- if LB 1 actually does have a mutation inducing a GH/IGR-I defect and this explains its stature, morphology, and brain size? For instance, does it represent a real ancient hominid species or just a pathological member of our own?

    Hershkovitz, Kornreich, and Laron agree with Jacob et al. (2006), that many of the "unusual" characteristics of the skeleton actually are normal or reasonably common within the regional population of modern humans. For that reason, they find that the skeleton possesses no features that preclude it from membership in our species. So the short answer is, they think H. floresiensis is sunk.

    But their longer answer is quite interesting as a defense of taxonomic conservatism, and is worth reading closely:

    It is not the numerous conundrums that have been located by us and other researchers (Jacob et al., 2006; Martin et al., 2006a,b) in the Homo floresiensis publications which refute its status as a new species, but rather the wrong arguments brought to support it.

    The combination of "modern" and "primitive" morphological characteristics is one of the major arguments raised by Brown et al. (2004) to differentiate LB1 from Homo sapiens. Nobody would argue, however, that LS patients who also manifest a similar combination (e.g., an extremely oval-shaped pelvic inlet, or a "bell-shaped" form of the thoracic cage), are direct descendents of Homo erectus (an idea advocated strongly for LB1 in the first paper) nor of the australopithecines (a notion which appears in the second publication). Based on morphological comparison between LS patients and normal short children, it is clearly evident that many of the "unique" primitive morphological traits seen in LB1 are due to her small stature (Takano et al., 1986). This also explains why LB1 shares most of her features, including the most "unique" ones (e.g., the deep fissure separating the mastoid process from the petrous crest of the tympanic bone; the absence of a true chin etc.) with local pygmoid populations (Jacob et al., 2006). Ignoring the possibility that LB1 is derived from a small stature population (Rampasasa pygmies are good candidates, as suggested by Jacob et al. in 2006) with its own distinct morphological features may lead to erroneous conclusions. For example, recently Larson et al. (2006) reported on a clavicle (short relative to humeral length) and scapula (normal) of LB1 and suggested that "A short clavicle may indicate a more protracted scapular position, raising the possibility of a previously unsuspected transitional stage in the course of hominin pectoral girdle evolution" (p A21). However, the length of the clavicle is mainly dictated by the shape and diameter of the upper thoracic cage. This is why both LS patients and KNM-WT 15000 H. erectus (both manifesting a very similar fan-shaped thorax) have a relatively short clavicle.

    In contrast to Morwood's statement (2005) that LB1 manifests a combination of primitive and derived features that dictate exclusion from the species sapiens, we have herein offered evidence to suggest that LB1 is but a local individual in a highly inbred, probably pygmy-like population (of Homo sapiens) in whom a mutation of the GH receptor had occurred. (Hershkovitz et al. 2007:9).

    In short, the persuasiveness of any combination of features as evidence depends on their correlation with each other. If they are all strongly correlated -- for instance, if they are effects of a common cause -- then the combination of features is best interpreted as evidence for that cause, rather than as multiple instances of evidence for some other hypothesis. In this case, Hershkovitz et al. argue that the common cause explaining the data does not require a species interpretation. Instead, they argue (following Jacob et al. 2006) that LB 1 and other specimens share many features with recent local people. So, the hypothesis that the LB hominids are Homo sapiens is well supported.

    Now, what could contradict that hypothesis? In other words, what would be the right argument to support a new species?

    Here, the morphology of the other specimens besides LB 1 come into play. It seems very unlikely that multiple archaeological individuals over many thousands of years would have had the same rare mutation(s) of the GH/IGR-I axis unless that mutation were very common in the local population. Richards (2006) accepted at face value the argument that these archaeological individuals were in fact of the same short stature and small size as LB 1, and suggested that the ancient Flores population of H. sapiens simply had a high frequency of this variant (in his view, possibly along with another variant affecting brain size). Hershkovitz and colleagues appear willing to accept this hypothesis, pointing out that LS patients have normal reproductive potential and are relatively more common in some populations:

    As LB1 replicates most of the diagnostic features of LS patients (Table 1), as well as those of pygmoid Australomelanesians (Jacob et al., 2006), it can be assumed that the findings from the island of Flores represent a local, highly inbred, low stature Homo sapiens population in whom a mutation in the GH receptor had occurred. The long time presence of LB1-type humans on the island of Flores is not surprising considering that LS patients, and derived dwarfed populations with GHRH-R defect, reproduce normally (Laron, 2004) (Hershkovitz et al. 2007:9).

    But it is not necessary to take this view of a long-term population with a variant GH/IGR-I allele, if the other specimens are not actually unusual for modern humans. That is the argument put forward by Jacob et al. (2006), and it doesn't yet seem to have been contradicted. The most persuasive commonalities among this collection of fragments are (1) that they are all small, and (2) that the second mandible LB 6/1 shares several features with the first. But Jacob et al. (2006) claim (1) that the local population was small anyway, and (2) that these features are regionally common and not persuasive as evidence for a distinct lineage.

