The Negritos of Sundaland, Sahul, and the Philippines

Ati (Negrito) woman from the Philippines

The Negritos are a fascinating group of short-statured, dark-skinned, frizzy-haired peoples from southeast Asia–chiefly the Andaman Islands, Malaysia, Philippines, and Thailand. (Spelling note: “Negritoes” is also an acceptable plural, and some sources use the Spanish Negrillos.)

Because of their appearance, they have long been associated with African peoples, especially the Pygmies. Pygmies are formally defined as any group where adult men are, on average 4’11” or less and is almost always used specifically to refer to African Pygmies; the term pygmoid is sometimes used for groups whose men average 5’1″ or below, including the Negritos. (Some of the Bushmen tribes, Bolivians, Amazonians, the remote Taron, and a variety of others may also be pygmoid, by this definition.)

However, genetic testing has long indicated that they, along with other Melanesians and Australian Aborigines, are more closely related to other east Asian peoples than any African groups. In other words, they’re part of the greater Asian race, albeit a distant branch of it.

But how distant? And are the various Negrito groups closely related to each other, or do there just happen to be a variety of short groups of people in the area, perhaps due to convergent evolution triggered by insular dwarfism?

From Wikimedia

In Discerning the origins of the Negritos, First Sundaland Peoples: deep divergence and archaic admixture, Jinam et al gathered genetic data from Filipino, Malaysian, and Andamanese Negrito populations, and compared them both to each other and other Asian, African, and European groups. (Be sure to download the supplementary materials to get all of the graphs and maps.)

They found that the Negrito groups they studied “are basal to other East and Southeast Asians,” (basal: forming the bottom layer or base. In this case, it means they split off first,) “and that they diverged from West Eurasians at least 38,000 years ago.” (West Eurasians: Caucasians, consisting of Europeans, Middle Easterners, North Africans, and people from India.) “We also found relatively high traces of Denisovan admixture in the Philippine Negritos, but not in the Malaysian and Andamanese groups.” (Denisovans are a group of extinct humans similar to Neanderthals, but we’ve yet to find many of their bones. Just as Neanderthal DNA shows up in non-Sub-Saharan-Africans, so Denisvoan shows up in Melanesians.)

Figure 1 (A) shows PC analysis of Andamanese, Malaysian, and Philippine Negritos, revealing three distinct clusters:

In the upper right-hand corner, the Aeta, Agta, Batak, and Mamanwa are Philippine Negritos. The Manobo are non-Negrito Filipinos.

In the lower right-hand corner are the Jehai, Kintak and Batek are Malaysian Negritos.

And in the upper left, we have the extremely isolated Andamanese Onge and Jarawa Negritos.

(Phil-NN and Mly-NN I believe are Filipino and Malaysian Non-Negritos.)

You can find the same chart, but flipped upside down, with Papuan and Melanesian DNA in the supplemental materials. Of the three groups, they cluster closest to the Philippine Negritos, along the same line with the Malaysians.

By excluding the Andamanese (and Kintak) Negritos, Figure 1 (B) allows a closer look at the structure of the Philippine Negritos.

The Agta, Aeta, and Batak form a horizontal “comet-like pattern,” which likely indicates admixture with non-Negrito Philipine groups like the Manobo. The Mamanawa, who hail from a different part of the Philippines, also show this comet-like patterns, but along a different axis–likely because they intermixed with the different Filipinos who lived in their area. As you can see, there’s a fair amount of overlap–several of the Manobo individuals clustered with the Mamanwa Negritos, and the Batak cluster near several non-Negrito groups (see supplemental chart S4 B)–suggesting high amounts of mixing between these groups.

ADMIXTURE analysis reveals a similar picture. The non-Negrito Filipino groups show up primarily as Orange. The Aeta, Agta, and Batak form a clear genetic cluster with each other and cline with the Orange Filipinos, with the Aeta the least admixed and Batak the most.

The white are on the chart isn’t a data error, but the unique signature of the geographically separated Mananwa, who are highly mixed with the Manobo–and the Manobo, in turn, are mixed with them.

But this alone doesn’t tell us how ancient these populations are, nor if they’re descended from one ancestral pop. For this, the authors constructed several phylogenetic trees, based on all of the data at hand and assuming from 0 – 5 admixture events. The one on the left assumes 5 events, but for clarity only shows three of them. The Denisovan DNA is fascinating and well-documented elsewhere in Melanesian populatons; that Malaysian and Philippine Negritos mixed with their neighbors is also known, supporting the choice of this tree as the most likely to be accurate.

Regardless of which you pick, all of the trees show very similar results, with the biggest difference being whether the Melanesians/Papuans split before or after the Andamanese/Malaysian Negritos.

In case you are unfamiliar with these trees, I’ll run down a quick explanation: This is a human family tree, with each split showing where one group of humans split off from the others and became an isolated group with its own unique genetic patterns. The orange and red lines mark places where formerly isolated groups met and interbred, producing children that are a mix of both. The first split in the tree, going back million of years, is between all Homo sapiens (our species) and the Denisovans, a sister species related to the Neanderthals.

All humans outside of sub-Saharan Africans have some Neanderthal DNA because their ancestors met and interbred with Neanderthals on their way Out of Africa. Melanesians, Papuans, and some Negritos also have some Denisovan DNA, because their ancestors met and made children with members of this obscure human species, but Denisovan DNA is quite rare outside these groups.

Here is a map of Denisovan DNA levels the authors found, with 4% of Papuan DNA hailing from Denisivan ancestors, and Aeta nearly as high. By contrast, the Andamanese Negritos appear to have zero Denisovan. Either the Andamanese split off before the ancestors of the Philippine Negritos and Papuans met the Denisovans, or all Denisovan DNA has been purged from their bloodlines, perhaps because it just wasn’t helpful for surviving on their islands.

Back to the Tree: The second node is where the Biaka, a group of Pygmies from the Congo Rainforest in central Africa. Pygmy lineages are among the most ancient on earth, potentially going back over 200,000 years, well before any Homo sapiens had left Africa.

The next group that splits off from the rest of humanity are the Yoruba, a single ethnic group chosen to stand in for the entirety of the Bantus. Bantus are the group that you most likely think of when you think of black Africans, because over the past three millennia they have expanded greatly and conquered most of sub-Saharan Africa.

Next we have the Out of Africa event and the split between Caucasians (here represented by the French) and the greater Asian clade, which includes Australian Aborigines, Melanesians, Polynesians, Chinese, Japanese, Siberians, Inuit, and Native Americans.

The first groups to split off from the greater Asian clade (aka race) were the Andamanese and Malaysian Negritos, followed by the Papuans/Melanesians Australian Aborigines are closely related to Papuans, as Australia and Papua New Guinea were connected in a single continent (called Sahul) back during the last Ice Age. Most of Indonesia and parts of the Philippines were also connected into a single landmass, called Sunda. Sensibly, people reached Sunda before Sahul, though (Perhaps at that time the Andaman islands, to the northwest of Sumatra, were also connected or at least closer to the mainland.)

Irrespective of the exact order in which Melanesians and individual Negrito groups split off, they all split well before all of the other Asian groups in the area.

