Tag: chimps

One jump from gorillas to humans – the origin of malaria

By Ed Yong | September 22, 2010 1:00 pm

Gorilla

Several million years ago, Plasmodium falciparum – the parasite that causes most cases of human malaria – jumped into humans from other apes. We’ve known as much for decades but for all this time, we’ve pinned the blame on the wrong species. A new study reveals that malaria is not, as previously thought, a disease that came from chimpanzees; instead it’s an unwanted gift from gorillas.

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Revisiting FOXP2 and the origins of language

By Ed Yong | November 11, 2009 1:00 pm

Today, a new paper published in Nature adds another chapter to the story of FOXP2, a gene with important roles in speech and language. The FOXP2 story is a fascinating tale that I covered in New Scientist last year. It’s one of the pieces I’m proudest of so I’m reprinting it here with kind permission from Roger Highfield, and with edits incorporating new discoveries since the time of writing.

The FOXP2 Story (2009 edition)  

Imagine an orchestra full of eager musicians which, thanks to an incompetent conductor, produces nothing more than an unrelieved cacophony. You’re starting to appreciate the problem faced by a British family known as KE. About half of its members have severe difficulties with language. They have trouble with grammar, writing and comprehension, but above all they find it hard to coordinate the complex sequences of face and mouth movements necessary for fluid speech.

Thanks to a single genetic mutation, the conductor cannot conduct, and the result is linguistic chaos. In 2001, geneticists looking for the root of the problem tracked it down to a mutation in a gene they named FOXP2. Normally, FOXP2 coordinates the expression of other genes, but in affected members of the KE family, it was broken.

It had long been suspected that language has some basis in genetics, but this was the first time that a specific gene had been implicated in a speech and language disorder. Overeager journalists quickly dubbed FOXP2 “the language gene” or the “grammar gene”. Noting that complex language is a characteristically human trait, some even speculated that FOXP2 might account for our unique position in the animal kingdom. Scientists were less gushing but equally excited – the discovery sparked a frenzy of research aiming to uncover the gene’s role.

Several years on, and it is clear that talk of a “language gene” was premature and simplistic. Nevertheless, FOXP2 tells an intriguing story. “When we were first looking for the gene, people were saying that it would be specific to humans since it was involved in language,” recalls Simon Fisher at the University of Oxford, who was part of the team that identified FOXP2 in the KE family. In fact, the gene evolved before the dinosaurs and is still found in many animals today: species from birds to bats to bees have their own versions, many of which are remarkably similar to ours. “It gives us a really important lesson,” says Fisher. “Speech and language didn’t just pop up out of nowhere. They’re built on very highly conserved and evolutionarily ancient pathways.”

Two amino acids, two hundred thousand years

The first team to compare FOXP2 in different species was led by Wolfgang Enard from the Max Planck Institute for Evolutionary Anthropology in Leipzig, Germany. In 2001, they looked at the protein that FOXP2 codes for, called FOXP2, and found that our version differs from those of chimpanzees, gorillas and rhesus macaques by two amino acids out of a total of 715, and from that of mice by three. This means that the human version of FOXP2 evolved recently and rapidly: only one amino acid changed in the 130 million years since the mouse lineage split from that of primates, but we have picked up two further differences since we diverged from chimps, and this seems to have happened only with the evolution of our own species at most 200,000 years ago.

The similarity between the human protein FOXP2 and that of other mammals puts it among the top 5 per cent of the most conserved of all our proteins. What’s more, different human populations show virtually no variation in their FOXP2 gene sequences. Last year, Enard’s colleague Svante Pääbo made the discovery that Neanderthals also had an identical gene, prompting questions over their linguistic abilities (see “Neanderthal echoes below).

“People sometimes think that the mutated FOXP2 in the KE family is a throwback to the chimpanzee version, but that’s not the case,” says Fisher. The KEs have the characteristically human form of the gene. Their mutation affects a part of the FOXP2 protein that interacts with DNA, which explains why it has trouble orchestrating the activity of other genes.

