Mathilda’s Anthropology Blog.

Entries from June 2008

Brief Communication: mtDNA Variation in North Cameroon

June 30, 2008 · 2 Comments

Brief Communication: mtDNA Variation in North Cameroon: Lack of Asian Lineages and Implications for Back Migration From Asia to Sub-Saharan Africa
2005

(Fulbe = Fulani)- a link to a page about them.

 The hypervariable region-1 and four nucleotide positions (10400, 10873, 12308, and 12705) of the coding region of mitochondrial DNA (mtDNA) were analyzed in 441 individuals belonging to eight populations (Daba, Fali, Fulbe, Mandara, Uldeme, Podokwo, Tali, and Tupuri) from North Cameroon and four populations (Bakaka, Bassa, Bamileke, and Ewondo) from South Cameroon. All mtDNAs were assigned to five haplogroups: three sub-Saharan (L1, L2, and L3), one northern African (U6), and one European (U5). Our results contrast with the observed high frequencies of a Y-chromosome haplogroup of probable Asian origin (R1*-M173) in North Cameroon.

As a first step toward a better understanding of the evident discrepancy between mtDNA and  Y-chromosome data, we propose two contrasting scenarios. The first one, here termed “migration and asymmetric admixture,” implies a back migration from Asia to North Cameroon of a population group carrying the haplotype R1*-M173 at high frequency, and an admixture process restricted to migrant males. The second scenario, on the other hand, temed “divergent drift,” implies that modern populations of North Cameroon originated from a small population group which migrated from Asia to Africa and in which, through genetic drift, Y-chromosome haplotype R1*-M173 became predominant, whereas the Asian mtDNA haplogroups were lost. .

In a recent study of 77 biallelic polymorphisms located in the nonrecombining portion of the Y-chromosome, Cruciani et al. (2002) detected the haplotype R1*-M173 (YChromosome Consortium, 2002; Jobling and Tyler-Smith, 2003). It was found among six well-defined populations from Cameroon (Fali, Tali, Uldeme, Fulbe, Daba, and Ewondo), with the highest frequency in North Cameroon (from 6.7% among the Tali to 95.2% among the Uldeme). This finding has important implications for the peopling of Africa, since it could signal an ancient back migration from Asia (Cruciani et al., 2002). In fact, the haplotype R1*-M173 harbors the derived allele at the M9 site, which characterizes haplogroups K to R (Y-Chromosome Consortium, 2002; Jobling and Tyler-Smith, 2003) , all of non- African origin (Underhill et al., 2001; Semino et al., 2000; Wells et al., 2001; Cinnioglu et al., 2004; Luis et al., 2004).

Other lineages derived from the M9 superclade have not been detected in sub-Saharan Africa, the only exception being the haplotype K2 found among some sub-Saharan populations (Cruciani et al., 2002; Luis et al., 2004). These findings are difficult to reconcile with an African origin of the R1*-M173 subclade, unless a considerable extinction of lineages is assumed (Cruciani et al., 2002). Furthermore, according to present studies, the frequency of haplogroup R1*-M173 in Europe, the Middle East, and North Africa seems to be substantially lower than in North Cameroon (North Africa) (Bosch et al., 2001; Cruciani et al., 2002; Cinnioglu et al., 2004; Luis et al., 2004; Arredi et al., 2004). This makes it unlikely that the presence of R1*- M173 in North Cameroon is due to recent gene flow from neighboring regions.

Salas et al. (2002) suggested that the presence of the haplotype R1*-M173 in northern Cameroon populations could be due to recent gene flow from North Africa. These authors maintained that the processes leading to the present-day distribution of haplogroup R1*-M173 could have followed the same route of the mtDNA haplogroup U6, widespread among Berbers (Rando et al., 1998; Macaulay et al., 1999), which is thought to have arrived in North Africa from the Near East between 20,000–50,000 years ago. According to Salas et al. (2002), the Fulbe or other pastoralists might have conveyed both mtDNA sequences belonging to the U6 and H haplogroups and the haplotype R1*-M173 from Berbers to North Cameroon populations. This hypothesis is based on the presence of the Fulbe in North Cameroon and on the evidence that the Fulbe who settled in Nigeria show signs of gene flow of maternally transmitted characters from Berbers, namely sequences belonging to the haplogroups U6 and H (Watson et al., 1997).

As a logical development of the study by Cruciani et al. (2002), we analyzed mtDNA variation in North Cameroon. The present work is aimed at understanding whether the presence of Y-chromosome haplotypes of Asian origin has a counterpart in terms of maternally transmitted characters. It is also useful to test the role of the Fulbe from Cameroon as possible carriers of maternal lineages from Berbers to North Cameroon, since mtDNA data from this area were not available to Salas et al. (2002).

MATERIALS AND METHODS
We analyzed mitochondrial variation in a total of 12 populations and 441 individuals from Cameroon. Informed consent was obtained from all donors. The sampling covers the eight populations from Cameroon studied by Cruciani et al. (2002). In addition, we examined four other populations: Mandara, Tupuri, and Podokwo from North Cameroon, and Bassa from South Cameroon. For information about the populations studied, readers are referred to Table 2 and Figure 1 in Spedini et al. (1999). Specimens collected in K3EDTA were maintained at 4°C (for 7 days) until their arrival at the Laboratory of Anthropology of the University of Rome “La Sapienza.” Genomic DNA was extracted from blood by a standard
phenol-chloroform protocol (Gill et al., 1985). It was then quantitated by direct comparison in agarose minigels. We sequenced the hypervariable region-1 (HVR-1) from np 16024–16390 according to Vigilant et al. (1989), with minor modifications. Each sequence was assigned to a haplogroup according to the networks published by Salas et al. (2002). A total of 102 haplotypes which could not be unambiguously classified into L1, L2, or L3 haplogroups on the basis of their HVR-1 sequence alone was further analyzed for their variation at nucleotide positions 10400, 10873, 12308, and 12705 of the mtDNA coding region which defines the almost exclusively non-African haplogroups M, N, R, and U. The SnapShot method (SNaPshot ™ ddNTP Primer Extension Kit, Applied Biosystems) was used to type those sites (Comas et al., 2004). The samples assigned to haplogroup U6 were further investigated by a survey of the MnlI restriction site at np 11203, whose presence is typical of the Ethiopian U6 mtDNAs, and which distinguishes them from those of North Africa (A. Torroni, unpublished data).