This is supported by legends told by the Filipinos themselves:

Legends, such as those involving the Ten Bornean Datus and the Binirayan Festival, tell tales about how, at the beginning of the 12th century when Indonesia and Philippines were under the rule of Indianized native kingdoms, the ancestors of the Bisaya escaped from Borneo from the persecution of Rajah Makatunaw. Led by Datu Puti and Datu Sumakwel and sailing with boats called balangays, they landed near a river called Suaragan, on the southwest coast of Panay, (the place then known as Aninipay), and bartered the land from an Ati [Negrito] headman named Polpolan and his son Marikudo for the price of a necklace and one golden salakot. The hills were left to the Atis while the plains and rivers to the Malays. This meeting is commemorated through the Ati-atihan festival.[4]

The study’s authors estimate that the Negritos split from Europeans (Caucasians) around 30-38,000 years ago, and that the Malaysian and Philippine Negritos split around
13-15,000 years ago. (This all seems a bit tentative, IMO, especially since we have physical evidence of people in the area going back much further than that, and the authors themselves admit in the discussion that their time estimate may be too short.)

The authors also note:

Both our NJ (fig. 3A) and UPGMA (supplementary fig. S10) trees show that after divergence from Europeans, the ancestral Asians subsequently split into Papuans, Negritos and East Asians, implying a one-wave colonization of Asia. … This is in contrast to the study based on whole genome sequences that suggested Australian Aboriginal/Papuan first split from European/East Asians 60 kya, and later Europeans and East Asians diverged 40 kya (Malaspinas et al. 2016). This implies a two-wave migration into Asia…

The matter is still up for debate/more study.

Negrito couple from the Andaman Islands

In conclusion: All of the Negrito groups are likely descended from a common ancestor, (rather than having evolved from separate groups that happened to develop similar body types due to exposure to similar environments,) and were among the very first inhabitants of their regions. Despite their short stature, they are more closely related to other Asian groups (like the Chinese) than to African Pygmies. Significant mixing with their neighbors, however, is quickly obscuring their ancient lineages.

I wonder if all ancient human groups were originally short, and height a recently evolved trait in some groups?

In closing, I’d like to thank Jinam et al for their hard work in writing this article and making it available to the public, their sponsors, and the unique Negrito peoples themselves for surviving so long.


Recent Discoveries in Human Evolution: H. Sapiens 300,000 years old?

Welcome back to our discussion of recent exciting advances in our knowledge of human evolution:

  • Ancient hominins in the US?
  • Homo naledi
  • Homo flores
  • Humans evolved in Europe?
  • In two days, first H Sap was pushed back to 260,000 years,
  • then to 300,000 years!
  • Bell beaker paper

As we’ve been discussing for the past couple of weeks, the exact dividing line between “human” and “non-human” isn’t always hard and fast. The very first Homo species, such as Homo habilis, undoubtedly had more in common with its immediate Australopithecine ancestors than with today’s modern humans, 3 million years later, but that doesn’t mean these dividing lines are meaningless. Homo sapiens and Homo neandethalensis, while considered different species, interbred and produced fertile offspring (most non-Africans have 3-5% Neanderthal DNA as a result of these pairings;) by contrast, humans and chimps cannot produce fertile offspring, because humans and chimps have a different number of chromosomes. The genetic distance between the two groups is just too far.

Oldowan tool

The grouping of ancient individuals into Homo or not-Homo, Erectus or Habilis, Sapiens or not, is partly based on physical morphology–what they looked like, how they moved–and partly based on culture, such as the ability to make tools or control fire. While australopithecines made some stone tools (and chimps can make tools out of twigs to retrieve tasty termites from nests,) Homo habilis (“handy man”) was the first to master the art and produce large numbers of more sophisticated tools for different purposes, such as this Oldowan chopper.

But we also group species based on moral or political beliefs–scientists generally believe it would be immoral to say that different modern human groups belong to different species, and so the date when Homo ergaster transforms into Homo sapiens is dependent on the date when the most divergent human groups alive today split apart–no one wants to come up with a finding that will get trumpeted in media as “Scientists Prove Pygmies aren’t Human!” (Pygmies already have enough problems, what with their immediate neighbors actually thinking they aren’t human and using their organs for magic rituals.)

(Of course they would still be Human even if they part of an ancient lineage.)

But if an ecologically-minded space alien arrived on earth back in 1490 and was charged with documenting terrestrial species, it might easily decide–based on morphology, culture, and physical distribution–that there were several different Homo “species” which all deserve to be preserved.

But we are not space aliens, and we have the concerns of our own day.

So when a paper was published last year on archaic admixture in Pygmies and the Pygmy/Bushmen/everyone else split, West Hunter noted the authors used a fast–but discredited–estimate of mutation rate to avoid the claim that Pygmies split off 300,000 years ago, 100,000 years before the emergence of Homo sapiens:

There are a couple of recent papers on introgression from some quite divergent archaic population into Pygmies ( this also looks to be the case with Bushmen). Among other things, one of those papers discussed the time of the split between African farmers (Bantu) and Pygmies, as determined from whole-genome analysis and the mutation rate. They preferred to use the once-fashionable rate of 2.5 x 10-8 per-site per-generation (based on nothing), instead of the new pedigree-based estimate of about 1.2 x 10-8 (based on sequencing parents and child: new stuff in the kid is mutation). The old fast rate indicates that the split between Neanderthals and modern humans is much more recent than the age of early Neanderthal-looking skeletons, while the new slow rate fits the fossil record – so what’s to like about the fast rate? Thing is, using the slow rate, the split time between Pygmies and Bantu is ~300k years ago – long before any archaeological sign of behavioral modernity (however you define it) and well before the first known fossils of AMH (although that shouldn’t bother anyone, considering the raggedness of the fossil record).

This was a good catch. (Here is the relevant Dienekes article, plus Model-based analyses of whole-genome data reveal a complex evolutionary history involving archaic introgression in Central African Pygmies, and Whole-genome sequence analyses of Western Central African Pygmy hunter-gatherers reveal a complex demographic history and identify candidate genes under positive natural selection.) If the slow mutation rate matches the fossil record better than the fast, why use the fast–except if the fast gives you inconvenient results?

But now we have another finding, based on the Bushmen, which also pushes the Bushmen/everyone else split back further than 200,000 years–from BioRxiv, “Ancient genomes from southern Africa pushes modern human divergence beyond 260,000 years ago“:

Southern Africa is consistently placed as one of the potential regions for the evolution of Homo sapiens. To examine the region’s human prehistory prior to the arrival of migrants from East and West Africa or Eurasia in the last 1,700 years, we generated and analyzed genome sequence data from seven ancient individuals from KwaZulu-Natal, South Africa. Three Stone Age hunter-gatherers date to ~2,000 years ago, and we show that they were related to current-day southern San groups such as the Karretjie People. Four Iron Age farmers (300-500 years old) have genetic signatures similar to present day Bantu-speakers. The genome sequence (13x coverage) of a juvenile boy from Ballito Bay, who lived ~2,000 years ago, demonstrates that southern African Stone Age hunter-gatherers were not impacted by recent admixture; however, we estimate that all modern-day Khoekhoe and San groups have been influenced by 9-22% genetic admixture from East African/Eurasian pastoralist groups arriving >1,000 years ago, including the Ju|’hoansi San, previously thought to have very low levels of admixture. Using traditional and new approaches, we estimate the population divergence time between the Ballito Bay boy and other groups to beyond 260,000 years ago.

260,000 years! Looks like West Hunter was correct, and we should be looking at the earlier Pygmy divergence date, too.

