… breeding mulleins out of the dead land.

April 11, 2010 • 12:43 am

by Greg Mayer

March continued its cruelty, and less than two weeks after they emerged in Virginia, mulleins emerged from the dead land of Wisconsin as well.

Mullein, Saukville, Wisconsin, 23 March 2010. Photo by Eric Hileman.

The above was one of a number of mulleins Eric Hileman and I found and photographed while reconnoitering his Butler’s garter snake (Thamnophis butleri) study site at the University of Wisconsin-Milwaukee Field Station. The plywood board against which the mullein nestles is one of several hundred in a 15m mesh grid that the snakes use as cover, enabling Eric to find them and track their numbers and movements.

Eric Hileman and a snake cover board amidst the dead land, Saukville, Wisconsin, 23 March 2010.

The progress of spring continues apace. Earlier tonight, in Franskville, Wisconsin, I passed a chorus of chorus frogs (Pseudacris triseriata) in wet fields and sloughs calling so loudly that I could hear them in my car with the radio on and the windows closed at 45 mph!

Cryptozoological Caturday Felid: The Beast of Bodmin and its relatives

April 10, 2010 • 4:00 am

by Matthew Cobb

Still of "big cat" in Scotland. See the video below.

Every country seems to have its cryptozoological fantasies. Tibet has the Yeti, the US has Bigfoot, the Congo has Mokele-mbembe. And Britain has… the Beast of Bodmin. Or the Beast of Exmoor. Or the Beast of Bevendean.

In each of these cases, people sight something that looks like a big cat – as in a panther or a leopard. None of these sightings claim to be of tigers or African lions. Strictly speaking, this is not the realm of cryptozoology, as no one is claiming these are unknown species. The argument is that they are animals that have escaped from zoos, circuses or the homes of rich people with massive underground bunkers who tend to have plans for world domination and go “Mwah-haa-haaa”.

Natural England – a government organisation that does what it says on the tin – has been studying claims of alien animals in the UK, and has found 38 sightings of “big cats” that cannot be explained. They have concluded that some of the claims might be true, but there is no evidence for breeding populations.

Charlie Wilson of Natural England is reported as saying: “The evidence is there that there are the odd, escaped, released dumped animals occurring in the wild every now and then.” None of this applied to the alleged big cats, for which there was no confirmation beyond exaggerated claims (“it was as big as a car”) or the usual blurry photos. “It is very unlikely that there are any big cats at large” was the conclusion.

The Sun “newspaper” reported this as “Official: No Big Cats in UK”, and printed this picture with the caption “Big cats are a myth … but if they don’t exist then how does the government explain these?”

The Natural History Museum has a neat little web page explaining how they were called in to examine what appeared to be the skull of a big cat, found on Bodmin Moor in the south of England. Discovering the truth involved not only comparative anatomy but also forensic entomology, and is quite enlightening.

Apart from the not-terribly-interesting possibility that a handful of poor Alien Big Cats (ABCs) may be roaming the British countryside, it’s probably more interesting to ask the question why people are so keen to believe in them…

Links:

Daily Telegraph article

Natural England report on big cats on Bodmin Moor

Wikipedia page on UK ABCs (caveat emptor, as with all Wikipedia pages)

Is ID blasphemous?

April 9, 2010 • 2:10 pm

by Matthew Cobb

This link was sent in by Jerry – even on his Paris jaunt, he’s keeping a close eye on debates over evolution and religion.

Over at Evolutionblog, Jason Rosenhouse reports that Peter Hess, Faith Project Director for the National Center for Science Education, has decided that ID is blasphemous. Jason’s thought-provoking piece provides a nice parallel with the Grayling review we posted here earlier today, and with Greg’s previous post on the National Science Board.

[Edit: unclear antecedent altered, just like Jerry would have wanted.]

US National Science Board tries to suppress knowledge of Americans’ scientific illiteracy

April 9, 2010 • 9:48 am

by Greg Mayer

Today’s issue of Science contains a news article (first pointed out to me by Matthew) about a clumsy (and now failed) attempt by the US’s National Science Board (NSB) to suppress a finding by a National Science Foundation (NSF) survey that Americans’ knowledge of evolution and cosmology remains poor, and well behind that of European and east Asian industrial nations. I am shocked and disconcerted that the NSB, the governing board of the NSF and official science advisers to the president and Congres, would do this. (Update below.)

