Showing posts with label review. Show all posts
Showing posts with label review. Show all posts

Thursday, 9 December 2010

Book Review: Written in Stone



Written in Stone is the first book by the incredibly talented science blogger Brian Switek (above), most famous for his blog Laelaps formerly of Science Blogs, now of Wired Science, and the exclusively dinosaurian blog Dinosaur Tracking of the Smithsonian. It’s no surprise then, that his book is a masterpiece. I shall refrain from using any more clichés in the following review, I hope.

The book is broken up into nine main chapters, an introduction, and a conclusion, each with alliterative or otherwise memorable titles. Each also begins with a classic quote, many of which are Biblical. You might think this strange from a book about evolution, a process which is wholeheartedly denied by the Bible and its followers, but these quotes work both as a prelude to the chapter you are soon to read, and an example of the frameset of the pre-twentieth century scholar who would have taken the word of God as written in the Bible as undeniable truth (I avoided saying ‘gospel’ there, phew!)

The book’s introductory chapter, titled Missing Links, begins with the very familiar story of ‘Ida’ the famous specimen of Darwinius masillae which had a book and two television documentaries made in its honour. The story is familiar to me because I too watched the story unfold from hyped headlines into a media explosion back in May last year, and did my part for ‘Ida-fest’ by reviewing the BBC documentary about the discovery. Switek aired his views about the discovery on his blog, and was picked up by the media, even here in the UK. The story may not be so familiar to those who haven’t kept track of the media as closely, and it is these readers that will benefit most from the opening chapter.

The next chapter, The Living Rock, tracks the beginnings of palaeontology, from the comparison of living shark teeth with the glossopetrae, or petrified snake tongues, which were found centuries ago, through to the work of Baron Georges Cuvier, who pictured an antediluvian world before the Great Flood of the Bible based on archaeological and palaeontological evidence. The roles of Lyell, Buckland, and Lamarck, huge names in nineteenth century natural history, are summarised, before the primary subject of the next chapter is alluded to. Moving Mountains is the alliterative title given to the chapter about Charles Darwin and Alfred Russel Wallace. Many books have been written about Darwin, but this chapter condenses the main points pertinent to the history of geology as well as the best of them.

The next seven chapters each follow the historical and evolutionary stories of a different group of organisms. To take the first tetrapods, the subject of the chapter entitled From Fins to Fingers, as an example, the story of the first fossils to belong to such transitional organisms is told in parallel with that of the actual evolutionary chronology of the group as we currently know it. The discovery of the lungfish by both Natterer and Owen, and the consequent discovery of such early amphibians as Archegosaurus are interwoven with the relationship between Acanthostega, Ichthyostega, and Tiktaalik, amongst others.

This is taken even further in the following chapter, Footprints and Feathers on the Sands of Time, which tells the story of bird evolution from theropod dinosaur ancestors. The first fossil evidence to be found, albeit not consistently interpreted as such, was footprints, followed by the famous Archaeopteryx specimen. Because these are anachronistic with respect to the chronological order in which birds first came about, the two stories interfold beautifully so the reader can fully understand the basic facts about bird evolution.

Highlights of the subsequent chapters include the inner ear anatomy of therapsids and mammals in The Meek Inherit the Earth, the discovery of ancestral whales in As Monstrous as a Whale, the variety of extinct elephants, mastodons, mammoths, and their kin in Behemoth, and the convergent evolution of a single toe in both horses and litopterns in On a Last Leg. The chapter in which I learnt the most has to be that of the evolution of hominins – that is humans and our close extinct relatives – Through the Looking Glass, in which the well-known “ape-men” such as Lucy the Australopithecus and the Hobbit man of Flores are put in context with other members of the tribe which has culminated with Homo sapiens. I learnt, for example, that we are inseparable from apes because our chromosomes differ only in lacking a pair which has in fact become fused with another pair. The importance of the bipedal stance and unimportance of truncated faces is made clear once and for all.

Switek ends the book on a philosophical note with Time and Chance, the final chapter, which brings ideas from the previous chapters together and recapitulates them to some extent. He also contemplates what would have happened if, because evolution is entirely down to chance, the occurrences that caused therapsids to develop into mammals, and for dinosaurs to develop into birds, didn’t happen. Using the example of bacterial cultures to put evolutionary theory into practice, the reader is left in awe of the mechanics of evolution, and is dumbstruck by how on Earth we managed to not yet become victims of time and chance.