Two days later, a paper from the opposite end of Africa appeared in Nature which–potentially–pushes H sapiens’s emergence to 300,000 years ago, “New fossils from Jebel Irhoud, Morocco and the pan-African origin of Homo sapiens“:

Fossil evidence points to an African origin of Homo sapiens from a group called either H. heidelbergensis or H. rhodesiensis. However, the exact place and time of emergence of H. sapiens remain obscure … In particular, it is unclear whether the present day ‘modern’ morphology rapidly emerged approximately 200 thousand years ago (ka) among earlier representatives of H. sapiens1 or evolved gradually over the last 400 thousand years2. Here we report newly discovered human fossils from Jebel Irhoud, Morocco, and interpret the affinities of the hominins from this site with other archaic and recent human groups. We identified a mosaic of features including facial, mandibular and dental morphology that aligns the Jebel Irhoud material with early or recent anatomically modern humans and more primitive neurocranial and endocranial morphology. In combination with an age of 315 ± 34 thousand years (as determined by thermoluminescence dating)3, this evidence makes Jebel Irhoud the oldest and richest African Middle Stone Age hominin site that documents early stages of the H. sapiens clade in which key features of modern morphology were established.

Comparison of the skulls of a Jebel Irhoud human (left) and a modern human (right) (NHM London)

Hublin–one of the study’s coauthors–notes that between 330,000 and 300,000 years ago, the Sahara was green and animals could range freely across it.

While the Moroccan fossils do look like modern H sapiens, they also still look a lot like pre-sapiens, and the matter is still up for debate. Paleoanthropologist Chris Stringer suggests that we should consider all of our ancestors after the Neanderthals split off to be Homo sapiens, which would make our species 500,000 years old. Others would undoubtedly prefer to use a more recent date, arguing that the physical and cultural differences between 500,000 year old humans and today’s people are too large to consider them one species.

According to the Atlantic:

[The Jebel Irhoud] people had very similar faces to today’s humans, albeit with slightly more prominent brows. But the backs of their heads were very different. Our skulls are rounded globes, but theirs were lower on the top and longer at the back. If you saw them face on, they could pass for a modern human. But they turned around, you’d be looking at a skull that’s closer to extinct hominids like Homo erectus. “Today, you wouldn’t be able to find anyone with a braincase that shape,” says Gunz.

Their brains, though already as large as ours, must also have been shaped differently. It seems that the size of the human brain had already been finalized 300,000 years ago, but its structure—and perhaps its abilities—were fine-tuned over the subsequent millennia of evolution.

No matter how we split it, these are exciting days in the field!

No, Graecopithecus does not prove humans evolved in Europe

Hello! We’re in the midst of a series of posts on recent exciting news in the field of human evolution:

  • Ancient hominins in the US?
  • Homo naledi
  • Homo flores
  • Humans evolved in Europe?
  • In two days, first H Sap was pushed back to 260,000 years,
  • then to 300,000 years!
  • Bell beaker paper

Today we’re discussing the much-publicized claim that scientists have discovered that humans evolved in Europe. (If you haven’t read last week’s post on Homo naledi and flores, I encourage you to do so first.) The way reporters have framed their headlines about the recent Graecopithecus freybergi findings is itself a tale:

The Telegraph proclaimed, “Europe was the birthplace of mankind, not Africa, scientists find,” Newsweek similarly trumpeted, “First Human Ancestor Came from Europe Not Africa,” and CBS News stated, “Controversial study suggests earliest humans lived in Europe – not Africa.”

The Conversation more prudently inquired, “Did humans evolve in Europe rather than Africa? ” and NewScientist and the Washington Post, in a burst of knowing what a “human” is, stated, “Our common ancestor with chimps may be from Europe, not Africa” and “Ape that lived in Europe 7 million years ago could be human ancestor,” respectively.

This all occasioned some very annoying conversations along the lines of “White skin tone couldn’t possibly have evolved within the past 20,000 years because humans evolved in Europe! Don’t you know anything about science?”

Ohkay. Let’s step back a moment and take a look at what Graecopithecus is and what it isn’t.

This is Graecopithecus:

I think there is a second jawbone, but that’s basically it–and that’s not six teeth, that’s three teeth, shown from two different perspectives. There’s no skull, no shoulder blades, no pelvis, no legs.


By contrast, here are Lucy, the famous Australopithecus from Ethiopia, and a sample of the over 1,500 bones and pieces of Homo naledi recently recovered from a cave in South Africa.

Now, given what little scientists had to work with, the fact that they managed to figure out anything about Graecopithecus is quite impressive. The study, reasonably titled “Potential hominin affinities of Graecopithecus from the Late Miocene of Europe,” by
Jochen Fuss, Nikolai Spassov, David R. Begun, and Madelaine Böhm, used μCT and 3D reconstructions of the jawbones and teeth to compare Graecopithecus’s teeth to those of other apes. They decided the teeth were different enough to distinguish Graecopithecus from the nearby but older Ouranopithecus, while looking more like hominin teeth:

G. freybergi uniquely shares p4 partial root fusion and a possible canine root reduction with this tribe and therefore, provides intriguing evidence of what could be the oldest known hominin.

My hat’s off to the authors, but not to all of the reporters who dressed up “teeth look kind of like hominin teeth” as “Humans evolved in Europe!”

First of all, you cannot make that kind of jump based off of two jawbones and a handfull of teeth. Many of the hominin species we have recovered–such as Homo naledi and Homo floresiensis, as you know if you already read the previous post–possessed a mosaic of “ape like” and “human like” traits, ie:

The physical characteristics of H. naledi are described as having traits similar to the genus Australopithecus, mixed with traits more characteristic of the genus Homo, and traits not known in other hominin species. The skeletal anatomy displays plesiomorphic (“ancestral”) features found in the australopithecines and more apomorphic (“derived,” or traits arising separately from the ancestral state) features known from later hominins.[2]

Nebraska Man teeth compared to chimps, Homo erectus, and modern humans

If we only had six Homo naledi bones instead of 1,500 of them, we might be looking only at the part that looks like an Australopithecus instead of the parts that look like H. erectus or totally novel. You simply cannot make that kind of claim off a couple of jawbones. You’re far too likely to be wrong, and then not only will you end up with egg on your face, but you’ll only be giving more fuel to folks who like to proclaim that “Nebraska Man turned out to be a pig!”:

In February 1922, Harold Cook wrote to Dr. Henry Osborn to inform him of the tooth that he had had in his possession for some time. The tooth had been found years prior in the Upper Snake Creek beds of Nebraska along with other fossils typical of North America. … Osborn, along with Dr. William D. Matthew soon came to the conclusion that the tooth had belonged to an anthropoid ape. They then passed the tooth along to William K. Gregory and Dr. Milo Hellman who agreed that the tooth belonged to an anthropoid ape more closely related to humans than to other apes. Only a few months later, an article was published in Science announcing the discovery of a manlike ape in North America.[1] An illustration of H. haroldcookii was done by artist Amédée Forestier, who modeled the drawing on the proportions of “Pithecanthropus” (now Homo erectus), the “Java ape-man,” for the Illustrated London News. …

Examinations of the specimen continued, and the original describers continued to draw comparisons between Hesperopithecus and apes. Further field work on the site in the summers of 1925 and 1926 uncovered other parts of the skeleton. These discoveries revealed that the tooth was incorrectly identified. According to these discovered pieces, the tooth belonged neither to a man nor an ape, but to a fossil of an extinct species of peccary called Prosthennops serus.

That basically sums up everything I learned about human evolution in highschool.