RESULTS AND DISCUSSION

Five different haplogroups were found (Table 1): three of sub-Saharan origin (L1, L2, and L3), one of European origin (U5) (Richards et al., 2000), and one of North African origin (U6) (Rando et al., 1998; Macaulay et al., 1999). Considering the overall sampling, the most frequent haplogroups were L3 (46.7%), L2 (26.5%), and L1 (25.2%), which were observed in all 12 populations examined. All sequences observed in South Cameroon belong to macrohaplogroup L. The non-African haplogroups U5 (0.9%) and U6 (0.7%) were confined to North Cameroon, occurring among the Fulbe and among the Podokwo and Uldeme, respectively. All of the U6 mtDNAs lacked the MnlI site at site 11203, which indicates that they do not belong to the Ethiopian subclade of this haplogroup (A. Torroni, unpublished data).

We did not detect sequences belonging to haplogroups currently found in Central and East Asia  (superhaplogroups M (haplogroups M7–M10, C, D, E, and G), N (A, N9, and Y), and R (R9, B, and F); Kivisild et al., 2002). Therefore, according to our data, the processes leading to the spread of Y chromosomes of Asian origin in North Cameroon did not leave any detectable sign in terms of maternally transmitted characters, at least if one considers the current mtDNA phylogeography of Asian populations.

Certainly the lack of Asian sequences in our samples does not necessarily mean that such sequences are
absent from the populations. The probability of not finding by chance a particular sequence that is present in a population at a frequency f in a sample of size N is given by    (1  f)N. Then for  0.05 and an overall sample size of 441 chromosomes, we obtain a frequency value of 0.7%. Considering only populations from North Cameroon, where haplotype R1*-M173 is most frequent, the sample size is 244 chromosomes, which leads to a maximum nondetectable frequency of 1.22%. Thus, with a 95% probability, it can be ruled out that Asian mtDNA lineages are present in North Cameroon at frequencies over 1.22%, whereas the Y-chromosome haplotype R1*-M173 is found at frequencies of 7–95%, with an average of 39.5%.

Our study also points toward the existence of gene flow from North Africa to North Cameroon. In fact, one of the two U6 sequences found in northern Cameroon (in one Podokwo and one Uldeme individual; HVR-1 transitions at nucleotide positions 16172, 16219, and 16278 relative to the Cambridge reference sequence; Anderson et al., 1991) matches with sequences found among Berbers from Morocco, Mauritanians, West Saharans, and Canarians (Rando et al., 1998, 1999; Brakez et al., 2001). The remaining U6 sequence (HVR-1 transitions at np 16172, 16219, and 16311), found in one Uldeme individual, is a one-step neighbor of sequences found among Mauritanians, non-Berber Moroccans, and Wolof from Senegal (Rando et al., 1998, 1999). These results suggest that the U6 sequences found in the Podokwo and Uldeme could be a signature of gene flow from North Africa. At the same time, the presence of this mitochondrial haplogroup among the population where R1*-M173 reaches its highest frequency (Uldeme) makes it worth testing the hypothesis that the Y-chromosomal haplogroup mentioned above could have reached northern Cameroon starting from the Near East, as suggested for U6 (Salas et al., 2002; Rando et al., 1998; Macaulay et al., 1999). Even taking the abovementioned hypothesis for granted, a statistically significant difference between the frequency of R1*-M173 and U6 in North Cameroon persists. In fact, U6 ranges from 0–7% in North Cameroon, with an average frequency of 1.23%. These figures are much lower than those obtained for the R1*-M173 in the same dataset (see above). Furthermore, the 95% confidence interval range of U6 for North Cameroon is of 0–2.6%, compared to 27.8–52.4% for R1*-M173 (recalculated from Cruciani et al., 2002).

mtDNA VARIATION IN NORTH CAMEROON 

Finally, it is important to note that the high frequency of R1*-M173 and the low frequency of U6 found in North Cameroon contrast sharply with the low frequency of R1*- M173 and the high frequency of U6 in North Africa (Bosch et al., 2001; Cruciani et al., 2002; Cinnioglu et al., 2004; Luis et al., 2004; Arredi et al., 2004; Salas et al., 2002). Therefore, our study indicates a discrepancy between Y-chromosomal and mitochondrial variation in North Cameroon populations, either considering the current phylogeography in Asia or assuming U6 to be the maternal counterpart of R1*-M173. This is not unexpected, since the two genetic systems are transmitted independently. Previous studies showed that the phylogeography
of mtDNA and the Y chromosome may differ substantially even in the same population. For instance, North Africans and Near Eastern Arabs show a much larger maternal than paternal sub-Saharan contribution (Plaza et al., 2003; Richards et al., 2003).

We can imagine two extreme scenarios which could explain difference which we have in the frequency of
“Asian” Y-chromosome and mtDNA lineages in North Cameroon. In the first one, called “migration and asymmetric admixture,” a back migration from Asia to Africa was conducted by groups carrying the Y-chromosome haplotype R1* -M173 at a high frequency. Such groups admixed with resident populations, but the admixture process involved only males of the migrant population. In the second one, namely “divergent drift,” the present-day North Cameroon populations originated from a small group that migrated from Asia to Africa in which, through genetic drift, Y-chromosome haplotype R1*-M173 became the predominant Y-chromosome haplotype, whereas most, if not all, Asian mtDNA lineages were lost. The lack of robust information on movements of prehistoric populations to North Cameroon means that these scenarios must be considered initial working hypotheses which need to be supported by further data on Y-chromosomal and mitochondrial variation in Africa and Asia.