The book is illustrated throughout with portraits of the scientists who feature in it, engravings and illustrations of specimens old and new, and simplified cladograms which demonstrate evolutionary relationships in many groups.

Verdict: 10/10

Available to buy on Amazon.com in U.S.A. only, but is due to be released in the UK next summer.

Stay tuned for an exclusive interview with the author, coming soon.

Thursday, 6 August 2009

Heaven's Kitchen

Something a little different from my usual writing, I think you’ll agree. What follows is a restaurant review. My uncle Ahmed and his partner Cathy have turned a disused chapel in rural Somerset into a gorgeous restaurant with mouth-watering food.


Rear view of At The Chapel

Called, simply enough, At The Chapel, my uncle’s restaurant in Bruton was converted from a chapel. The exterior walls of the building remain unchanged, as it’s a listed building, but the interiors have been revamped, to the extent that it no longer looks like a place of worship. The walls are a pure snow white, and the wooden floors echo beneath your feet. The stained glass windows were modernised, and although the colour is lost, it makes the place brighter and seem more comfortable. Most impressive in the main seating area of the restaurant and bar, is the sculpture of an ethereal being – called, aptly enough, The Angel – painted the same white as the walls. This is the only reminder that you are inside what was once the village chapel.


Brother and sister

My uncle is a carpenter by trade, and all of the wooden furniture you see, including the bar, stools, tables and chairs, were all made by him. Even more impressive is the wood-burning oven where all the pizzas are made. The basement, where some of the kitchens, seating area and the toilets are, was created from scratch, and the stone dug out from beneath the chapel was used to create the oven. An interesting talking piece is the wooden logs and large marble ‘pebbles’ used as casual seats around the place. The limestone tiles in the basement leading to the toilets are from the Blue Lias, dating back to the late Triassic and early Jurassic periods, around 200 million years ago. As such, some of the tiles contain fossil molluscs.


Me and my uncle

Not only is At The Chapel a restaurant, but Ahmed and Cathy sell wine and freshly baked bread to locals and those from further afield. The well-stocked bar serves popular alcoholic and non-alcoholic drinks, as well as tea and coffee, and home made crisps. When we finished our drinks, we were seated in a room apart from the main atrium. This isn’t because we were getting preferential treatment; it’s because there was no space for us on a hectic Saturday night! Due to bookings by such groups as a gaggle of girls on a hen party, and it being our last night in the region, we were given the privilege of a private room.


Mozzarella and basil pizza

On to the food then; it’s like Gordon Ramsey without the pretension. The menu consists of stunning food, of the order you’d expect to find in a top end London restaurant, but for a fraction of the price. Such well-made food is rare and hard to come by in these times of cost-cutting. Our party of five decided to have two pizzas to share for starters: one came with pure tomato and herb sauce, buffalo mozzarella and fresh basil; the other with the same sauce, goat’s cheese and various herbs.


Goats cheese and herbs

It is easy to tell that this is no shop-bought pizza sauce; the flavours show right through. It’s even possible to tell that the mozzarella is no cow cheese. We were told that the chefs were sent to Italy to learn how to create authentic pizzas. It must have been worth the cost; these are the best pizzas I’ve ever had.


My Chapel burger: I stole my sister's egg!

An assortment of eight different dishes was on offer for the main course, not including the various pizzas. I went for the Chapel burger. Simply a giant meatball of beef, onion and herbs in a huge homemade bap with rocket salad and ginormous circles of onion, served with chips. Too big I couldn’t eat it all. I noticed a hint of Mediterranean cooking in the way the burger contained mint and parsley, and it was reminiscent of traditional Cypriot meatballs called köfte.


Sea trout with salad nicoise (without egg!)


Slow-roasted tomatoes, red peppers and goats cheese


Chargrilled lamb leg with chard and horseradish sauce

Other dishes ordered by my party included a fillet of sea trout on a salad nicoise, slow-roasted tomatoes and red peppers with goat’s cheese; and chargrilled lamb leg with chard and horseradish sauce. The menu, however, changes not only seasonally, using ingredients that are currently bountiful, but also daily, depending on what’s in stock and what they can source from local farmers, butchers and fishmongers.