Scientists define “humans” as members of the genus Homo, which emerged around 3 million years ago. These are the guys with funny names like Homo habilis, Homo neanderthalensis, and the embarrassingly named Homo erectus. The genus also includes ourselves, Homo sapiens, who emerged around 200-300,000 years ago.

Homo habilis descended from an Australopithecus, perhaps Lucy herself. Australopithecines are not in the Homo genus; they are not “human,” though they are more like us than modern chimps and bonobos are. They evolved around 4 million years ago.

The Australopithecines evolved, in turn, from even older apes, such as–maybe–Ardipithecus (4-6 million years ago) or Sahelanthropus tchadensis.

Regardless, humans didn’t evolve 7 million years ago. Sahelanthropus and even Lucy do not look like anyone you would call “human.” Humans have only been around for about 3 million years, and our own specific species is only about 300,000 years old. Even if Graecopithecus turns out to be the missing link–the true ancestor of both modern chimps and modern humans–that still does not change where humans evolved, because Graecopithecus narrowly missed being a human by 4 million years.

If you want to challenge the Out of Africa narrative, I think you’d do far better arguing for a multi-regional model of human evolution that includes back-migration of H. erectus into Africa and interbreeding with hominins there as spurring the emergence of H. sapiens than arguing about a 7 million year old jawbone. (I just made that up, by the way. It has no basis in anything I have read. But it at least has the right characters, in the right time frame, in a reasonable situation.)

Sorry this was a bit of a rant; I am just rather passionate about the subject. Next time we’ll examine very exciting news about Bushmen and Pygmy DNA!


Recent Exciting Developments in Human Evolutionary History: Naledi and Flores

A reconstruction of Homo naledi’s head by paleoartist John Gurche, who spent some 700 hours recreating the head from bone scans. Image credit: John Gurche / Mark Thiessen / National Geographic. source:

Continuing with our series on recent exciting discoveries in human genetics/paleo anthropology:

  • Ancient hominins in the US?
  • Homo naledi
  • Homo flores
  • Humans evolved in Europe?
  • In two days, first H Sap was pushed back to 260,000 years,
  • then to 300,000 years!
  • Bell beaker paper

One of the most interesting things about our human family tree (the Homo genus and our near primate relatives, chimps, gorillas, orangs, gibbons, etc.) is that for most of our existence, “we” weren’t the only humans in town. We probably coexisted, mated with, killed, were killed by, and at times perhaps completely ignored 7 other human species–Homo erectus, floresiensis, Neanderthals, Denisovans, heidelbergensis, rhodesiensis, and now Naledi.

That said, these “species” are a bit controversial. Some scientists like to declare practically every jawbone and skull fragment they find a new species (“splitters”,) and some claim that lots of different bones actually just represent natural variation within a species (“lumpers.”)

Take the canine family: dogs and wolves can interbreed, but I doubt great danes and chihuahuas can. For practical purposes, though, the behavior of great danes and chihuahuas is similar enough to each other–and different enough from wolves’–that we class them as one species and wolves as another. Additionally, when we take a look at the complete variety of dogs in existence, it is obvious that there is actually a genetic gradient in size between the largest and smallest breeds, with few sharp breaks (maybe the basenji.) If we had a complete fossil record, and could reliably reconstruct ancient hominin behaviors and cultural patterns, then we could say with far more confidence whether we are looking at something like dogs vs. wolves or great danes vs. chihuahuas. For now, though, paleoanthropology and genetics remain exciting fields with constant new discoveries!

Homo naledi and homo Floresiensis may ultimately be small branches on the human tree, but each provides us with a little more insight into the whole.

Naledi’s story is particularly entertaining. Back in 2013, some spelunkers crawled through a tiny opening in a South African cave and found a chamber full of bones–hominin bones.

Anthropologists often have to content themselves with a handful of bones, sometimes just a fragment of a cranium or part of a jaw. (The recent claim that humans evolved in Europe is based entirely on a jaw fragment plus a few teeth.) But in the Rising Star Cave system, they found an incredible 1,500+ bones or bone fragments, the remains of at least 15 people, and they haven’t even finished excavating.

According to Wikipedia:

The physical characteristics of H. naledi are described as having traits similar to the genus Australopithecus, mixed with traits more characteristic of the genus Homo, and traits not known in other hominin species. The skeletal anatomy displays plesiomorphic (“ancestral”) features found in the australopithecines and more apomorphic (“derived,” or traits arising separately from the ancestral state) features known from later hominins.[2]

Adult males are estimated to have stood around 150 cm (5 ft) tall and weighed around 45 kg (100 lb), while females would likely have been a little shorter and weighed a little less. An analysis of H. naledi‘s skeleton suggests it stood upright and was bipedal.[2][22][23] Its hip mechanics, the flared shape of the pelvis are similar to australopithecines, but its legs, feet and ankles are more similar to the genus Homo.[2][24]

I note that the modern humans in South Africa are also kind of short–According to Time, the Bushmen average about 5 feet tall, (that’s probably supposed to be Bushmen men, not the group average,) and the men of nearby Pygmy peoples of central Africa average 4’11” or less.

The hands of H. naledi appear to have been better suited for object manipulation than those of australopithecines.[2][25] Some of the bones resemble modern human bones, but other bones are more primitive than Australopithecus, an early ancestor of humans. The thumb, wrist, and palm bones are modern-like while the fingers are curved, more australopithecine, and useful for climbing.[3] The shoulders are configured largely like those of australopithecines. The vertebrae are most similar to Pleistocene members of the genus Homo, whereas the ribcage is wide distally as is A. afarensis.[2] The arm has an Australopithecus-similar shoulder and fingers and a Homo-similar wrist and palm.[24] The structure of the upper body seems to have been more primitive than that of other members of the genus Homo, even apelike.[3] In evolutionary biology, such a mixture of features is known as an anatomical mosaic.

Four skulls were discovered in the Dinaledi chamber, thought to be two females and two males, with a cranial volume of 560 cm3 (34 cu in) for the males and 465 cm3 (28.4 cu in) for females, about 40% to 45% the volume of modern human skulls; average Homo erectus skulls are 900 cm3 (55 cu in). A fifth, male skull found in the Lesedi chamber has a larger estimated cranial volume of 610 cm3 (37 cu in) [6]. The H. naledi skulls are closer in cranial volume to australopithecine skulls.[3] Nonetheless, the cranial structure is described as more similar to those found in the genus Homo than to australopithecines, particularly in its slender features, and the presence of temporal and occipitalbossing, and the fact that the skulls do not narrow in behind the eye-sockets.[2] The brains of the species were markedly smaller than modern Homo sapiens, measuring between 450 and 610 cm3 (27–37 cu in). The teeth and mandiblemusculature are much smaller than those of most australopithecines, which suggests a diet that did not require heavy mastication.[2] The teeth are small, similar to modern humans, but the third molar is larger than the other molars, similar to australopithecines.[24] The teeth have both primitive and derived dental development.[26]

The overall anatomical structure of the species has prompted the investigating scientists to classify the species within the genus Homo, rather than within the genus Australopithecus. The H. naledi skeletons indicate that the origins of the genus Homo were complex and may be polyphyletic (hybrid), and that the species may have evolved separately in different parts of Africa.[27][28]

Because caves don’t have regular sediment layers like riverbeds or floodplains, scientists initially had trouble dating the bones. Because of their relative “primitiveness,” that is, their similarity to our older, more ape-like ancestors, they initially thought Homo naledi must have lived a long time ago–around 2 million years ago. But when they finally got the bones dated, they found they were much younger–only around 335,000 and 236,000 years old,[1][4] which means H naledi and Homo sapiens–whose age was also recently adjusted–actually lived at the same time, though not necessarily in the same place.