Every two years, the NSF issues a report on “a broad base of quantitative information on the U.S. and international science and engineering enterprise”, entitled Science and Engineering Indicators.  Since 1983, the  NSF has conducted a national survey of scientific knowledge, the results of which have been included in the report. Until now. NSB members John Bruer, a philosopher at the James McDonnell Foundation of St. Louis, and Louis Lanzerotti, an astrophysicist at the New Jersey Institute of Technology, successfully prevailed upon the NSB to remove the survey results related to questions on evolution and the big bang. While Bruer has no evident expertise in (or concern for) evolution or cosmology, Lanzerotti spent most of his career at Bell Labs, whose most signal contribution to science has been the discovery of the cosmic background radiation by Arno Penzias and Robert Wilson, which is the key empirical evidence for the big bang. The irony– it burns.

The last two editions of the report contained sections on “More Than a Century After Darwin, Evolution Still Under Attack in Schools” (2006) and “Evolution and the Schools” (2008). The equivalent section and accompanying discussion, included in the 2010 report by the report’s authors, were removed by the NSB. Fortunately, the authors, and even the White House (to whom the report was submitted) objected. The report was not revised in light of these objections, but Science obtained the deleted text, and thus the attempted suppression failed. Here’s Science‘s summary.

Science has obtained a copy of the deleted text, which does not differ substantially from what has appeared in previous Indicators. The two questions (see graphic) have been part of an NSF-funded survey on scientific understanding and attitudes toward science since 1983. The deleted section notes that the 45% of Americans who answered “true” to the statement: “Human beings, as we know them today, developed from earlier species of animals” is similar to the percentage in previous years and much lower than in Japan (78%), Europe (70%), China (69%), and South Korea (64%). A similar gap exists for the response to the statement: “The universe began with a big explosion,” with which only 33% of Americans agreed.

Leaving evolution and the big bang out of a discussion of American scientific literacy and attitudes toward science (especially after the authors of the discussion included them) is mind boggling. These are two of the key issues in the scientific literacy problem in the United States, and one could easily argue they are the issues in scientific illiteracy. Science spoke with Josh Rosenau of the National Center for Science Education, who said that, “Discussing American science literacy without mentioning evolution is intellectual malpractice.” Jon Miller of Michigan State, who had conducted the NSF survey in prior years, told Science that “Evolution and the big bang are not a matter of opinion… If a person says that the earth really is at the center of the universe, … how in the world would you call that person scientifically literate?” Science‘s final take, quoting Miller again, was

Miller believes that removing the entire section was a clumsy attempt to hide a national embarrassment. “Nobody likes our infant death rate,” he says by way of comparison, “but it doesn’t go away if you quit talking about it.”

Amen to that.

Here’s some of the text of the 2008 report on evolution and the big bang; the full text of the report can be found here.

Evolution and the “Big Bang”

In international comparisons, U.S. scores on two science knowledge questions are significantly lower than those in almost all other countries where the questions have been asked. Americans were less likely to answer true to the following scientific knowledge questions: “human beings, as we know them today, developed from earlier species of animals” and “the universe began with a huge explosion.” In the United States, 43% of GSS respondents answered true to the first question in 2006, about the same percentage as in every year (except one) that the question has been asked. In other countries and in Europe, the comparable figures were substantially larger: 78% in Japan, 70% in China and Europe, and more than 60% in South Korea. Only in Russia did less than half of respondents (44%) answer true. Among the individual countries covered in the 2005 Eurobarometer survey, only Turkey’s percentage answering true to this question was lower than the U.S. percentage (Miller, Scott, and Okamoto 2006). Similarly, Americans were less likely than other survey respondents (except the Chinese) to answer true to the big bang question. In the most recent surveys, less than 40% of Americans answered this question correctly compared with over 60% of Japanese and South Korean survey respondents.