Eton mess

Desserts were suitably rich: the two that our party had were Eton mess (strawberries, meringue and whipped cream all mixed together in a huge mess) and chocolate fudge pot. Me and my sister ordered the latter: it consisted of rich dark chocolate and was finished with a dollop of clotted cream, a sprig of mint and a generous helping of blackcurrant jam. Yes, you read that correctly: it is a combination that I’d never heard of but, by golly, it works. The sweetness of the jam, combined with the crunchiness of the seeds, sets off the rich gooey confection of the chocolate fudge.


Chocolate fudge pot with clotted cream and blackcurrant jam

By this point, my stomach was full and I couldn’t look at any more food, but I still went and joined the folks in watching Uncle Ahmed make some pizzas. If a client wants a pizza without sauce (they must be crazy, the sauce is the best part!) or with several types of cheese, he can do that. The preparation of the pizza - rolling out the dough, creating the correct shape and size, and layering the combination of toppings - takes more time than the cooking: the pizzas are crispy around the edges in two minutes flat. The pizza kitchen is conveniently placed at the front of the property, along the high street, where passers by can look through the window. If the smell of freshly baked sourdough bread or melting cheese manages to entice them in, they can watch the process through a huge pane of glass.

The Guardian gave At The Chapel 9/10 in a food critique in June this year: I can do one better and give them a full ten out of ten! Not just because I’m related to the owner!

Contact details:
At The Chapel, High Street, Bruton, Somerset, BA10 0AE
01749 814 070

Sunday, 31 May 2009

100th post special: Darwinius masillae, or Ida

“Ida”
Darwinius masillae Franzen et al., 2009
Notharctidae; Primates; Mammalia; Chordata


Above photograph:
Cast of the original specimen in Natural History Museum
May 2009


Above illustration:
Pen drawing of the cast
May 2009

As my humble contribution to the Ida carnival, I thought I’d offer two original illustrations and a documentary review, and also a summary about Ida, her provenance, her significance and some other thoughts. You may have heard much of this before, so I apologise in advance.

Ida is the name given to the first, and so far only, specimen of the notharctid primate Darwinius masillae. Obviously, her generic name comes from the man who celebrated his 200th birthday posthumously earlier this year, Mr. Charles Robert Darwin. It is no surprise, then, that the species was formally described this year of all years. The ‘masillae’ epithet is more obscure and less obvious. This relates to its origins: it was found some 25 years ago by an anonymous collector in the Messel pits in Germany. The name is Latinised, but instead of ending in the more usual ‘-ensis’, which normally ends names named after locations (i.e. canadensis, mississippiensis, sinensis), it ends in the genitive ending usually reserved for female people, although is sometimes used for place names (i.e. novaehollandiae, novaeangliae, terraesanctae).

The Messel pits are renowned for their status as a Lagerstätte. Roughly translated as ‘place of storage’, Lagerstätten are known for yielding truly well-preserved fossils. As well as Messel, there is Solnhofen, also in Germany, with perfectly preserved Pterodactylus, Rhamphorhynchus, Compsognathus and Archaeopteryx specimens (Solnhofen scene depicted here). The Burgess Shale of British Columbia, Canada, is another example of a Lagerstätte from much earlier (Cambrian period), and the La Brea tar pits in Los Angeles, California, much more recent (Pleistocene epoch). All share in common a veritable bonanza of fossils not found anywhere else, or in such quantities or of such quality. Messel itself contains beautifully preserved examples of, for example, insects, fish, amphibians, snakes, birds, bats, primitive horses, and of course, primates. The reason for such a high diversity of life forms is the basis behind why Lagerstätten exist. In Messel, a crater formed by geophysical forces from the mantle, deep under the crust. The crater filled with water and became a deep lake mostly devoid of life. This is because the bottom of the lake was still exposed to the same geophysical forces that created the crater in the first place, but this time in the form of gases such as carbon dioxide. From time to time, big ‘burps’ of gas would escape from the vents at the lake bottom, and to some extent the lake margins, releasing large amounts of gases into the lake environment. This is key to explaining how Ida might have died.