    An alternative claim might be that H. floresiensis was a genuine evolutionary species on Flores (and possibly other islands), and that local people today retain features from this ancient species due to local introgression. But of course, local ancestry of some features might occur whether the ancient Flores population was another species or not. We call the latter hypothesis "multiregional evolution." So any distinctiveness of the local people is in no respect evidence that ancient people on Flores were a different species; if anything, the long-term retention of local features into living populations is a refutation that they were a different species. There is nothing impossible about introgression -- as I've said many times -- but it actually is a bit easier if speciation has not occurred!

    Picky details

    As in many clinical descriptions of dwarfism, there is a lot of "SD" talk in this paper. That substitutes an absolute measure (e.g., meters) for a relative one (compared to the population variability). And in some ways, that confounds two different kinds of change. For example, after a very good discussion of the problems estimating proportions and stature of LB 1, the paper includes this:

    Finally, Jacob et al. (2006) estimated that the stature of LB1 falls 3.3 SD below the local Rampasasa pygmy average stature of 1.46 m, within the range of the deviation in stature reported in some of the Israeli LS patients (Laron, 2004).

    This is not really a valid comparison. If pygmy populations of humans already have a variant of the GH/IGF-I axis that results in reduced stature, then a further mutation on that axis should not exert the same proportional effect. We ought to expect a dwarf in a population of pygmies to be close to the stature of dwarfs elsewhere.

    Instead, the important comparison is the stature itself, not the number of standard deviations below mean. Hershkovitz et al. (2007) report that the stature of female Laron syndrome patients in their sample ranges as low as 95 cm, which is smaller than the minimum stature estimate of 106 cm for LB 1. Hence, it is consistent with the diagnosis.

    Also, the genetic heterogeneity of LS means that there can be substantial variations among people with different mutations:

    So far 57 mutations have been described in LS patients residing in various parts of the world including South Asia (Rosenfeld et al., 1994; Rosenbloom and Guevara-Aguirre, 1998; Laron, 1999; Shevah et al., 2005). These numerous molecular defects on the GH receptor gene or the postreceptor cascade (Elders et al., 1973; Godowski et al., 1989; Laron et al., 1992; Rosenbloom et al., 1999; Laron, 2004; Woods and Savage, 2004) produce a large variety of short stature phenotypes and a wide spectrum of intellectual abilities and deficits (Shevah et al., 2005), which may also explain the differences between the LS patients and LB1 (Hershkovitz et al. 2007:9).

    This is the kind of quote that can drive a person crazy. The disorder is genetically heterogeneous. As reflected in OMIM, it may even include individuals with normal GHR function, but with other downstream problems that decrease IGF-I. But it is unsatisfying because it means that no comparison can necessarily capture the effects of the disorder. So for something like the exceptionally small brain size of LB 1, it is quite possible to say, "Well, there are at least 57 different ways to have this disorder, and maybe the 58th will be manifested with even smaller brain size.

    On the other hand, with 57 different varieties (hmm....) we can probably say that the sample space of genetic mutations is now very large, so we are seeing possibly a good representation of the possible phenotypic effects of changes to this axis. At least, that's my optimistic answer.

    Summary

    This is a powerful paper. The overlap between the morphology of LB 1 and Laron syndrome symptoms is very extensive.

    To my mind, much of the credibility of the species hypothesis -- that H. floresiensis really existed on Flores for a long time and evolved a mean phenotype including derived features absent in other populations -- depends on finding more specimens from earlier time intervals. If the archaeology of the island could be extended into the period after 500,000 years, it would document the long-term persistence of some hominid population across the interval from 700,000 years ago to 90,000. At 90,000 years, given ambiguities in dating, it is entirely possible that remains may be attributed to modern humans. So documenting a persistence in between those dates is important.

    Likewise, the anatomical evolution of those populations would be a key piece of evidence. Were they, as Jacob et al. (2006) suggest, connected by gene flow to the Asian landmass by recurrent connections? Or were they really isolated on Flores or possibly other islands? Only a trace of the evolutionary history, through morphology or DNA, can provide evidence of this isolation.

    I don't view any of this as impossible, but naturally it remains to be demonstrated. Likewise there is nothing impossible about such a population having a unique GH/IGR-I variant, either by drift or as an adaptation to the island. But we are waiting for the evidence that they were there throughout that time.

    References:

    Hershkovitz I, Kornreich L, Laron Z. 2007. Comparative skeletal features between Homo floresiensis and patients with primary growth hormone insensitivity (Laron Syndrome). Am J Phys Anthropol (early) doi:10.1002/ajpa.20655

    Richards GD. 2006. Genetic, physiologic and ecogeographic factors contributing to variation in Homo sapiens: Homo floresiensis reconsidered. J Evol Biol 19:1744-1767. doi:10.1111/j.1420-9101.2006.01179.x

    Jacob T, Indriati E, Soejono RP, Hsü K, Frayer DW, Eckhardt RB, Kuperavage AJ, Thorne A, and Henneberg M. 2006. Pygmoid Australomelanesian Homo sapiens skeletal remains from Liang Bua, Flores: Population affinities and pathological abnormalities. Proc Nat Acad Sci USA. 103:13421-13426. DOI link

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