Finally, our results fail to support the hypothesis that the Fulbe carried the U6 haplogroup into North Cameroon. In fact, the non-L sequences found in the Fulbe from Cameroon differ substantially from those found among the Berbers, since they belong to the U5 haplogroup (which has a very broad distribution in Eurasia). The fact that the U5 Fulbe sequence (transitions at np 16189, 16192, 16270, and 16320) is a one-step derivative of mtDNA types found in Moroccans (Brakez et al., 2001), Saharawi, and Tunisians (Plaza et al., 2003) suggests that this population had some genetic contact with North African populations. However, lacking a highly diagnostic haplogroup such as U6, thought to be a Northwestern African marker (Rando et al., 1998), our results do not provide support to the role of the Fulbe from Cameroon as U6 carriers to North Cameroon. Finally, the lack of the two mtDNA haplogroups U6 and H in the Fulbe from Cameroon already detected among the Fulbe from Nigeria (Watson et al., 1997) provides evidence of a substantial genetic heterogeneity among Fulbe populations from different areas. This feature is already noticeable in Y-chromosomal data (see Table 2 in Cruciani et al., 2002), where the Fulbe from Burkina Faso lack completely haplogroup R1*-M173. Such heterogeneity makes it difficult to apply the results obtained for a Fulbe population of a certain area to those settled in other areas.

Categories: Anthropology · DNA studies · pre-history · race
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The Himba people of Namibia.

June 29, 2008 · 8 Comments

Another Frankenblog entry for my scrapbook.

The Himba adult women colour their skin twice a day with a mixture of ground red ochre, sap and butter, and rub this all over their skin and hair. This is called ‘otjize’. They also grind up herbs and use them as perfume. If you do an internet search you will find a hundred good images of Himba women, but only a couple of the men. This is probably because the HImba women are so stunning to look at no photographer is going to waste film on the men.

They wear a lot of leather jewellery, and very often you’ll see a large conch shell as a pendant between their breasts

 

As you can see, the women do really stand out in a crowd. Two thick braids are worn in front of the face up to puberty. These braids are replaced by a multitude of thinner braids hanging in all directions from the head after puberty. Moving into adolescence these braids are lengthened and tied back away from her face, signalling her readiness to marry. When they get married, the women start wearing goat leather headdresses, called ‘erembe ‘. Marriage is pre-arranged by the girl’s parents at the time of her birth. After her puberty celebration she is given to her husband-to-be who has to pay her parents about twenty cows. Girls usually marry between ages 15 and 17.

A young Himba girl wearing the pre-puberty hair style of two braids in front of the face. Also, a good look at one of the pendants. The jewellery is usually made of iron or shell, strung on leather.

The man make the women thick anklets to wear, the theory is that they protect the ankles from snake bites. The women also practise intensive breastfeeding with older babies and toddlers, presumably as a form of contraception, as well as a safe way of giving their child fluids.

Both Himba boys and girls are circumcised. During the circumcision, the boys are expected to be silent, whereas the girls are encouraged to scream. It’s reported that the female circumcision in the Himba is actually female genital mutilation, hacking out the clitoris to ensure chastity. I’m not sure if this works , as Red Cross workers report that Himba wives often have a couple of lovers as well as a husband.

The Himba are a cattle based pastoralist culture, although they also have sheep and goats, measuring wealth in cattle, and paying for their wives with them. In the past half a century they’ve suffered pretty seriously from wars and droughts, and were nearly flooded out when a dam was proposed that would have flooded their territory. However, the construction of the dam was fortunately blocked. Their existence is now threatened by HIV, like so many people in Africa. 

The standard Himba home. The open hut constructed behind it is a kitchen, with food and utensils hung away from insects and rodents.

HImba man and boy. Single men wear their hair in one single braid sweeping backwards from the crown of the head while married men tie their hair in a turban-like fashion with wood shavings mixed into it.

As yet I’ve been unable to find any DNA studies on them.

Categories: Anthropology
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Neolithic cheese making in Europe.

June 27, 2008 · Leave a Comment

Neolithic Europeans Made Cheese and Yoghurt
By Jennifer Viegas, Discovery News Jan. 24, 2006.

Dirty cooking pots dating to nearly 8,000 years ago reveal that some of Europe’s earliest farming communities produced dairy products, such as cheese and yogurt.

Two separate studies indicate that Neolithic dairying took place in what are now Romania, Hungary and Switzerland.  The discoveries suggest people in these regions might have originally learned how to process milk-based foods from Asian farmers.

“From a diffusionist perspective, these findings lend support to the idea that the antiquity of dairying lies with the origins of animal domestication in southwest Asia some two millennia earlier, prior to its transmission to Europe in the seventh millennia B.C., rather than it being a later and entirely European innovation,” wrote Oliver Craig, a scientist at Tor Vergata University in Rome, and colleagues in the first study published in the journal Antiquity.

Craig and his team studied fatty residues stuck on ceramic cooking vessels found at the left bank of the Danube near Romania and at the Great Hungarian Plain. The dirty pots date from 5,950-5500 B.C. Analysis of the fats suggests they belonged to goat or sheep milk.

Jorge Spangenberg, a geochemist at the University of Lausanne in Switzerland, indicated to Discovery News that he agreed early dairying took place.

In another paper published in the current Journal of Archaeological Science, Spangenberg and his team conducted a similar study on dirty cooking pot shards found at a site called Arbon Bleiche 3 on the southwestern shore of Lake Constance in Switzerland. The shards date to 3384-3370 B.C.

The Swiss scientists compared the carbon and nitrogen isotope signatures of the residues with those of fats found in today’s organic milks and cheeses. The residue signatures closely matched those for cow, goat and sheep milk.  Since the pots have darkened, sooty undersides from apparent placement over
fires, the researchers believe the milk was cooked and otherwise processed to keep it fresh and consumable.

“Freshly milked milk has a short life,” Spangenberg explained. “After leaving the ruminant (grazing animal) udder, milk quickly becomes colonized with bacteria, mainly lactobacilli. We therefore speculate that the
Neolithic settlers at Arbon were consuming fermented milks and making relatively long-life milk products from fermented milks, such as today’s buttermilk, yogurt, butter and cheese, which could be stored and consumed at much later dates.”

The researchers theorized that the cheese would have been similar to modern fresh goat cheese and farmer’s cheese. Sour cream also likely was produced.

Bones that belonged to domestic cows, pigs, goats, sheep and dogs also were found at the Swiss site where numerous individual family farms appear to have been located around 6,000 years ago.

Stefanie Jacomet, a professor in the Institute for Prehistory and Archaeological Science at Basel University in Switzerland, worked with Spangenberg and Jörge Schibler on the study.

She told Discovery News that the early Europeans likely did not sell or trade their dairy products with outside groups, but instead made them for their own families and communities.

“Based on the herd size, we suggest that this was a subsistence economy, and that the village was not able to produce surplus,” she said.