Ida (pronounced ‘ee-da’, not ‘eye-da’, as I was saying it for a while!) was female and approximately 9 months old when she died. The evidence for both of these factors comes from the skeleton itself, which is 95% complete: a lack of a baculum (penis bone, or os penis) indicates it is not male; hidden teeth high up in the jaw which have yet to emerge indicate she is not fully grown. The preserved skeleton also reveals a pathology which most likely contributed to her death. The right metacarpals (wrist bones) are fused and form a risen lump. This indicates that the bones broke early in Ida’s life, possibly from a fall from a tree. Although Ida survived long enough for the bones to heal, she would have had a hard life to her conspecifics; her tree-climbing abilities would have been greatly impaired and probably couldn’t have found food in the usual way. This resorted Ida to foraging for fallen fruit, foliage and the occasional invertebrate on the ground. She would have been drawn to the lake for a drink, and may have fallen prey to the toxic gases burping out of the muddy margins. Ida was knocked out by the sudden intake of carbon dioxide, and fell in the lake, indisputably drowning. Her lifeless body found itself in its famous pose as it hit the bed.

I mentioned earlier that Ida is a notharctid primate, but what does that mean exactly? The notharctids are a family of extinct primates, placed in the infraorder Adapiformes. It has remained unclear as to where exactly within the Primates the Adapiformes and hence the Notharctidae belong. Much of the focus of the original description (referenced and linked at the end of this post) and the documentary reviewed shortly was on the phylogenetic placement of Darwinius related to two suborders of Primates: the prosimians (lemurs, lorises and their kin), and the anthropoids (monkeys and apes, including humans, which are apes of course). Neither are true monophyletic groups: the prosimians also include the tarsiers, which are actually on the same ‘branch’ as humans, the haplorhines. The original paper uses the more correct terms Strepsirhini and Haplorhini to indicate the true groupings. It occurs to me that the Adapiformes make up a third group.

On Tuesday 26th May, Britain was hit by a double dose of Ida-goodness. I already knew that the documentary Uncovering Our Earliest Ancestors: The Link was scheduled for 9 pm on BBC1, but the other piece of news was bizarrely unknown to me. The Natural History Museum, the place where I work and have studied and worked for the past few years, was to host the REAL Ida specimen for just a few hours, of course, as luck would not have it, on a day I had chosen to take off for my sister’s birthday, dammit. I probably wouldn’t have had authority to see her anyway, as the event was restricted to the press, certain scientists and celebrities, including the revered Sir David Attenborough, who narrated and wrote the script for that night’s documentary. I’m a humble library shelving assistant, and have few, if any, links to the Palaeontology Department, as yet. I saw this on the lunchtime news, and was feeling an odd mixture of pride for my institution, and jealousy for not being there. Oh I’ve met Sir Dave already, twice in fact, so it’s not that. The news was announced, however, that a cast has been presented to the Museum that will be on display from the following day. So naturally, before I started my shift at work I gave Ida’s body double a visit. Oh my, I was blown away by her beauty, although it was a cast. From seeing her on TV the previous night, I expected her to be twice the size, but as with a lot of celebrities, she looked a lot smaller in person.

So onto my review. An overdramatic introduction (this truly was overdramatic... Jens Franzen was quoted as stating that the findings would be “just like an asteroid hitting the Earth”) led into the story of the fossil’s discovery by Jørn Hurum at a German fossil fair in 2006. The counterpart was not mentioned (the other half of the specimen which shows the imprints of the bones, rather than risen ones). An excited Hurum was shown seeing the fossil for the first time when he was filmed opening the crate containing Ida. Radiographic studies, including x-rays (which can be seen in the original paper), proved that the specimen, unlike Piltdown Man, is not a hoax. A quick overview of the skeletal features follows, focusing on the presence of nails on the digits. Three of the authors of the paper, Holly Smith, Jens Franzen and Philip Gingerich were introduced.