There must have been some evolutionary advantage associated with the human form of FOXP2, otherwise the two mutations would not have spread so quickly and comprehensively through the population. What this advantage was, and how it may have related to the rise of language, is more difficult to say. Nevertheless, clues are starting to emerge as we get a better picture of what FOXP2 does – not just in humans but in other animals too.

During development, the gene is expressed in the lungs, oesophagus and heart, but what interests language researchers is its role in the brain. Here there is remarkable similarity across species: from humans to finches to crocodiles, FOXP2 is active in the same regions. With no shortage of animal models to work with, several teams have chosen songbirds due to the similarities between their songs and human language: both build complex sequences from basic components such as syllables and riffs, and both forms of vocalisation are learned through imitation and practice during critical windows of development.

Babbling birds

All bird species have very similar versions of FOXP2. In the zebra finch, its protein is 98 per cent identical to ours, differing by just eight amino acids. It is particularly active in a part of the basal ganglia dubbed “area X”, which is involved in song learning. Constance Scharff at the Max Planck Institute for Molecular Genetics in Berlin, Germany, reported that finches’ levels of FOXP2 expression in area X are highest during early life, which is when most of their song learning takes place. In canaries, which learn songs throughout their lives, levels of the protein shoot up annually and peak during the late summer months, which happens to be when they remodel their songs.

So what would happen to a bird’s songs if levels of the FOXP2 protein in its area X were to plummet during a crucial learning window? Scharff found out by injecting young finches with a tailored piece of RNA that inhibited the expression of the FOXP2 gene. The birds had difficulties in developing new tunes and their songs became garbled: they contained the same component “syllables” as the tunes of their tutors, but with syllables rearranged, left out, repeated incorrectly or sung at the wrong pitch.

The cacophony produced by these finches bears uncanny similarities to the distorted speech of the afflicted KE family members, making it tempting to pigeonhole FOXP2 as a vocal learning gene – influencing the ability to learn new communication sounds by imitating others. But that is no more accurate than calling it a “language gene”. For a start, songbird FOXP2 has no characteristic differences to the gene in non-songbirds. What’s more, among other species that show vocal learning, such as whales, dolphins and elephants, there are no characteristic patterns of mutation in their FOXP2 that they all share.

Instead, consensus is emerging that FOXP2 probably plays a more fundamental role in the brain. Its presence in the basal ganglia and cerebellums of different animals provides a clue as to what that role might be. Both regions help to produce precise sequences of muscle movements. Not only that, they are also able to integrate information coming in from the senses with motor commands sent from other parts of the brain. Such basic sensory-motor coordination would be vital for both birdsong and human speech. So could this be the key to understanding FOXP2?

Moving mice

New work by Fisher and his colleagues supports this idea. In 2008, his team engineered mice to carry the same FOXP2 mutation that affects the KE family, rendering the protein useless. Mice with two copies of the dysfunctional FOXP2 had shortened lives, characterised by motor disorders, growth problems and small cerebellums. Mice with one normal copy of FOXP2 and one faulty copy (as is the case in the affected members of the KE family) seemed outwardly healthy and capable of vocalisation, but had subtle defects.

For example, they found it difficult to acquire new motor skills such as learning to run faster on a tilted running wheel. An examination of their brains revealed the problem. The synapses connecting neurons within the cerebellum, and those in a part of the basal ganglia called the striatum in particular, were severely flawed. The signals that crossed these synapses failed to develop the long-term changes that are crucial for memory and learning. The opposite happened when the team engineered mice to produce a version of FOXP2 with the two characteristically human mutations. Their basal ganglia had neurons with longer outgrowths (dendrites) that were better able to strengthen or weaken the connections between them.

A battery of over 300 physical and mental tests showed that the altered mice were generally healthy. While they couldn’t speak like their cartoon equals, their central nervous system developed in different ways, and they showed changes in parts of the brain where FOXP2 is usually expressed (switched on) in humans.