The villagers seemed to have eaten well, however. In addition to the animal bones, several fish bones also were excavated at the site, along with evidence for hazelnuts, strawberries, blackberries, raspberries, crab apples and sloe plums.

In terms of dairying, little seems to have changed.

Spangenberg said, “Currently there are still approximately 24,000 farms in the Lake Constance region, most of them with dairy cows.”

Along with the study the news item mentions..

Chemical analyses of organic residues in archaeological pottery from Arbon Bleiche 3, Switzerland : evidence for dairying in the late Neolithic

Fatty acids distribution and stable isotope ratios (bulk δ13C, δ15N and δ13C of individual fatty acids) of organic residues from 30 potsherds have been used to get further insights into the diet at the Late Neolithic (3384-3370 BC) site of Arbon Bleiche 3, Switzerland. The results are compared with modern equivalents of animal and vegetable fats, which may have been consumed in a mixed ecology community having agrarian, breeding, shepherd, gathering, hunting, and fishing activities. The used combined chemical and isotopic approach provides valuable information to complement archaeological indirect evidence about the dietary trends obtained from the analysis of faunal and plant remains. The small variations of the δ13C and δ15N values within the range expected for degraded animal and plant tissues, is consistent with the archaeological evidence of animals, whose subsistence was mainly based on C3 plants. The overall fatty acid composition and the stable carbon isotopic compositions of palmitic, stearic and oleic acids of the organic residues indicate that the studied Arbon Bleiche 3 sherds contain fat residues of plant and animal origin, most likely ruminant (bovine and ovine). In several vessels the presence of milk residues provides direct evidence for dairying during the late Neolithic in central Europe.

Categories: Anthropology · Archaeology · diet · pre-history
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Cattle dairying at least 6,000 years old in Europe.

June 27, 2008 · Leave a Comment

Direct evidence for the existence of dairying farms in prehistoric Central Europe (4th millennium BC).

Spangenberg JE, Matuschik I, Jacomet S, Schibler J.

Institute of Mineralogy and Geochemistry, University of Lausanne, Lausanne, Switzerland.

The molecular and isotopic chemistry of organic residues from archaeological potsherds was used to obtain further insight into the dietary trends and economies at the Constance lake-shore Neolithic settlements. The archaeological organic residues from the Early Late Neolithic (3922-3902 BC) site Hornstaad-Hornle IA/Germany are, at present, the oldest archaeological samples analysed at the Institute of Mineralogy and Geochemistry of the University of Lausanne. The approach includes (13)C/(12)C and (15)N/(14)N ratios of the bulk organic residues, fatty acids distribution and (13)C/(12)C ratios of individual fatty acids. The results are compared with those obtained from the over 500 years younger Neolithic (3384-3370 BC) settlement of Arbon Bleiche 3/Switzerland and with samples of modern vegetable oils and fat of animals that have been fed exclusively on C(3) forage grasses. The overall fatty acid composition (C(9) to C(24) range, maximizing at C(14) and C(16)), the bulk (13)C/(12)C and (15)N/(14)N ratios (delta(13)C, delta(15)N) and the (13)C/(12)C ratios of palmitic (C(16:0)), stearic (C(18:0)) and oleic acids (C(18:1)) of the organic residues indicate that most of the studied samples (25 from 47 samples and 5 from 41 in the delta(13)C(18:0) vs. delta(13)C(16:0) and delta(13)C(18:0) vs. delta(13)C(18:1) diagrams, respectively) from Hornstaad-Hornle IA and Arbon Bleiche 3 sherds contain fat residues of pre-industrial ruminant milk, and young suckling calf/lamb adipose. These data provide direct proof of milk and meat (mainly from young suckling calves) consumption and farming practices for a sustainable dairying in Neolithic villages in central Europe around 4000 BC.dagger.

However, it seems that sheep and goat dairying practises predate this. I was wondering how the gene for lactase persistence could have spread without a milk drinking culture, then the light finally dawned and I realised that goats made it into Northern Europe a lot earlier!

Categories: Anthropology · diet · pre-history
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Y chromosome study from Guinea-Bissau.

June 26, 2008 · Leave a Comment

This study attributes the Y chromosome R1b to slave traders, but this is unlikely, as one inland African tribe the Ouldeme is almost totally R1b. You see this haplotype in Berbers, so it’s probably from them, before the Neolithic revolution swamped them with E3b1b. this would make it another marker of the Eurasian back migration into Africa. As this study says.

Some English family called Revis shows up positive for one of the world rarest Y chromosome clades from Guinea Bissau (A1). They are thought be be the descendants of an African slave, some time in the Georgian era. It’s amazing how DNA gets about.

Y-chromosomal diversity in the population of Guinea-Bissau: a multiethnic perspective

 

Results
The Guinea-Bissau Y chromosome pool is characterized by low haplogroup diversity (D = 0.470, sd 0.033), with the predominant haplogroup E3a*-M2 shared among the ethnic clusters and reaching a maximum of 82.2% in the Mandenka people. The Felupe-Djola and Papel groups exhibit the highest diversity of lineages and harbor the deep-rooting haplogroups A-M91, E2-M75 and E3*-PN2, typical of Sahel’s more central and eastern areas. Their genetic distinction from other groups is statistically significant (P = 0.01) though not attributable to linguistic, geographic or religious criteria. Non sub-Saharan influences were associated with the presence of haplogroup R1b-P25 and particular lineages of E3b1-M78.

Categories: Anthropology
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Some DNA studies of West Africans showing ancient Eurasian admixture.

June 26, 2008 · Leave a Comment

MtDNA Profile of West Africa Guineans: Towards a Better Understanding of the Senegambia Region

Alexandra Rosa et al.

The matrilineal genetic composition of 372 samples from the Republic of Guiné-Bissau (West African coast) was studied using RFLPs and partial sequencing of the mtDNA control and coding region. The majority of the mtDNA lineages of Guineans (94%) belong to West African specific sub-clusters of L0-L3 haplogroups. A new L3 sub-cluster (L3h) that is found in both eastern and western Africa is present at moderately low frequencies in Guinean populations. A non-random distribution of haplogroups U5 in the Fula group, the U6 among the “Brame” linguistic family and M1 in the Balanta-Djola group, suggests a correlation between the genetic and linguistic affiliation of Guinean populations. The presence of M1 in Balanta populations supports the earlier suggestion of their Sudanese origin. Haplogroups U5 and U6, on the other hand, were found to be restricted to populations that are thought to represent the descendants of a southern expansion of Berbers. Particular haplotypes, found almost exclusively in East-African populations, were found in some ethnic groups with an oral tradition claiming Sudanese origin.