Deciphering the fossil’s age was due to the method of preservation. Before being found by Hurum and purchased by the Oslo Natural History Museum, somebody (conveniently anonymously) covered the front face of the fossil with a clear resin. This is, apparently, only done to fossils found at Messel; therefore Ida’s age could be pinpointed to approximately 47 million years old. Other Messel fossils were shown, including Propalaeotherium and Eurotamandua. These fossils date from the Eocene epoch, the second of the Cenozoic epochs, after the relatively ‘dead’ Palaeocene. This was the time when the first true carnivores (the miacids), horses, bats (like Palaeochiropteryx), whales (like Basilosaurus, but obviously not in Messel) and primates were evolving. No mention is made of why the lake was special in that the specimens were so perfectly preserved, of course due to the anoxic mud containing very little oxygen and thus few aerobic bacteria to break down the body. The black fuzz surrounding Ida’s body was not mentioned apart from stating that it is furry; it is not only fur, but also a bacterial slime, which I mentioned to interested passers by at the Museum.

The skeleton was scrutinised further by the quartet: ecological conclusions were being drawn, such as the relatively short limbs indicated an arboreal (tree-climbing) nature, as well as the fact that Darwinius would have been heavily muscular (try imagining a ripped Ida with huge pecs and abs – quite a laugh). The teeth were examined by Holly Smith, the dental anthropologist on the team. Externally they appear to be ‘all-purpose’, suggesting she would eat a variety of foods, but especially vegetation. This was confirmed by examination of the gut contents by Hurum and Franzen, having found leaves and seeds. A detailed CT scan was carried out in the Senckenberg Museum where Franzen is based, from which they were able to create a 3-D image of Ida’s skeleton. On this note, it is incredible that not a single whole animal reconstruction was shown. It took me half an hour to draw one (see end of this post), and I would’ve done it for free, so it can’t be to do with budget. A CGI reconstruction of more than just bones would’ve been greatly appreciated, if not just by me then by all viewers of the documentary who haven’t seen Darwinius reconstructed. This isn’t Night at the Museum, for crying out loud!

Comparisons were made between Ida and a 6 to 9 year old child (incidentally, this confused a few people I met at the Museum when I was answering casual questions – they had read that Ida was 9 months old, but had heard on the documentary that she was 6 years old, in comparative terms), and we see Ida’s namesake, Hurum’s daughter. There is a neat cut-scene where we see the human Ida playing and the notharctid Ida is superimposed over her, as they are in similar positions.

From this point onwards, the documentary dwells heavily on the phylogenetic placement of Ida in comparison to the prosimians and the anthropoids. My favourite part of the documentary follows: an examination of a slow loris (Nycticebus sp.) to show two of the salient features of most prosimians. Most primates have nails instead of claws (some notable exceptions include the needle-clawed galagos [Euoticus spp.] and the aye-aye [Daubentonia madagascariensis]), but a claw is present on the second digit of the hind foot (the toe next to the big toe). This is variously known as the grooming claw or the toilet claw (I prefer the latter term). It is used, fairly obviously, for grooming. The slow loris has a nice example of a toilet claw. The other feature which prosimians like lorises have is the tooth comb. This is made of the lower incisors and canines squished close together to form a comb-like structure, also used in grooming. The loris’ features are then contrasted with Ida’s, who lacks both the toilet claw and the tooth comb.

This immediately suggests that Ida is NOT a prosimian/strepsirhine. According to the documentary, this automatically places Ida on the anthropoid branch. Just because something does not belong in one category, it does not necessarily mean it has to belong in the other. This way of thinking has been criticised heavily by my fellow bloggers and other scientists, so I won’t add too much to that. Comparisons were then inevitably made to anthropoids, but why start and end with the chimpanzee? Obviously their hands and feet look similar, but doesn’t it make sense to look at an anthropoid with a longer fossil record? Clearly, they were trying to oversell the point that Ida is closer to apes than to lemurs.

In reference to Charles Darwin and his theory of evolution by natural selection, Attenborough can be heard saying that there are “billions of species” on the planet. Barely a million have been described, there’s a long way to a billion, let alone ‘billions’. The dependence on the term ‘missing link’ is clear, so of course the most famous link, Lucy, the Australopithecus afarensis specimen discovered in 1974, was featured. It was a nice opportunity, however, to see how Lucy’s reconstructed pelvis compares with bipedal primates, i.e. humans, and quadrupeds, like the chimpanzee.