(On the techniques used for dating the bones:

Francis Thackeray, of the University of the Witwatersrand, suggested that H. naledi lived 2 ± 0.5 million years ago, based on the skulls’ similarities to H. rudolfensis, H. erectus, and H. habilis, species that existed around 1.5, 2.5, and 1.8 million years ago, respectively.[35][36] Early estimates derived from statistical analysis of cranial traits yielded a range of 2 million years to 912,000 years before present.[2][37][38]

Dirks et al. (2017) obtained a much more recent age range of between 335,000 and 236,000 years ago from dating fossil teeth, sediments encasing the fossils and overlying flowstone. They used a variety of dating techniques, including radiocarbon dating of teeth, optically stimulated luminescence of sediment, palaeomagnetic analysis of flowstone, and most conclusively, uranium-thorium dating of cave flowstone and teeth and electron spin resonance dating of teeth.[1][4] The latter two types of measurements of teeth were performed on blind duplicate samples by two different labs.[1])

H naledi is unlikely to be a major branch on the human family tree–much too recent to be one of our ancestors–but it still offers important information on the development of “human” traits and how human and ape-like traits can exist side-by-side in the same individual (a theme we will return to later.) (Perhaps, just as we modern Homo sapiens contain traits derived from ancestors who mated with Neanderthals, Denisovans, and others, H naledi owes some of its traits to hybridization between two very different hominins.) It’s also important because it is one more data point in favor of the recent existence of a great many different human varieties, not just a single group.

Flores Hobbit aka Homo floresiensis source

The Flores hominin, (aka the Hobbit,) tells a similar tale, but much further afield from humanity’s evolutionary cradle.

The island of Flores is part of the Indonesian archipelago, a surprisingly rich source of early hominin fossils. Homo erectus, the famous Java Man, arrived in the area around 1.7 million years ago, but to date no erectus remains have been discovered on the actual island of Flores. During the last Glacial Maximum, ocean levels were lower and most of Indonesia was connected in a single continent, called Sundaland. During one of these glacial periods, H erectus could have easily walked from China to Java, but Flores remained an island, cut off from the mainland by several miles of open ocean.

Stone tools appeared on Flores about 1 million years ago, though we don’t know yet who made them, nor how they developed the technology necessary to make the journey.

The diminutive Hobbits show up later, around 50,000 to 100,000 years ago, though stone tools recovered alongside their remains have been dated from 50,000 to 190,000 years ago. Homo erectus is generally believed to have lived between 2 million and 140,000 years ago, and Homo sapiens arrived in Indonesia around 50,000 years ago. This places Floresiensis neatly between the two–it could have interacted with either species–perhaps descended from erectus and wiped out, in turn, by sapiens. (Or perhaps floresiensis represents an altogether novel line of hominins who left Africa on a completely separate trek from erectus.)

Unlike H naledi, whose diminutive stature is still within the current human range (especially of humans in the area,) floresiensis is exceptionally small for a hominin. According to Wikipedia:

The first set of remains to have been found, LB1, was chosen as the type specimen for the proposed species. LB1 is a fairly complete skeleton, including a nearly complete cranium (skull), determined to be that of a 30-year-old female. LB1 has been nicknamed the Little Lady of Flores or “Flo”.[2]

LB1’s height has been estimated at about 1.06 m (3 ft 6 in). The height of a second skeleton, LB8, has been estimated at 1.09 m (3 ft 7 in) based on measurements of its tibia.[3] These estimates are outside the range of normal modern human height and considerably shorter than the average adult height of even the smallest modern humans, such as the Mbenga and Mbuti (< 1.5 m (4 ft 11 in)),[32] Twa, Semang (1.37 m (4 ft 6 in) for adult women) of the Malay Peninsula,[33] or the Andamanese (1.37 m (4 ft 6 in) for adult women).[34]

By body mass, differences between modern pygmies and Homo floresiensis are even greater. LB1’s body mass has been estimated at 25 kg (55 lb). This is smaller than that of not only modern H. sapiens, but also H. erectus, which Brown and colleagues have suggested is the immediate ancestor of H. floresiensis. LB1 and LB8 are also somewhat smaller than the australopithecines from three million years ago, not previously thought to have expanded beyond Africa. Thus, LB1 and LB8 may be the shortest and smallest members of the extended human family discovered thus far.[citation needed]

Aside from smaller body size, the specimens seem otherwise to resemble H. erectus, a species known to have been living in Southeast Asia at times coincident with earlier finds purported to be of H. floresiensis.[3]

There’s a lot of debate about whether floresiensis is a real species–perhaps affected by insular dwarfism–or just a hominin that had some severe problems. Interestingly, we have a find from about 700,000 years ago on Flores of another hominin, which we think was also a Hobbit, but is even smaller than Flo and her relatives.

Floresiensis, like Naledi, didn’t contribute to modern humans. Rather, it is interesting because it shows the breadth of our genus. We tend to assume that, ever since we split off from the rest of the great apes, some 7 or 8 million years ago, our path has been ever upward, more complex and successful. But these Hobbits, most likely descendants of one of the most successful human species, (Homo erectus, who mastered fire, was the first to leave Africa, spread across Asia and Indonesia, and lasted for over a million and half years, far longer than our puny 300,000 years,) went in the opposite direction from its ancestors. It became much smaller than even the smallest living human groups. Its brain shrank:

In addition to a small body size, H. floresiensis had a remarkably small brain size. The brain of the holotype LB1 is estimated to have had a volume of 380 cm3 (23 cu in), placing it at the range of chimpanzees or the extinct australopithecines.[2][40] LB1’s brain size is half that of its presumed immediate ancestor, H. erectus (980 cm3 (60 cu in)).[40] The brain-to-body mass ratio of LB1 lies between that of H. erectus and the great apes.[41]

Nevertheless, it still made tools, probably controlled fire, and hunted cooperatively.

Whatever it was, it was like us–and very much not like us.


More on Naledi: Another Awesome Twig on our Human Family Tree and Homo Naledi was Chipping its Teeth Amazingly Often.

Recent Exciting Developments: 130kya American Hominins?

There has been SO MUCH EXCITING NEWS out of paleoanthropology/genetics lately, it’s been a little tricky keeping up with it all. I’ve been holding off on commenting on some of the recent developments to give myself time to think them over, but here goes:

  1. Ancient hominins in the US?
  2. Homo naledi
  3. Homo flores
  4. Humans evolved in Europe?
  5. In two days, first H Sap was pushed back to 260,000 years,
  6. then to 300,000 years!
  7. Bell beaker paper

1. Back in May (2017,) Holen et al published an article discussing A 130,000-year-old archaeological site in southern California, USA, in Nature:

Here we describe the Cerutti Mastodon (CM) site, an archaeological site from the early late Pleistocene epoch, where in situ hammerstones and stone anvils occur in spatio-temporal association with fragmentary remains of a single mastodon (Mammut americanum). The CM site contains spiral-fractured bone and molar fragments, indicating that breakage occured while fresh. Several of these fragments also preserve evidence of percussion. The occurrence and distribution of bone, molar and stone refits suggest that breakage occurred at the site of burial. Five large cobbles (hammerstones and anvils) in the CM bone bed display use-wear and impact marks, and are hydraulically anomalous relative to the low-energy context of the enclosing sandy silt stratum. 230Th/U radiometric analysis of multiple bone specimens using diffusion–adsorption–decay dating models indicates a burial date of 130.7 ± 9.4 thousand years ago. These findings confirm the presence of an unidentified species of Homo at the CM site during the last interglacial period (MIS 5e; early late Pleistocene), indicating that humans with manual dexterity and the experiential knowledge to use hammerstones and anvils processed mastodon limb bones for marrow extraction and/or raw material for tool production.