A possible ancient migration from Asia to Africa was proposed by Cruciani et al. (2002) to explain the presence of some unusual Y-chromosome lineages identified in West Africa. Haplogroup R1 (defined by M173 mutation), without further branch defining mutations (M269 and M17) specific to Europeans, accounted for ~40% of the Y-chromosomes in North-Cameroon, while not yet having been sampled elsewhere in Africa. More data from Central and Western Africa are needed to cast light on the origin of such idiosyncratic mtDNA and Y chromosome lineages. Thus, our U5 sequences from the Guinean Fulbe people corroborate Cruciani’s hypothesis of a prehistoric migration from Eurasia to West Sub-Saharan Africa, testified by their present day restricted and localised distribution.

Another one..

Despite the large size of the contemporary nomadic Fulani population (roughly 13 million people), the genetic diversity and degree of differentiation of Fulanis compared to other sub-Saharan populations remain unknown. We sampled four Fulani nomad populations (n = 186) in three countries of sub-Saharan Africa (Chad, Cameroon, and Burkina Faso) and analyzed sequences of the first hypervariable segment of the mitochondrial DNA. Most of the haplotypes belong to haplogroups of West African origin, such as L1b, L3b, L3d, L2b, L2c, and L2d (79.6% in total), which are all well represented in each of the four geographically separated samples. The haplogroups of Western Eurasian origin, such as J1b, U5, H, and V, were also detected but in rather low frequencies (8.1% in total). As in African hunter-gatherers (Pygmies and Khoisan) and some populations from central Tunisia (Kesra and Zriba), three of the Fulani nomad samples do not reveal significant negative values of Fu’s selective neutrality test. The multidimensional scaling of F^sub ST^ genetic distances of related sub-Saharan populations and the analysis of molecular variance (AMOVA) show clear and close relationships between all pairs of the four Fulani nomad samples, irrespective of their geographic origin. The only group of nomadic Fulani that manifests some similarities with geographically related agricultural populations (from Guinea-Bissau and Nigeria) comes from Tcheboua in northern Cameroon.

This is a bloody long read, the full item is here.

Categories: Anthropology · DNA studies · race
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DNA and the domestication of cattle.

June 26, 2008 · 4 Comments

African, Asian and European cattle.

Archaeological evidence suggests that cattle were first domesticated In Turkey, in the Catal Hoyuk area, from about 10,000 years ago. DNA suggests that there was a second domestication, with archaeological evidence dating that to about 7,000 years ago (pre-Harappan in Pakistan). As yet, no DNA evidence for an independent African domestication, just hybridisation. It also suggests European cattle contain some wild auroch DNA.

Mitochondrial genomes of extinct aurochs survive in domestic cattle

Archaeological and genetic evidence suggest that modern cattle might result from two domestication events of aurochs (Bos primigenius) in southwest Asia, which gave rise to taurine (Bos taurus) and zebuine (Bos indicus) cattle, respectively [1, 2, 3]. However, independent domestication in Africa [4, 5] and East Asia [6] has also been postulated and ancient DNA data raise the possibility of local introgression from wild aurochs [7, 8, 9]. Here, we show by sequencing entire mitochondrial genomes from modern cattle that extinct wild aurochsen from Europe occasionally transmitted their mitochondrial DNA (mtDNA) to domesticated taurine breeds. However, the vast majority of mtDNAs belong either to haplogroup I (B. indicus) or T (B. taurus). The sequence divergence within haplogroup T is extremely low (eight-fold less than in the human mtDNA phylogeny [10]), indicating a narrow bottleneck in the recent evolutionary history of B. taurus. MtDNAs of haplotype T fall into subclades whose ages support a single Neolithic domestication event for B. taurusin the Near East, 9–11 thousand years ago (kya).

An Unusual Pattern of Ancient Mitochondrial DNA Haplogroups in Northern African Cattle,

Which is too fiddly to reproduce here.

Microsatellite DNA Variation and the Evolution, Domestication and Phylogeography of Taurine and Zebu Cattle (Bos taurus and Bos indicus)

D. E. MacHugh, M. D. Shriver, R. T. Loftus, P. Cunningham and D. G. Bradley
Department of Genetics, Trinity College, Dublin 2, Ireland

Genetic variation at 20 microsatellite loci was surveyed to determine the evolutionary relationships and molecular biogeography of 20 different cattle populations from Africa, Europe and Asia. Phylogenetic reconstruction and multivariate analysis highlighted a marked distinction between humpless (taurine) and humped (zebu) cattle, providing strong support for a separate origin for domesticated zebu cattle. A molecular clock calculation using bison (Bison sp.) as an outgroup gave an estimated divergence time between the two subspecies of 610,000-850,000 years. Substantial differences in the distribution of alleles at 10 of these loci were observed between zebu and taurine cattle. These markers subsequently proved very useful for investigations of gene flow and admixture in African populations. When these data were considered in conjunction with previous mitochondrial and Y chromosomal studies, a distinctive male-mediated pattern of zebu genetic introgression was revealed. The introgression of zebu-specific alleles in African cattle afforded a high resolution perspective on the hybrid nature of African cattle populations and also suggested that certain West African populations of valuable disease-tolerant taurine cattle are under threat of genetic absorption by migrating zebu herds.
Evidence for two independent domestications of cattle.


R T Loftus, D E MacHugh, D G Bradley, P M Sharp, and P Cunningham
Department of Genetics, Trinity College, Dublin, Ireland.
 