Americans’ responses to questions about evolution and the big bang appear to reflect factors beyond unfamiliarity with basic elements of science. The 2004 Michigan Survey of Consumer Attitudes administered two different versions of these questions to different groups of respondents. Some were asked questions that tested knowledge about the natural world (“human beings, as we know them today, developed from earlier species of animals” and “the universe began with a big explosion”). Others were asked questions that tested knowledge about what a scientific theory asserts or a group of scientists believes (“according to the theory of evolution, human beings, as we know them today, developed from earlier species of animals” and “according to astronomers, the universe began with a big explosion”). Respondents were much more likely to answer correctly if the question was framed as being about scientific theories or ideas rather than as about the natural world. When the question about evolution was prefaced by “according to the theory of evolution,” 74% answered true; only 42% answered true when it was not. Similarly, 62% agreed with the prefaced question about the big bang, but only 33% agreed when the prefatory phrase was omitted. These differences probably indicate that many Americans hold religious beliefs that cause them to be skeptical of established scientific ideas, even when they have some basic familiarity with those ideas.

Surveys conducted by the Gallup Organization provide similar evidence. An ongoing Gallup survey, conducted most recently in 2004, found that only about a third of Americans agreed that Darwin’s theory of evolution has been well supported by evidence (Newport 2004). The same percentage agreed with the alternative statement that Darwin’s theory was not supported by the evidence, and an additional 29% said they didn’t know enough to say. Data from 2001 were similar. Those agreeing with the first statement were more likely to be men (42%), have more years of education (65% of those with postgraduate education and 52% of those with a bachelor’s degree), and live in the West (47%) or East (42%).

In response to another group of questions on evolution asked by Gallup in 2004, about half (49%) of those surveyed agreed with either of two statements compatible with evolution: that human beings developed over millions of years either with or without God’s guidance in the process. However, 46% agreed with a third statement, that “God created human beings pretty much in their present form at one time within the last 10,000 years or so.” These views on the origin of human beings have remained virtually unchanged (in seven surveys) since the questions were first asked in 1982 (Newport 2006).

For almost a century, whether and how evolution should be taught in U.S. public school classrooms has been a frequent source of controversy (see sidebar, “Evolution and the Schools“). The role of alternative perspectives on human origins, including creationism and intelligent design, and their relevance to the teaching of science, has likewise been contentious. When Gallup asked survey respondents in 2005 whether they thought each of three “explanations about the origin and development of life on earth (evolution, creationism, and intelligent design) should or should not be taught in public school science classes” or whether they were “unsure,” for each explanation more Americans chose “should” than chose either of the other alternatives (table 7-6table.).

In other developed countries, controversies about evolution in the schools have also occurred, but more rarely. However, signs of opposition to the theory of evolution are emerging in Europe (Nature 2006).

UPDATE. In a different version of the Science news article posted on Science’s website, but not published in today’s issue, Bruer gives a response to Science that indicates he may harbor creationist sympathies:

When Science asked Bruer if individuals who did not accept evolution or the big bang to be true could be described as scientifically literate, he said: “There are many biologists and philosophers of science who are highly scientifically literate who question certain aspects of the theory of evolution,” adding that such questioning has led to improved understanding of evolutionary theory. When asked if he expected those academics to answer “false” to the statement about humans having evolved from earlier species, Bruer said: “On that particular point, no.”

(H/t to readers Articulett and Deen for pointing to this version.)

UPDATE II. Josh Rosenau, who was quoted above in the Science news article, provides some further details on the affair at his blog, Thoughts From Kansas.

A C Grayling on David Lewis-Williams and the evolution of religion

April 9, 2010 • 2:04 am

by Matthew Cobb

Last week, the British magazine New Statesman carried a thought-provoking review by A C Grayling of David Lewis-Williams’ new book Conceiving God: The Cognitive Origin and Evolution of Religion. Lewis-Williams is an anthropologist who specialises in cave and rock art (in particular from South Africa). He has written two brilliant and highly-recommended popular books on prehistoric cave art, the Mind in the Cave: Consciousness and the Origins of Art, and Inside the Neolithic Mind.