Their squeaks were also subtly transformed. When mouse babies are moved away from their nest, they make ultrasonic distress calls that are too high for us to hear, but that their mothers pick up loudly and clearly. The altered Foxp2 gene subtly changed the structure of these alarm calls. We won’t know what this means until we get a better understanding of the similarities between mouse calls and human speech.

For now, the two groups of engineered mice tentatively support the idea that human-specific changes to FOXP2 affect aspects of speech, and strongly support the idea that they affect aspects of learning. “This shows, for the first time, that the [human-specific] amino-acid changes do indeed have functional effects, and that they are particularly relevant to the brain,” explains Fisher. “FOXP2 may have some deeply conserved role in neural circuits involved in learning and producing complex patterns of movement.” He suspects that mutant versions of FOXP2 disrupt these circuits and cause different problems in different species.

Pääbo agrees. “Language defects may be where problems with motor coordination show up most clearly in humans, since articulation is the most complex set of movements we make in our daily life,” he says. These circuits could underpin the origins of human speech, creating a biological platform for the evolution of both vocal learning in animals and spoken language in humans.

Holy diversity, Batman

The link between FOXP2 and sensory-motor coordination is bolstered further by research in bats. Sequencing the gene in 13 species of bats, Shuyi Zhang and colleagues from the East China Normal University in Shanghai discovered that it shows incredible diversity. Why would bats have such variable forms of FOXP2 when it is normally so unwavering in other species?

Zhang suspects that the answer lies in echolocation. He notes that the different versions seem to correspond with different systems of sonar navigation used by the various bat species. Although other mammals that use echolocation, such as whales and dolphins, do not have special versions of FOXP2, he points out that since they emit their sonar through their foreheads, these navigation systems have fewer moving parts. Furthermore, they need far less sensory-motor coordination than flying bats, which vocalise their ultrasonic pulses and adjust their flight every few milliseconds, based on their interpretation of the echoes they receive.

These bats suggest that FOXP2 is no more specific to basic communication than it is to language, and findings from other species tell a similar tale. Nevertheless, the discovery that this is an ancient gene that has assumed a variety of roles does nothing to diminish the importance of its latest incarnation in humans.

Since its discovery, no other gene has been convincingly implicated in overt language disorders. FOXP2 remains our only solid lead into the genetics of language. “It’s a molecular window into those kinds of pathways – but just one of a whole range of different genes that might be involved,” says Fisher. “It’s a starting point for us, but it’s not the whole story.” He has already used FOXP2 to hunt down other key players in language.

The executive’s minions

FOXP2 is a transcription factor, which activates some genes while suppressing others. Identifying its targets, particularly in the human brain, is the next obvious step. Working with Daniel Geschwind at the University of California, Los Angeles, Fisher has been trying to do just that, and their preliminary results indicate just what a massive job lies ahead. On their first foray alone, the team looked at about 5000 different genes and found that FOXP2 potentially regulates hundreds of these.

Some of these target genes control brain development in embryos and its continuing function in adults. Some affect the structural pattern of the developing brain and the growth of neurons. Others are involved in chemical signalling and the long-term changes in neural connections that enable to learning and adaptive behaviour. Some of the targets are of particular interest, including 47 genes that are expressed differently in human and chimpanzee brains, and a slightly overlapping set of 14 targets that have evolved particularly rapidly in humans.

Most intriguingly, Fisher says, “we have evidence that some FOXP2 targets are also implicated in language impairment.” Last year, Sonja Vernes in his group showed that FOXP2 switches off CNTNAP2, a gene involved in not one but two language disorders – specific language impairment (SLI) and autism. Both affect children, and both involve difficulties in picking up spoken language skills. The protein encoded by CNTNAP2 is deployed by nerve cells in the developing brain. It affects the connections between these cells and is particularly abundant in neural circuits that are involved in language.