AbstractThe origin and taxonomic status of domesticated cattle are controversial. Zebu and taurine breeds are differentiated primarily by the presence or absence of a hump and have been recognized as separate species (Bos indicus and Bos taurus). However, the most widely held view is that both types of cattle derive from a single domestication event 8000-10,000 years ago. We have examined mtDNA sequences from representatives of six European (taurine) breeds, three Indian (zebu) breeds, and four African (three zebu, one taurine) breeds. Similar levels of average sequence divergence were observed among animals within each of the major continental groups: 0.41% (European), 0.38% (African), and 0.42% (Indian). However, the sequences fell into two very distinct geographic lineages that do not correspond with the taurine-zebu dichotomy: all European and African breeds are in one lineage, and all Indian breeds are in the other. There was little indication of breed clustering within either lineage. Application of a molecular clock suggests that the two major mtDNA clades diverged at least 200,000, and possibly as much as 1 million, years ago. This relatively large divergence is interpreted most simply as evidence for two separate domestication events, presumably of different subspecies of the aurochs, Bos primigenius. The clustering of all African zebu mtDNA sequences within the taurine lineage is attributed to ancestral crossbreeding with the earlier B. taurus inhabitants of the continent.

 

Mitochondrial diversity and the origins of African and European cattle
Daniel G. Bradley, David E. MacHugh, Patrick Cunningham, and Ronan T. Loftus 

The nature of domestic cattle origins in Africa are unclear as archaeological data are relatively sparse. The earliest domesticates were humpless, or Bos taurus, in morphology and may have shared a common origin with the ancestors of European cattle in the Near East. Alternatively, local strains of the wild ox, the aurochs, may have been adopted by peoples in either continent either before or after cultural influence from the Levant. This study examines mitochondrial DNA displacement loop sequence variation in 90 extant bovines drawn from Africa, Europe, and India. Phylogeny estimation and analysis of molecular variance verify that sequences cluster significantly into continental groups. The Indian Bos indicus samples are most markedly distinct from the others, which is indicative of a B. taurus nature for both European and African ancestors. When a calibration of sequence divergence is performed using comparisons with bison sequences and an estimate of 1 Myr since the Bison/Bos Leptobos common ancestor, estimates of 117-275,000 B.P. and 22-26,000 B.P. are obtained for the separation between Indians and others and between African and European ancestors, respectively. As cattle domestication is thought to have occurred approximately 10,000 B.P., these estimates suggest the domestication of genetically discrete aurochsen strains as the origins of each continental population. Additionally, patterns of variation that are indicative of population expansions (probably associated with the domestication process) are discernible in Africa and Europe. Notably, the genetic signatures of these expansions are clearly younger than the corresponding signature of African/European divergence.
Extensive MHC class II DRB3 diversity in African and European cattle

Sofia Mikko1 and Leif Anderson1

 Genetic deversity at the highly polymorphic BoLA-DRB3 locus was investigated by DNA sequence analyses of 18 African cattle from two breeds representing the two subspecies of cattle, Bos primigenius indicus and Bos primigenius taurus. Yhe polymorphism was compared with that found in a sample ofd 32 European cattle from four breeds, all classified as B. p. taurus. Particularly extensive genetic diversity was found among African cattle, in which as many as 18 alleles were recognized in this small random sample of animals from two breeds. The observed similarity in allele frequency distribution between the two African populations, N’Dama and Zebu cattle, is consistent with the recent recognition of gene flow between B. p. indicus and B. P taurus cattle in Africa. A total of 30 DRB3 alleles were documented and as many as 26 of these were classified as major allelic types showing at least five amino acid substitutions compared with other major types. The observation of extensive genetic diversity at MHC loci in cattle, as well as in other farm animals, provides a compelling argument against matin-type preferences as a primary cause in maintaining major histocompatibility complex diversity, since the reproduction of these animals has been controlled by humans for many generations.
The nucleotide sequence data reported in this paper have been submitted to the EMBL nucleotide sequence database and have been given the accession numbers X87641-X87670

An Unusual Pattern of Ancient Mitochondrial DNA Haplogroups in Northern African Cattle

Comparative DNA studies of the control region for mitochondrial DNA (mtDNA) have revealed surprising complexity in the evolutionary history of Old and New World livestock species (Bruford et al. 2003). For the greater Mediterranean area, these analyses have shown that the mitochondrial control region haplotypes for modern cattle (i.e., Bos taurus) belong to one of 4 sequence clusters or haplogroups (Fig. 1). Most (94%) modern cattle populations from Northern Africa carry haplogroup T1, which is rarely found outside of Africa (6% in the Near East and absent elsewhere). In contrast, modern populations from mainland Europe carry 2 very similar haplogroups, T and T3 (94%), which decrease in the Middle East (65%-74%) and almost completely disappear in Africa (6%). Haplogroup T2 makes up the remainder of this mtDNA diversity and is present at 6% in Europe and 21%-27% in the Near East, but is absent from Africa. These haplogroup distributions have been interpreted as indicating a Near East origin for European B. taurus and the  independent domestication of cattle in Africa (Bradley et al. 1996, Troy et al. 2001, Hanotte et al. 2002).

In this note, we report on the analysis of an ancient mtDNA (control region) sequence as
obtained from a bovine skeletal sample from an early, first millennium, archaeological site near the community of Adi Nefas, Eritrea in Northeastern Africa (900 yr before the present; YBP; Schmidt and Curtis 2001) (Fig. 1). This newly acquired ancient DNA sequence is combined with data for the same mitochondrial control region as determined for 4 specimens from Mali, Northwestern Africa (ca. 900-2200 YBR; Edwards et al. 2004). In concert with the modern mtDNA data, these 5 ancient DNA sequences raise the  possibility that the mtDNA gene pool for Northern African cattle was more diverse ca. 900-2000 yr ago.

MATERIALS AND METHODS
The original source of the ancient DNA from Eritrea consisted of a bone section (2 g) that was obtained from a larger piece of fragmented bone. Multiple DNA extractions, amplifications, cloning, and sequencing were performed according to established procedures for ancient DNA (Mulligan 2005). The DNA amplifications and sequencing
relied on the primer pair, AN1 (5′-ACGCGGCAT GGTAATTAAGC-3′) and AN2 (5′-GCCCCAT
GCATATAAGCAAG-3′), for an internal segment of the mitochondrial control region (see below).

Throughout this study, rigorous safeguards were routinely employed to ensure the authenticity of the final sequence, e.g., the DNA extractions and amplifications were conducted in a separate laboratory and building with positive air pressure and HEPA air filtration where no previous bovid material, either contemporary or ancient, had ever been
analyzed. In general, hot arid climates result in poorer organic preservation than colder climates (Edwards et al. 2004). Thus, the fact that this specimen was associated with a cool highland environment may have facilitated the successful DNA extraction.