In his new book (which I haven’t read), Lewis-Williams casts his anthropologist’s eye over the origins and continued existence of religion, and the reasons for it. He also kindly quotes a letter Jerry and I wrote to Nature, protesting about their coverage of the Templeton Foundation. I hope that Jerry – or myself, or Greg – will have the time to write our own review here at WEIT, but for the moment Grayling’s review will more than suffice:

Are direct arguments against religious beliefs likely to dissuade their votaries? The anecdotal evidence seems to suggest not; robust attacks by Richard Dawkins and Christopher Hitchens, it is said, only annoy the faithful and make them dig further in.

I am not so sure about this. In my experience, waverers and Sunday-only observers can find forthright challenges to religious pretensions a relief and a liberation. They give them the reason, sometimes the courage, to abandon those shreds of early-acquired religious habit that cling around their ankles and trip them up.

Still, Darwin and David Lewis-Williams have a point in thinking, as the former put it, that “direct arguments against [religion] produce hardly any effect on the public, and freedom of thought is best promoted by the gradual illumination of men’s minds which follows from the advance of science”. In the preface to this book, Lewis-Williams says that he intends to follow Darwin’s strategy, seeking to achieve by flanking manoeuvres what Dawkins and Hitchens attempt by cavalry charge.

Actually Lewis-Williams does both. There is quite a lot of galloping straight at the opposition with flashing sabre. But the main thrust of the book is incremental: a well-informed and steady march through the history of religion and its conflict with science, reprising what the author describes as the evolution of his own thought about these matters.

“Over the years I pondered the long history of religion. In particular, I thought about the implications of the earliest archaeological evidence for religion . . . I found it salutary to explore social (cultural) anthropology . . . As we look over this sorry tapestry, we must face a fundamental question – one that many today, believers and non-believers alike, try to avoid: Is there really a spirit realm occupied by supernatural beings and forces that are concerned with human life on earth? By contemplating the history of religion and science we are able to answer that question in a way that gradually leads to “freedom of thought”.”

The need to do so is all the more urgent, the author notes, because the great dividing line in the world today is between opponents defined by religious commitment or tradition.

Lewis-Williams is a highly distinguished archaeologist and palaeoanthropologist who has written some of the definitive works on ancient cave art, in particular the rock art of the San (Bushman) people of his native South Africa. He wrote the classic Believing and Seeing: Symbolic Meaning in Southern San Rock Paintings (1981), whose ideas animate his account of Stone Age religion and the nature of religious belief and experience in three chapters of this book. His descriptions and interpretations are fascinating, though highly speculative.

If Lewis-Williams’s expertise in Stone Age art is one plank for the argument of the book, the other is the adventure of thought in the epochs that have elapsed since classical antiquity. He traces the development of both religious and scientific thinking from ancient Greece to the 19th century – from Plato to Darwin – which includes the establishment, from Constantine onwards, of religious orthodoxy against all comers (“heretics” and pagans alike). It is an instructive review; it leads Lewis-Williams to remind us that large sections of official Christianity now merely shrug their shoulders over the question of the position of Planet Earth in the universe, a matter on which they were once prepared to kill people for taking the wrong view.

The historical chapters constitute a lucid survey of the background, from which certain patterns can be deduced that Lewis-Williams explores in chapters on religious experience, belief and origins. Together, these suggest an analysis of the nature of religion itself. They are the most original parts of his discussion. He summarises the conclusion he arrives at as follows:

“Religion is one possible explanation, not for natural phenomena, but for highly complex experiences that the human brain generates. It does so in such a way that a whole range of further explanations (for natural events, death and so forth) becomes available. Moreover, religion makes possible powerful social and political hierarchies not based on sex or brute strength. The persistence of the neurology of the brain through time ensures that the “origin” of religion is always with us.”

This last remark explains what he means by the phrase “origin-as-process”, and his reason for thinking that the stock analysis of earlier anthropology – that religion evolves from animism through totemism to polytheism and thence monotheism – is incorrect. He has an interesting point here. Polytheism persists in both actual and disguised forms: actual in the Hindu pantheon; disguised in the “Trinity” or in any religion, including Islam and Judaism, that admits the existence of angels and demons (and, in the former at least, a populated afterlife) along with the deity.