Reconstruction of a Homo erectus woman, Smithsonian

Note that “Homo” here is probably not H. sapiens, but a related or ancestral species, like Denisovans or Homo erectus, because as far as we know, H. sapiens was still living in Africa at the time.

This is obviously a highly controversial claim. Heck, “earliest human presence in the Americas” was already controversial, with some folks firmly camped at 15,000 years ago and others camped around 40,000 yeas ago. 130,000 years ago wasn’t even on the table.

Unfortunately, the article is paywalled, so I can’t read the whole thing and answer simple questions like, “Did they test the thickness of mineral accumulation on the bones to see if the breaks/scratches are the same age as the bones themselves?” That is, minerals build up on the surfaces of old bones over time. If the breaks and scratches were made before the bones were buried, they’ll have the same amount of buildup as the rest of the bone surfaces. If the breaks are more recent–say, the result of a bulldozer accidentally backing over the bones–they won’t.

They did get an actual elephant skeleton and smacked it with rocks to see if it would break in the same ways as the mammoth skeleton. A truck rolling over a rib and a rock striking it at an angle are bound to produce different kinds and patterns of breakage (the truck is likely to do more crushing, the rock to leave percussive impacts.) I’d also like to know if they compared the overall butchering pattern to known stone-tool-butchered elephants or mammoths, although I don’t know how easy it would be to find one.

Oldowan tool, about 2 million years old

They also looked at the pattern of impacts and shapes of the “hammerstones.” A rock which has been modified by humans hitting it with another rock will typically have certain shapes and patterns on its surface that can tell you things like which angle the rock was struck from during crafting. I’ve found a few arrowheads, and they are pretty distinct from other rocks.

Here’s a picture of an Oldowan stone chopper, about 2 million years old, which is therefore far older than these potential 130,000 year old tools. Homo sapiens didn’t exist 2 million years ago; this pointy rock was probably wielded by species such as Australopithecus garhi, H. habilis, or H. ergaster. Note that one side of this chopper is rounded, intended for holding comfortably in your hand, while the other side has had several chunks of rock smacked off, resulting in convex surfaces. Often you can tel exactly where the stone tool was struck to remove a flake, based on the shape and angle of the surface and the pattern of concentric, circular lines radiating out from the impact spot.

Homo erectus, who lived after the Oldowan tool makers and had a fancier, more complicated lithic technology, did make it out of Africa and spread across southeast Asia, up into China. This is, as far as I know, the first case of a hominin species using tools to significantly expand its range, but we have no evidence of erectus ever expanding into places that get significantly cold in the winter, and boat-building is a pretty advanced skill. We don’t even think erectus made it to Madagascar, which makes it sailing to the Americans rather doubtful.

I dislike passing judgment on the paper without reading it, but my basic instinct is skepticism. While I think the peopling of the Americas will ultimately turn out to be a longer, more complex, and interesting process than the 15,000 years camp, 130,000 years is just too interesting a claim to believe without further evidence (like the bones of said hominins.)

Still, I keep an open mind and await new findings.

(We’ll continue with part 2 next week.)

When did Asians Evolve?

When did Asians evolve?

Humanity's path out of Africa
Humanity’s path out of Africa

The history of humanity’s long sojourn across the globe has resulted in, more or less, three main super-clades, or races: Sub-Saharan Africans, Caucasians, and Asians. The words we use for these are not perfect (“Caucasian” is particularly imprecise,) but do the job well enough.

Genetic distance map of 18 human groups, by Saitou Naruya
Genetic distance map of 18 human groups, by Saitou Naruya

The Asian super-clade has three main branches: Melanesians (and Aborigines,) who traveled south into the Pacific; the Native Americans, who settled North and South America some 13-40,000 years ago; and of course the East Asians, like the Chinese, Japanese, and Polynesians.

(Amusingly, Indians, though they clearly live in Asia, are part of the Caucasian clade because they are more closely related to Middle Easterners and Europeans than Chinese people. As a result, Indians were–for a while—recorded as “white” on US censuses, though today they are recorded as “Asian.”)

People are fond of saying that the SS African race contains the greatest genetic diversity (as well it might, due to the inclusion of groups like the Pygmies and Bushmen, who may have split off from other human groups over 100,000 years ago,) but the Asian race has the greatest pre-Columbian geographic/environmental range, stretching from Australia and Polynesia to Siberia and Greenland, from Mongolia to Patagonia.

Asian, Australian, and Melanesian ethic groups (including Indian, Middle Eastern, and Chinese) from Haak et al's dataset
Locations of Asian, Australian, and Melanesian ethic groups (including Indian, Middle Eastern, and Chinese) from Haak et al’s dataset

Trying to offer a single, coherent description of the physical appearances of such a diverse range of peoples is nearly impossible. They range in skin tone from almost white to as black as most of Africa; in stature from slight, Pygmy-like Negritos to the formidable Comanches (who in the 1800s were among the world’s tallest measured people;) and in average reported IQs from >105 to >65. (Okay, IQ isn’t appearance.)

We will be able to speak much more meaningfully about appearances when we address each of the sub-races.

Here are the relevant portions from Haak et al’s lovely dataset:

nativeamerican eskimoonge eastasian

On the left, we have the Native American DNA, from the depths of the Amazonian rainforest to the tribes of upstate New York. The olive green section are the Inuit/Eskimo and related Russian groups. The Inuit (who appear to have wiped out the earlier Dorset people,) share a great deal of DNA with other Siberians, eg the Yakuts (a Turkic people) and the Nganasan, (who speak a highly divergent language of the Samoyedic branch of the Uralic family, which also includes the Finnish, Hungarian, and Sami languages–language is a very bad guide to genetics.)

The pale peach are the Onge, who live in India’s Andaman Islands; purple the people of Papua New Guinea and Australia.

The very yellow part is all of the groups normally thought of as “East Asian,” like Japanese, Chinese, and Thai. Yellow is most dominant in the aboriginal people of Taiwan (who were there before the Chinese started migrating there in the past few hundred years,) and are the ancestors of the (not pictured) Polynesian peoples of Hawaii, Easter Island, and New Zealand. (I think they picked up some Melanesian DNA on the way.)

And on the right we have the various peoples of Siberia and central Asia.

I think it an open question whether the Melanesians and Aborigines ought to be properly classed with the other Asians, or awarded their own clade.

I totally stole this from Razib Khan, didn't I?
I stole this from Razib Khan, didn’t I?

According to Masatoshi Nei, a biology professor at Pennsylvania State University,[131]  the ancestors of today’s Asians and Caucasians split into two separate groups around 41,000 years ago, (give or take 15,000 years,) and their ancestors split from the ancestors of modern Africans–the “Out of Africa Event”–around 114,000 years ago, (give or take 34,000 years.)


The Daily Mail reports:

BERLIN (AP) — The human populations now predominant in Eurasia and East Asia probably split between 36,200 and 45,000 years ago, according to a study released Thursday.

Researchers used new techniques to analyze genetic samples from the shin bone of a young man who died at least 36,200 years ago near Kostenki-Borshchevo in what is now western Russia. The study, published in the journal Science, concludes that Kostenki man shared genetic sequences with contemporary Europeans, but not East Asians.