RESULTS AND DISCUSSION
The new ancient DNA sequence from Adi Nefas, Eritrea was 116 base pairs in length
(GenBank accession no.: AY524815), corresponding to positions 16,042-16,157 of the bovine mtDNA genome (Anderson et al. 1982). This mtDNA sequence is identical to a known control region haplotype for B. taurus (L27727; Loftus et al. 1994). Thus, as a representative of L27727, this ancient DNA sequence belongs to the combined haplogroup T/T3, which is common in modern cattle populations from Europe and the Near East, but rare in those from Northern Africa (Fig. 1). Furthermore, as characteristic of B. taurus, it corroborates the initial morphological identification Fig.

The previously reported ancient mtDNA sequences for the 4 Mali individuals consist of 1
T/T3 and 3 T1 haplotypes (Edwards et al. 2004). Combining the new Eritrean sequence with these 4 Mali orthologues resulted in an ancient mtDNA sample for Northern Africa of 2 T/T3 and 3 T1 haplotypes (Fig. 1). Assuming that these 5 represent a valid random sample (which admittedly is unlikely), a standard binomial test reveals that the probability  of drawing by chance 2 or more T/T3 sequences out of five, given the contemporary haplogroup frequencies for Northern African cattle (Fig. 1), is only 3.5%. Minimally, this result highlights the fact that this set of 5 ancient DNA sequences appears􀂨unusual􀂩, because of the greater frequency of the rare T/T3 haplogroups compared to modern populations of Northern African cattle.

In conclusion, our results raise the possibility that the mtDNA gene pool for Northern African cattle ca. 900-2000 yr ago was more polymorphic in terms of the frequencies of the T1 and T/T3 haplogroups that currently predominate in African and European populations, respectively. This older polymorphism in Northern African cattle may reflect a transition from an even more-diverse ancestral gene pool (as characteristic of its Near East progenitor) and/or the later secondary introduction of T/T3 haplotypes into this region by the immigration of European cattle (Hanotte et al. 2002, Bruford et al. 2003). Concomitantly, selective pressures from domestication and breeding efforts and/or genetic drift may have then led to the final homogenization of this older polymorphism into the current situation of essentially only the T1 haplogroup occurring in Northern Africa. These possibilities reemphasize the fact that both ancient and modern DNA data are of value in the ultimate resolution of the complex history of African cattle
(Edwards et al. 2004).

Early history of European domestic cattle as revealed by ancient DNA

We present an extensive ancient DNA analysis of mainly Neolithic cattle bones sampled from archaeological sites along the route of Neolithic expansion, from Turkey to North-Central Europe and Britain. We place this first reasonable population sample of Neolithic cattle mitochondrial DNA sequence diversity in context to illustrate the continuity of haplotype variation patterns from the first European domestic cattle to the present. Interestingly, the dominant Central European pattern, a starburst phylogeny around the modal sequence, T3, has a Neolithic origin, and the reduced diversity within this cluster in the ancient samples accords with their shorter history of post-domestic accumulation of mutation.

Genetics and Domestic Cattle Origins

Genetics has the potential to provide a novel layer of information pertaining to the origins and relationships of domestic cattle. While it is important not to overstate the power of archeological inference from genetic data, some previously widespread conjectures are inevitably contradicted with the addition of new information. Conjectures regarding domesticated cattle that fall into this category include a single domestication event with the  development of Bos indicus breeds from earlier Bos taurus domesticates; the domestication of a third type of cattle in Africa having an intermediate morphology between the two taxa; and the special status of the Jersey breed as a European type with some exotic influences. In reality, a wideranging survey of the genetic variation of modern cattle reveals that they all derive from either zebu or taurine progenitors or are hybrids of the two. The quantitative divergence between Bos indicus and Bos taurus strongly supports a predomestic separation; that between African and European taurines also suggests genetic input from native aurochsen populations on each continent. Patterns of genetic variants assayed from paternally, maternally, and biparentally inherited genetic systems reveal that extensive hybridization of the two subspecies is part of the ancestry of Northern Indian, peripheral European, and almost all African cattle breeds. In Africa, which is the most extensive hybrid zone, the sexual asymmetry of the process of zebu introgression into native taurine breeds is strikingly evident.

Figure 1. This map shows approximate distributions for the various types of domesticated cattle found in Asia, Africa, and Europe. Also shown are distributions for the closely related Bibos species, banteng and gaur. This diagram is modified from Payne6 and Epstein and Mason.5

Categories: DNA studies
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Domesticated animals across the Sahara, North Africa and Nile.

June 26, 2008 · Leave a Comment

There are claims that the Africans domesticated cattle first, which seems unlikely as the DNA from African cattle is pretty much restricted to sub Saharan Africa, with minority contribution in Northern Africa and a little in Portugal , whereas it would have been all over the place if it had been first. Interesting bits in bold. I’ve added this item because the appearance of the sheep and goats helps to trace the arrival of the Neolithic revolution into Africa.

Taken from ‘The antiquity of man’.

Extracts from:

Are the early Holocene cattle in the Eastern Sahara domestic or wild?
Fred Wendorf & Romuald Schild (Evolutionary Anthropology 3(4), 1994)

In the early Holocene, the Eastern Sahara had more rainfall, probably between 100 and 200 mm per year in its Egyptian area The rain probably fell during the summer. This inference is drawn from the fact that the plant remains in the early Holocene archeological sites are the same as those growing today several hundred kilometers to the south, on the northern margin of the Sahel and the adjacent Sahara, which are in a summer rain-fall regime. The quantity of rainfall was sufficient for seasonal pools or playas to form in large depressions. There may also have been permanent water about 250 km farther south at Sehima, and there certainly were permanent lakes near Merga in northern Sudan about 500 km south of the Egyptian border. Nevertheless, the Eastern Sahara was, at best, a marginal and highly unstable environment with frequent droughts and episodes of hyper-aridity. The Eastern Sahara in Egypt was not an environment that could have supported wild cattle nor one where the earliest domestication of cattle would have been like likely to occur. Cattle need to drink every day or at least every other day and there was no permanent water anywhere in the area.