The injury to the metacarpals was featured, and it was proposed that Ida’s mother may have dropped her. Ida’s death was mentioned in as much detail as I have already gone into. While watching though, I was reminded of how Archaeopteryx lithographica, of which a handful of specimens (such a strange term, how can you have a handful of giant slabs of limestone?) are known, had probably died of the same fate a hundred million years before. This then provoked another thought: other specimens of Darwinius may exist out there, but are lying in “some rich guy’s basement”, to use Hurum’s words. With any luck, Ida’s worldwide media exposure (family in a village in Cyprus have even heard) might motivate private collectors to sell their specimens to museums, obviously for a hugely elevated price which no museum can afford on today’s budgets.

The final nail in the coffin for me in this documentary was the end to the constant search for a trait to link Ida with the anthropoids, and by extension, to us. The authors noticed that the talus bone in the animal’s heel is of a similar shape to those of humans, who walk bipedally. Did it not occur to them that this could be a form of convergent evolution? Just like the opposable thumb and big toe which likens them to chimpanzees, the talus’ shape could have nothing to do with walking upright, or shared ancestry with us. Of course, it may still be true, but not enough analysis has been carried out. In the last minute of the documentary, Ida is declared as “part of our history” and that’s that. End of story. Had this documentary been made much later, as in not yet, the views of other scientists would have made an appearance and made it a much less biased argument. The documentary was, however, drawing upon the points made in the paper itself, which is also full of holes.

You can tell by the length of my review that this was a long documentary, but there was much repetition of ideas. Friends and colleagues with whom I have discussed the programme with have agreed that it could have easily been half as long with still as much detail. Despite this, the documentary is still worth watching, if only for the incredible footage of a sedated slow loris (even slower than usual!) being examined at Duke Lemur Center in Durham, North Carolina.

I leave you with my reconstruction of Ida. I based her on living lemurs and of course on the cast of the skeleton I have illustrated earlier.


Graphite pencil illustration
May 2009

Reference:
Franzen, J. L., P. D. Gingerich, J. Habersetzer, J. H. Hurum; W. von Koenigswald & B. H. Smith (2009). Complete Primate Skeleton from the Middle Eocene of Messel in Germany: Morphology and Paleobiology. In: PLoS One 4(5), 27 pp. (link to PDF here)

Sunday, 1 February 2009

Charles Darwin and the Tree of Life

I've just finished watching the BBC documentary Charles Darwin and the Tree of Life, presented by Sir David Attenborough. Overall, it was a good summary of the man's life and his (and Wallace's) theory of evolution by natural selection, with footage of Attenborough in his younger days dotted about between clips of him as he is now in places such as Down House and the Natural History Museum. There was a lot of footage of my darling Museum, which I was glad to see, and was even a bit surprised when I saw Sir Dave talking in the Earth Sciences library where I am currently employed about twenty minutes into the documentary. I noticed the Richard Owen statue was at the rear of the Central Hall at the top of the first set of stairs, where Charlie Darwin now sits, as the two were moved late last year. Towards the very end of the programme, the uprooting of Owen to the dark recesses of the first floor near the Botany department, and his rightful replacement by Darwin was shown.

I noticed one biographical flaw; Attenborough stated that Darwin had studied both botany and geology at Cambridge University before going on the Voyage of the Beagle. It is well known that he had never formally studied any of the natural sciences at university, and learned Theology in Cambridge at Christ's College, which I used to pass near enough every day when I spent my undergraduate years in that city. It is true, however, that Darwin approached professors such as Adam Sedgwick to learn about geology in his free time. It should have been made clear that Darwin had no formal grounding in geology or other branch of natural history, in my opinion.

When Attenborough was explaining the wonders of the platypus, he made the fatal error of saying the platypus is a "primitive mammal". Of course it is not, it is just one which retained the same way of life as its ancestors have done for tens of million years. There was also the fact that the mass extinction of the Cretaceous-Tertiary was mentioned as "catastrophic", but not a single mention of the earlier, much more "catastrophic" Permian-Triassic one. Other than these, the programme was well put together, and Attenborough makes a grand effort at simplifying things for the masses to understand, without oversimplifying them too much. I even learnt a new tidbit of information; I was not aware that neither Darwin nor Wallace were present during the reading of their thesis to the Linnean Society in 1858, as Wallace was still in the East Indies and Darwin was mourning the death of his son.

If you want a free "Tree of Life" poster from the Beeb, you can go to this website, where there is also more information on this programme and the others in the 200th b-day celebrations series. This is not an advertisement for the BBC, they get enough of our money through licence fees.