Lewis-Williams does not leave matters at the level of analysis. In a long and thoughtful concluding chapter entitled “God’s Empire Strikes Back”, he considers the current tensions and conflicts generated by the revived debate about religion. He concludes that there is no future in attempting reconciliation between theistic and non-theistic world-views, and that our hope must be that Darwin will be proved right eventually, that science will finally cut the taproot of religion. He ends by quoting Matthew Cobb and Jerry Coyne: “In reality, the only contribution that science can make to the ideas of religion is atheism.” That is surely right, and it serves as the guiding principle of Lewis-Williams’s endeavours in these rich and educative pages.

There is, accordingly, a great deal to applaud in this book. One aspect of it left me intrigued, however: the chapter on Stone Age religion, describing and offering interpretations of cave paintings from tens of thousands of years ago, long before the dawn of history. Did our remotest ancestors really distinguish between natural and supernatural realms? Or did they regard the significant agencies that controlled nature as part of nature, and such that they could be encountered and communicated with, just like any other part of nature?

Lewis-Williams thinks that cave walls were viewed as the sacred interface between human beings and chthonic forces. Can we really know? Perhaps he can appeal to the continuity of brain structure and function to suggest that religious experience is likewise continuous. However, he is careful enough to talk often of “maybe” and “perhaps”; and to an amateur being offered the explanation, it is the tentativeness that sounds most persuasive.

New australopithecine described

April 8, 2010 • 11:26 am

by Greg Mayer

Lee Berger of the University of the Witwatersrand and several colleagues will be describing a new species of Australopithecus, A. sediba, from 1.78 to 1.95 million-year-old deposits in South Africa, in tomorrow’s issue of Science. The issue will also have a geological article on the find by Paul H.G.M. Dirks of James Cook University, Queensland, and colleagues, and a news item, all available now at Science‘s website (plus a podcast and video). The description is based on two partial skeletons, including a well preserved juvenile skull, most of the right arm and shoulder girdle, parts of the hip and leg, and various other bits.

Skull of juvenile Australopithecus sediba. Image from University of the Witwatersrand.

The new species has a long arm, but the pelvis and leg indicate that it was bipedal (i.e. it could both climb and walk upright). The general evolutionary conclusion the authors draw is the mosaic nature of the origin of Homo features: some Homo-like characters evolved before others, e.g. bipedality preceding cranial enlargement. They find specific features linking the new species to Homo, and posit it to be intermediate between earlier australopithecines and Homo:

The age and overall morphology of Au. sediba imply that it is most likely descended from Au. africanus, and appears more derived toward Homo than do Au. afarensis, Au. garhi, and Au. africanus.

Something I rather liked about the paper is that it is quite data rich, having tables of comparison of traits and measurements of the new find and several other fossil hominids. Such data-richness is unusual for papers in Science, which prefers short papers, with data often being relegated to electronic appendices or other papers; the Berger et al. paper is an unusual ten pages long.

The news has already reached media websites (e.g. the New York Times, the BBC and the Telegraph). Unlike the case of Darwinius masillae, however, in which premature press coverage, which included the name and its diagnostic characters, and web posting of the description, led to questions about the proper authorship and publication of the name, the authors and journalists in this case have done everything right. The news accounts are appearing coincident with the name being published (i.e. printed on paper), not prior to its publication. (The newspaper pieces linked to above are online now, but they won’t be published in the sense of the International Code of Zoological Nomenclature until tomorrow, when the scientific paper itself will be published.) There will thus be no questions about the publication of the name; the authors have made sure that, as the ICZN recommends, Australopithecus sediba is “self-evidently published within the meaning of the Code” (ICZN, Rec. 8B)

The Lakeland yeti?

April 7, 2010 • 4:04 pm

by Matthew Cobb

More cryptozoology. These two pictures were posted by a friend, Dr Fiona Crawford, who visited the English Lake District (home of Beatrix Potter) last weekend. She labelled them “tracks of unknown animal”. The first one looks like a human hand print, but the second shows a set of prints, clearly not made by human hand.