A separate study published last month in the journal Nature determined that a 45,000-year old sample found in Siberia contained sequences ancestral to both modern East Asians and Europeans.


In a genetic study in 2011, researchers found evidence, in DNA samples taken from strands of Aboriginal people’s hair, that the ancestors of the Aboriginal population split off from the ancestors of the European and Asian populations between 65,000 and 75,000 years ago—roughly 24,000 years before the European and Asian populations split off from each other. These Aboriginal ancestors migrated into South Asia and then into Australia…

A different study found:

The first complete sequences of the Y chromosomes of Aboriginal Australian men have revealed a deep indigenous genetic history tracing all the way back to the initial settlement of the continent 50 thousand years ago, according to a study published in the journal Current Biology today.

The Native Americans much more conveniently split off around 25,000 years ago.

Or in other words:

Also credit Robert Lindsay
Also credit Robert Lindsay

So on the one hand, race is biological and real, and on the other, it’s a social construct. Australian Aborigines are more closely related to other Asians than to, say, Europeans or Africans, but the Chinese are more closely related to Europeans than to Aborigines.

nature-siberian-neanderthals-17.02.16-v2One reason why Australians and other Melanesians appear so divergent from other Asian populations maybe their Denisovan (or other human) DNA. Most (if not all) human groups appear to have picked up DNA from some other, non-Homo Sapiens source. Europeans, East Asians, and Native Americans all have a small percent of Neanderthal DNA. Africans, IIRC, have a small % of some local African homin. And Melanesians/Australians have a small % of Denisovan DNA (Denisovans were a less-well-known cousin of the Neanderthals.)

YES Two Out of Africa Events! (Also, Aborigines)

I’ve long suspected (given the archaeological evidence, like 80,000 year old human remains in China,) that there were two Out of Africa (OOA) events–an early one that headed east, toward Australia, and a later one that headed everywhere (including Australia)–and now it looks like this has been genetically confirmed:

Graphic created by the Estonian genetics team cited in the NY Times article. Their full article: Genomic analyses inform on migration events during the peopling of Eurasia
Graphic created by the Estonian genetics team cited in the NY Times article. Their full article: Genomic analyses inform on migration events during the peopling of Eurasia

Isn’t this a great graphic? My hat’s off to the Estonians. Beautiful work.

Graphic created by the Estonian genetics team cited in the NY Times article. Their full article: Genomic analyses inform on migration events during the peopling of Eurasia

Here’s another one they made (sadly small) with less color and more detail on the Eurasian lines. (IIRC, Chinese have more Neanderthal ancestry than Europeans, so technically the schematic ought to be a wee bit more complicated than this, but it’s already complicated enough and this is a solid general overview.)

It might just be the sleep dep + lots of coffee talking, but I am so excited about this.

Some quotes from the NY Times article:

In Israel, for example, researchers found a few distinctively modern human skeletons that are between 120,000 and 90,000 years old. In Saudi Arabia and India, sophisticated tools date back as far as 100,000 years.

Last October, Chinese scientists reported finding teeth belonging to Homo sapiens that are at least 80,000 years old and perhaps as old as 120,000 years. …

Examining their data separately, all three groups came to the same conclusion: People everywhere descend from a single migration of early humans from Africa. The estimates from the studies point to an exodus somewhere between 80,000 and 50,000 years. …

n Papua New Guinea, Dr. Metspalu and his colleagues found, 98 percent of each person’s DNA can be traced to that single migration from Africa. But the other 2 percent seemed to be much older.

Dr. Metspalu concluded that all people in Papua New Guinea carry a trace of DNA from an earlier wave of Africans who left the continent as long as 140,000 years ago, and then vanished.

Obviously, in science, replication and caution are key. Don’t get too excited. These results might turn out to be wrong–sometimes samples get contaminated or data coded incorrectly and we get results that turn out to be completely wrong. And, okay, this isn’t really “huge” in the grand scheme of things–we’re only talking about 2% of Papuans’ ancestors, not, like, 40% of them. But it does explain all of those anomalously old findings.

Now someone needs to explain the Red Deer Cave People:

The Red Deer Cave People were the most recently known prehistoric Hominin population that did not look like modern humans. Fossils dated to between 14,500 and 11,500 years old were found in Red Deer Cave and Longlin Cave in China. Having a mix of archaic and modern features, they are (tentatively) thought to be a separate species of humans that persisted until recent times and became extinct without contributing to the gene pool of modern humans.[1]

On a related note, we have some awesome news about Aborigine DNA/language trees: A genomic history of Australia and Why Australia is home to one of the Largest Language Families in the World. (Well duh it’s because Aborigines spent thousands of years as tiny bands of hunter gatherers, in which each isolated band started developing its own language.) These articles have an oddly inverted structure, (burying the lead, I guess,) so let’s rearrange the abstract for coherency:

We estimate that Aboriginal Australians and Papuans diverged from Eurasians 51–72 kya, following a single out-of-Africa dispersal, and subsequently admixed with archaic populations. … Papuan and Aboriginal Australian ancestors diversified 25–40 thousand years ago (kya), suggesting pre-Holocene population structure in the ancient continent of Sahul (Australia, New Guinea and Tasmania). However, all of the studied Aboriginal Australians descend from a single founding population that differentiated ~10–32 kya. We infer a population expansion in northeast Australia during the Holocene epoch (past 10,000 years) associated with limited gene flow from this region to the rest of Australia, consistent with the spread of the Pama–Nyungan languages.

(kya = thousand years ago). So about 10-32 thousand years ago, one group of Australians conquered all of the other groups of Australians.

The science article notes:

To the researchers’ amazement, the genetic pattern mirrored the linguistic one. “It’s incredible that those two trees match. None of us expected that,” says paleoanthropologist Michael Westaway of Griffith University, Nathan, in Australia, a co-author on the Willerslev paper. “But it’s confusing: The [genetic splits] date to 30,000 years ago or more but the linguistic divisions are only maybe 6000 years old.”

Willerslev says he first thought the languages must be much older than thought. “But the linguists told me, ‘no way.'”

Both types of data also show that the population expanded from the northeast to the southwest. This migration occurred within the last 10,000 years and likely came in successive waves, Bowern says, in which existing languages were overlaid by new ones. This expansion also seems to correspond with a stone tool innovation called a backed edge blade. But the accompanying gene flow was just a trickle, suggesting that only a few people had an outsize cultural impact, Willerslev says. “It’s like you had two men entering a village, convincing everyone to speak a new language and adopt new tools, having a little sexual interaction, then disappearing,” he says. Then the new languages continued to develop, following the older patterns of population separation. “It’s really strange but it’s the best way we can interpret the data at this stage.”

Three things going on here. 1. The group from the north conquered the group from the south, raped their women, and imposed their language. They were able to do this because they had better weapons (“backed edge blades.”) But the group from the north was not very big, and so did not leave a very big genetic signature.

2. They conquered an existing population structure, at which point their language got absorbed into that structure, probably picking up some linguistic substrate from the groups’ previous languages along the way. Since most people learn language from their parents, it’s not too surprising to find cases where language and genetics line up. (Note that people do not always learn languages from their parents.)

3. Intellectuals are kind of naive.

The other really interesting thing here is that the linguistics team came to their conclusions by feeding a big database of Aboriginal words into a computer and having it run similar algorithms to the ones geneticists use for examining human ancestry (see the lovely graphics above.) I’ve been wondering for a long time why they don’t just do this, and am excited that they finally are.