Verne’s discovery is a sign that the true promise of FOXP2′s discovery is being fulfilled – the gene itself has been overly hyped, but its true worth lies in opening a door for more research into genes involved in language. It was the valuable clue that threw the case wide open. CNTNAP2 may be the first language disorder culprit revealed through FOXP2 and it’s unlikely to be the last.

Most recently, Dan Geschwind compared the network of genes that are targeted by FOXP2 in both chimps and humans. He found that the two human-specific amino acids within this executive protein have radically altered the set of genetic minions that it controls.

The genes that are directed by human FOXP2 are a varied cast of players that influence the development of the head and face, parts of the brain involved in motor skills, the growth of cartilage and connective tissues, and the development of the nervous system. All those roles fit with the idea that our version of FOXP2 has been a lynchpin in evolving the neural circuits and physical structures that are important for speech and language.

The FOXP2 story is far from complete, and every new discovery raises fresh questions just as it answers old ones. Already, this gene has already taught us important lessons about evolution and our place in the natural world. It shows that our much vaunted linguistic skills are more the result of genetic redeployment than out-and-out innovation. It seems that a quest to understand how we stand apart from other animals is instead leading to a deeper appreciation of what unites us.

Box – Neanderthal echoes

The unique human version of the FOXP2 gives us a surprising link with one extinct species. Last year, Svante Pääbo’s group at the Max Planck Institute for Evolutionary Anthropology in Leipzig, Germany, extracted DNA from the bones of two Neanderthals, one of the first instances of geneticists exploring ancient skeletons for specific genes. They found that Neanderthal FOXP2 carries the same two mutations as those carried by us – mutations accrued since our lineage split from chimps between 6 and 5 million years ago.

Pääbo admits that he “struggled” to interpret the finding: the Neanderthal DNA suggests that the modern human’s version of FOXP2 arose much earlier than previously thought. Comparisons of gene sequences of modern humans with other living species had put the origins of human FOXP2 between 200,000 and 100,000 years ago, which matches archaeological estimates for the emergence of spoken language. However, Neanderthals split with humans around 400,000 years ago, so the discovery that they share our version of FOXP2 pushes the date of its emergence back at least that far.

“We believe there were two things that happened in the evolution of human FOXP2,” says Pääbo. “The two amino acid changes – which happened before the Neanderthal-human split – and some other change which we don’t know about that caused the selective sweep more recently.” In other words, the characteristic mutations that we see in human FOXP2 may indeed be more ancient than expected, but the mutated gene only became widespread and uniform later in human history. While many have interpreted Pääbo’s findings as evidence that Neanderthals could talk, he is more cautious. “There’s no reason to assume that they weren’t capable of spoken language, but there must be many other genes involved in speech that we yet don’t know about in Neanderthals.”

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One jump from chimps to humans – the origin of malaria

By Ed Yong | August 3, 2009 5:00 pm

Blogging on Peer-Reviewed ResearchSwine flu has made the world all too aware of the possibility of diseases making the leap from animal hosts to human ones. Now, we know that another disease made a similar transition from chimpanzees to humans, several thousand years ago. This particular infection is caused by a parasite, and a very familiar and dangerous one – Plasmodium falciparum, the agent responsible for malaria. 

Transmitted by the bite of mosquitoes, P.falciparum infects over 500 million people every year. Its closest relative is a related parasite, Plasmodium reichenowi, which infects chimpanzees. Leading an international research team, Stephen Rich from the University of Massachussetts has discovered that P.reichenowi is no mere relative – it’s actually P.falciparum‘s ancestor.

Rich compared the genes of the two species to build a Plasmodium family tree, which showed that all of the 133 known strains of P.falciparum, from all parts of the world, are united one a single branch on the P.reichenowi lineage. The stem of that branch represents a single event where P.reichenowi crossed the species barrier from chimps to humans.

The new study was possible because of eight newly collected samples of P.reichenowi from wild and captive chimps. Until now, only a single sample of this species had ever been isolated. Armed with fresh samples, the team focused their attention on three genes – cytB, clpC and 18s rRNA. They found that those of P.reichenowi are very varied, much more so than its genetically uniform cousin P.falciparum (even though we have over 16 times as many samples of the latter). Chances are that any two samples of P.reichenowi are more genetically distinct that either one is to P.falcarium.