So what made them? NB There are no bears left in the Lakes, and the biggest mammals are ungulates. Mind you, it is hard to tell what the scale is. They seem to be smaller than a human hand. Could it be a pine marten? The small size would tend to exclude the possibility that someone was wearing boots with pawprints on them – in WW2 British Special Operations Executive agents in the Far East wore boots with soles with a human footprint on them, but reversed, so anyone tracking them in the jungle would think a) they were a “native” and b) they were going the other way…

UPDATE (8 April 2010):

After over 20 contributions (including from Fiona, who took the photos), I think we can be pretty confident it’s a badger print. Here’s a useful guide to prints of British mammals (when I was a lad we had these on the soles of our shoes – nothing to do with the SOE shenanigans mentioned at the beginning of this post).

The large pad kind of gives it away, no? And here are some badger prints:

On the other hand, the claws on the Lakeland Yeti’s prints seem to be much more spread out… Is the mystery really solved?

The human genome 10 years on – so what?

April 7, 2010 • 5:19 am

By Matthew Cobb

On June 25, 2000, Bill Clinton, flanked by Francis Collins of the National Human Genome Research Institute and Craig Venter of Celera Genomics, with Tony Blair incongruously at the end of a satellite feed, stood at the White House. Clinton announced that “the international Human Genome Project and Celera Genomics Corporation have both completed an initial sequencing of the human genome – the genetic blueprint for human beings.” They claimed that the genome “promises to lead to a new era of molecular medicine, an era that will bring new ways to prevent, diagnose, treat and cure disease”.

In this week’s issue of Nature (which published the draft sequence in February 2001), there is the first of what will undoubtedly be a series of articles and books looking at what has happened over the last 10 years [these articles are open access].

Or maybe there won’t be any such flood of publications, for the simple reason that, despite all the hype, the contribution of the genome to human health has been pretty negligible. In other words, from a purely medical point of view, there isn’t much to celebrate.

Part of the reason for this slight sense of disappointment can be found in that first, triumphal declaration: a genome is not a “blueprint”, in the sense of a plan that can be read off to deduce a particular structure or behaviour. You cannot look at the chicken genome and deduce that a cockerel will go “cock-a-doodle-doo”. And there are no “cancer genes”.

The genome has turned out to be a much more complicated place than many suspected (I would argue that many of us who actually worked on how genes function in whole organisms predicted this). Genes regulate other genes and, above all, interact with the environment. Organisms are not simply the expression of the genome, they are constructed through myriad interactions between the environment and the genes.

And those interactions turn out to be incredibly complicated. Although computing power has also increased over the last 10 years, attempts to model what all these genes are doing have floundered, and people who work in these areas are in danger of drowning in a sea of data. Those who thought there were big bucks to be made have still to make their fortune; many have lost their shirts. My hunch is that it will be a long time before the promised health benefits turn up.

On the other hand, the prospect of lots of money – and health benefits – did mean that a massive amount of attention was paid to sequencing, and the result has been an unprecedented explosion of information about the evolution of life. Over 3,800 organisms (including around 200 humans) have had their entire genomes sequenced, while sequence information on more than 200,000 species has been obtained. This figure is growing all the time, as the price of sequencing plummets and the ease of obtaining entire genomes increases.

Exponential growth in the amount of genomic information available. Figure taken from Nature.

We are living through an astonishing revolution in science, and young biologists should be grabbing the opportunity to make some amazing discoveries about the evolution of life. For example, I am interested in the evolution of the sense of smell. These databases contain the sequences of genes that code for olfactory receptors; it is relatively straightforward to see how they evolved in different lineages, and above all, to gain insight into the role of this sense in the life of a given organism.

Up until 2004, it was argued that birds didn’t have much of a sense of smell (there was no real basis for this prejudice, but it was widely held). Then the chicken genome revealed that there were over 500 olfactory receptor genes (more than in a human). And this week, the genome of the zebra finch reveals that this songbird has about 215 functional olfactory receptor genes. This should be leading people to start finding out what exactly birds are doing with their sense of smell – finding food, navigating, finding mates?

For any young scientists reading this – not just biologists, but computer scientists, mathematicians, chemists – the current revolution in genomics should be seen as a new ocean to explore, a sea of unexploited knowledge that they can play in. It really is that amazing. As the poet William Wordsworth wrote with regard to a rather more bloody revolution – the French revolution of 1789:
“Bliss was it in that dawn to be alive,
But to be young was very heaven!”