Now please someone put all of the languages + reconstructed proto-langauges into the computer and find the most likely trees.

(Sorry, Nick. The regularly scheduled Anthropology Friday is going to have to wait a week. There just aren’t enough days.)

Updated Tentative map of Neanderthal DNA

Picture 1

Based on my previous tentative map of archaic DNA, plus recent findings, eg Cousins of Neanderthals left DNA in Africa, Scientists Report. As usual, let me emphasize that this is VERY TENTATIVE.

Basically: Everyone outside of Africa has some Neanderthal DNA. It looks like the ancestors of the Melanesians interbred once with Neanderthals; the ancestors of Europeans interbred twice; the ancestors of Asians interbred three times.

Small amounts of Neanderthal DNA also show up in Africa, probably due to back-migration of people from Eurasia.

Denisovan DNA shows up mainly in Melanesians, but I think there is also a very small amount that shows up in south east Asia, some (or something similar) in Tibetans, and possibly a small amount in the Brazilian rainforest.

Now some kind of other archaic DNA has been detected in the Hazda, Sandawe, and Pygmies of Africa.

Happy 330 Posts (Open Thread)

Partying Mario Style
Partying Mario Style

I completely forgot to mark the 200th and 300th posts, but I just finished post #330, so let’s celebrate!

This is an Open Thread, so please say hello. Feel free to chat, ask questions, or let me know any topics you’d be interested in for future posts.

Alternatively, tell us your favorite book(s).

I don’t normally do links lists, but since this is a special occasion, I’m going to recommend some articles:

The Extinction of the Australian Pygmies, by Keith Windschuttle and Tim Gillin. Fascinating.

On a probably not-related but convergently-evolved note, we have Whole-genome sequence analyses of Western Central African Pygmy hunter-gatherers reveal a complex demographic history and identify candidate genes under positive natural selection, or you can read the always interesting commentary by West Hunter. And if that’s not enough Pygmies for you, there’s always Model-based analyses of whole-genome data reveal a complex evolutionary history involving archaic introgression in Central African Pygmies.



In the beautiful things file, we have A New Thermodynamics Theory of the Origin of Life. If you read the comments, you’ll see that it’s not really “new” and that other people have been working on it for a while, but the article is still a nice explanation of the concept.

Some interesting food for thought from Dienekes: Are living Africans nested within Eurasian genetic variation (?) and a response by Razib Khan, Why I still Lean Toward a Sub-Saharan Origin for Modern Humanity.


51TxcmouEEL._SX350_BO1,204,203,200_ETA: And finally, I just discovered Still a Pygmy, by Isaac Bacirongo and Michael Nest. From the blurb:

How did a Pygmy from Congo end up living in Sydney, Australia? Growing up as a hunter-gatherer in the forests of Congo, where Pygmies were considered inferior to all other Africans and fit only for slave labor and witchcraft rituals*, Isaac Bacirongo never dreamed he would end up living in Australia. He also never imagined that he would get a high school education, fall in love with a “town girl,” start a prosperous business, and even own his own car—unheard of for a Pygmy. … When the tensions of Rwanda’s civil war spilled over into Congo, Isaac’s family fled the invading army, but a brutal occupation force eventually took control of the east and threw Isaac into prison for his human rights activism. After bribing his way out of jail, Isaac escaped Congo to reunite with his wife and 10 children in Kenya. He got work as an interpreter on an investigation into corruption in the UN, only to be threatened again by his involvement in the case and by spies working for Congolese rebel forces. With no future in Kenya and unable to return home, Isaac applied for and eventually received a humanitarian visa to Australia. … This is the inspiring and true story of one man’s transformation from hunter-gatherer to prosperous businessman to Australian resident, and advocate for the rights of his people’s identity. It is the first memoir by a Pygmy author ever published.

*Note: “witchcraft rituals” means “human sacrifice.” Also, cannibalism.

Anyone read it? I’m going to see if the library has it.


Anyway, thanks for reading, everyone. Here’s to the next 330 posts!

Mitochondrial Memes (Part 2: Aliens Within)

Part 1: Logos

150px-Biological_classification_L_Pengo_vflip.svgBiologically speaking, you are a member of the species Homo sapiens, (subspecies Homo sapiens sapiens.) Your genus is Homo–this includes all of our near cousins, like Homo neanderthalensis (with whom H. sapiens interbred,) Homo erectus, and the 2+million year old Homo habilis. Your family is hominidae, aka the great apes–chimps, gibbons, orangutans, gorillas, and us. We cannot interbreed with these groups. Your order is primates. The first primates probably evolved 65 million years (or more) ago; their modern members include apes, monkeys, lemurs, and lemur-like creatures like bushbabies.

Your class is mammalia–all animals with hair,[a] three middle ear bones, mammary glands, and a neocortex, at least according to Wikipedia. Most mammals have placentas and don’t lay eggs, but platypuses and echidnas have to be different. The first mammals appeared 225 million years ago.

From there, we head up to the sub-phylum Vertebrata, or all animals with backbones, then to the phylum Chordates, all animals with a nerve cord running down their back (but not necessarily any bones.) Chordates includes all birds, amphibians, reptiles, fish, and obscure creatures like salps, squishy, tubular creatures that look like jelly fish, and sea squirts, basically brainless tubes. Chordates appear to be over 500 million years old.

Next we have the kingdom Animalia, which includes all of the squishy things like sponges, jellyfish, octopuses, earthworms, and starfish, and crunchy things like insects, crabs, and spiders, in addition to us. The first fossil animals are 665 million years old, though older animals may simply not have been fossilized, due to being too soft. All animals are multi-cellular.

Above that, we have the domain Eukaryotes. All Eukaryotes have a nucleus and other organelles enclosed within membranes. Eukaryotes are divided into plants, animals, fungi, and protists, which are generally single-cells and include algae and the malaria parasite.

This is an animal cell, but all Eukaryotes are similar
This is an animal cell, but all Eukaryotes are similar, due to their nucleus (1) enclosed within a membrane (2) and other organelles.

There are two other major domains of life, bacteria and archaea, collectively known as prokaryotes. They have neither nuclei nor any other membrane-bound organelles. As distant cousins go, these guys are pretty distant–the common ancestors of eukaryotes, bacteria, and archaea lived over 1.6 billion years ago, possibly over 2.7 billion years ago (it’s really hard to find fossilized algae and bacteria.)


Humming away inside your H. sapiens cells, making energy for you, are mitochondria. You might have heard that your mitochondria can be used to trace your maternal family line, because they 1. Are only passed down from mother to child (eggs have mitochondria but sperm don’t;) 2. Possess their own DNA, referred to as mtDNA or mDNA.

Why do mitochondria have their own DNA?

Because they aren’t human. They aren’t animals; they aren’t even eukaryotes. They’re prokaryotes, like bacteria.

Approximately one or two billion years ago, our ancestor–probably a primitive eukaryote cell–ate a prokaryote. But this prokaryote, by a great stroke of luck, didn’t get digested. Instead it got comfy, settled in, and stuck around. Here’s a helpful graphic to explain the process in more detail:


Yes, chloroplasts are prokaryotic invaders, too.

Mitochondias’ closest living relatives are the other Rickettsiales, an order of proteobacteria, which cause a variety of diseases including Typhus and Q fever. Luckily for us, our mitochondria help keep us alive, rather than kill us.

Part 3: to be named