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Chimps show that actions spoke louder than words in language evolution

By Ed Yong | January 31, 2009 12:00 pm

Revisitedbanner.jpg

Hollywood cavemen typically communicate with grunts and snorts, reflecting a belief that human language originated like this and slowly evolved into the rich and sophisticated tongues we use today. But researchers from Emory University, Atlanta have found evidence that the origins of human language could lie in gestures, not words. If they are right, then high-fives, V-signs and thumbs-ups could more closely reflect the beginnings of human language than conversations do.

chimp-reaching.jpgAll primates can communicate with each other through facial expressions, body postures and calls, but humans and apes are unique in their use of gestures. These go beyond simple postures or walking patterns – they are movements of the hand, limbs and feet, specifically directed at another individual.

We think of language as mainly spoken or written but gestures play an enormous, often overlooked role. After all, isn’t a speaker who waves their hands animatedly more engaging than one who stands motionless behind a podium? Gestures are such an intrinsic part of the way we communicate that a blind speaker will naturally make them even when speaking to a blind audience. And babies use gestures long before they learn their first words.

To understand the role of gestures in the origins of human language, Amy Pollick and Frans de Waal decided to see how they are used by our closest relatives – the chimpanzee and the bonobo. For one and a half years, they watched 34 chimps belonging to two separate groups, and 13 bonobos, again from two groups. Through painstaking analyses, they identified 31 different gestures and 18 different facial and vocal expressions.

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Chimpanzees take risks but bonobos play it safe

By Ed Yong | March 26, 2008 2:55 pm

Blogging on Peer-Reviewed ResearchWould you gamble on a safe bet for the promise of something more? Would you risk losing everything for the possibility of greater rewards? In psychological experiments, humans tend to play it safe when we stand to gain something – we’re more likely to choose a certain reward over a larger but riskier one. Now, we’re starting to understand how our two closest relatives deal with risk – bonobos, like us, tend to be risk-averse while chimpanzees usually play the odds.

Bonobo.jpg
Sarah Heilbronner from Harvard University studied the attitudes of five chimps and five bonobos to risky decisions. All the animals had been born in captivity in the Liepzig Zoo, Germany and were fed well on a regular schedule. Heilbronner presented the apes with one of two upside-down bowls of different shapes and colours. One ‘fixed’ bowl always contained four grape pieces and the other ‘variable’ one had a fifty-fifty chance of concealing either one grape piece or seven.

After a few trials with each bowl to get them accustomed to the options, Heilbronner let the animals choose between the two. The chimps were most likely to take a gamble on the variable bowl and they only chose the fixed one 36% of the time. The bonobos on the other hand mostly liked to play it safe and picked the fixed bowl 72% of the time.  On an individual level, all of the five bonobos showed risk-averse behaviour and four of the five chimps demonstrated a penchant for risk-taking.

It’s not that one of the two species learns about the choice more slowly than the other; the differences in their behaviour were apparent in the very first trials of the experiment, and only grew larger with experience. Nor was it the case that either chimps or bonobos had better mathematical skills than the other. When they were offered the bowls face-up and could see what was inside, they almost always picked the one with the most grape pieces.

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Communicating chimps and talking humans show activity in same part of the brain

By Ed Yong | February 29, 2008 1:25 am

chimp-reaching.jpgChimpanzees may not be able to recite Hamlet or giving rousing speeches but there is no doubt that they are excellent communicators. They exchange a wide variety of sophisticated calls and gestures that carry meaning and can be tailored to different audiences.

The sophistication of chimp communication doesn’t stop there. Jared Taglialatela from the Yerkes National Primate Research Center has found that chimp signals and human speech are both strongly influenced by the same area in the left half of the brain – a region called the inferior frontal gyrus (IFG).

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