Early Neolithic

Radiocarbon dates indicate that the early Holocene rains began sometime before 10,000 B.P., perhaps as early as 11,000 or 12,000 B.P. However, there is no evidence of human presence before 9,500 B.P. except for a radiocarbon date of around 10,000 years ago from a hearth west of Dakhla. The earliest sites with large bovid remains are imbedded in playa sediments that overlay several meters of still older Holocene playa deposits.

All of these sites contain well-made, bladelet-based lithic assemblages. Straight-backed pointed bladelets, perforators, and large endscrapers made on reused Middle Paleolithic artifacts are the characteristic tools. A few grinding stones and rare sherds of pottery also occur. The pottery is well made; the pieces are decorated over their entire exterior surfaces with deep impressions formed with a comb or wand in what is sometimes referred to as the Early Khartoum style.

These assemblages have been classified as the El Adam type of the Early Neolithic. Several radiocarbon dates place the complex between 9,500 and 8,900 B.P. There is no evidence that there were wells during this period. It is assumed, then, that these sites represent occupations that took place after the summer rains and before the driest time of the year when surface water was no anger available. Three of these sites, E-77-7, E-79-8, and E-80-4, all having only El Adam archeology and all located between km and 250 km west of Abu Simbel, have yielded, through excavation, more than 20 bones and teeth of large bovids that have been identified as Bos. These occurred along with several hundred bones of gazelle (Gazella dorcas and G. dama) and hare (Lepus capensis); a few bones of jackal (Canis aureus), turtle (Testudo sp.); and birds (Otis tarda and Anas querquedula); the large shell of a bivalve (Aspatharia rubens), probably of Nilotic origin; and various snail shells (Bulinus truncatus and Zoorecus insularis).

After a period of aridity around 8,800 years ago, when the desert may have been abandoned, the area was re-occupied by groups with a lithic tool-kit that emphasized elongated scalene triangles. The grinding stones, scrapers, and rare pieces of pottery that are present characterize the El Ghorab type of Early Neolithic and have been dated between 8,600 and 8,200 B.P. Oval slab-lined houses occur during this phase. all of them located in the lower pans of natural drainage basins. However, there are no known wells, suggesting that the desert still was not occupied during the driest part of the year. Faunal remains are poorly preserved in these sites and. indeed, only one bone of a large bovid was recovered from the four sites with fauna. in these sites the Dorcas gazelle is the most numerous, followed by hare, together with single bones of wild cat (Felis silvestris), porcupine (Hystrix cristata), desert hedge-hog (Paraechinus aethiopicus) an amphibian, and a bird.

Another brief period of aridity between 8.200 and 8,100 B.P. coincides with the end of the El Ghorab type of Early Neolithic in the desert. With the return of greater rainfall between about 8,0100 B.P., a new variety of Early Neolithic, the El Nabta type, appeared in the area. El Nabta. sites are often larger than the previous Early Neolithic sites and usually have several large, deep wells, some with adjacent shallow basins that might have been used to water stock. A variety of lithic and bone tools occur in these sites, including stemmed points with pointed and retouched bases, perforators, burins, scrapers. notched pieces, bone points, and scalene triangles measuring about one centimeter. Grinding stones and sherds of pottery are more numerous than in the earlier sites, but still are not abundant. Their deeply impressed designs are similar to those on objects recovered from sites of the El Adam and El Ghorab types of Early Neolithic. Occasional pieces have “dotted wavy line” decoration.

Radiocarbon dates place the El Nabta sites between 8,100 and 7,900 B.P. One of these, E-75-6, is much larger than the others and consists of a series of shallow, oval hut floors at–ranged in two, possibly three, parallel lines. Beside each house was one or more bell-shaped storage pits; nearby were several deep (2.5 m) and shallow (1.5 m) water-wells. This site, located near the bottom of a large basin, was flooded by the summer rains. The houses were repeatedly used, probably during harvests in fall and winter Several thousand remains of edible plants have been recovered from these house floors. They include seeds, fruits, and tubers representing 44 different kinds of plants, including sorghum and millets. All of the plants are morphologically wild, but chemical analysis by infrared spectroscopy of the lipids in the sorghum indicates that this plant may have been cultivated. Of the four El Nabta sites that have yielded fauna, two contained bones of a large bovid identified as Bos. The faunal samples from the other two sites are very small.

Middle Neolithic

Another brief period of aridity separated the El Nabta Early Neolithic from the succeeding Middle Neolithic, which is marked by the much greater abundance of pottery. In addition, each piece of pottery is decorated over its entire exterior surface with closely packed comb- or paddle-impressed designs. Some of the pots are large, and analysis of the clays indicates that they were made locally. There were also some changes in lithic tools. More of them were made of local rocks, but there was sufficient continuity in lithic typology to suggest that the preceding Nabta population was also involved.

Radiocarbon dates indicated an age for the Middle Neolithic between 7,700 and 6,500 B.P. The sites from the early part of this period range from one-or-two house homesteads in some of the smaller playas to multi-house villages in the larger basins. There is also one very large settlement along the beach line of the largest playa in the area, as well as, small camps on the sandsheets and the plateaus beyond the basins. This variation in site size has been interpreted as reflecting a seasonally responsive settlement system in which the population dispersed into small villages in the lower pans of the basins during most of the year, particularly the dry season, then, during the wet season, aggregated into a large community along the edge of the high-water stand of the largest playa.

Various house types are represented in the villages: some are circular and semi-subterranean (30 to 40 cm deep), some slab-lined, and others appear to have had walls of sticks and clay (wattle and daub). All of the sites have large, deep walk-in wells and storage pits. Except for the small camps, most of the sites appear to have been reused many times, with new house floors placed on top of the silt deposited during the preceding flood.

Excavations at five Middle Neolithic sites have yielded more than 50 bones from large bovids. Most of these bones came from the large “aggregation” site (E-75-8) at the margin of the largest playa in the area and from the early Middle Neolithic site E-77-l, dated before 7,000 B.P., which is located on a dune adjacent to another large playa. Each of the other three Middle Neolithic sites yielded only one to three large bovid bones.

Around 7,000 B.P., the remains of small livestock (sheep or goats) appear in several Middle Neolithic sites at Nabta. Because there are no progenitors for sheep or goats in Africa, these caprovines were almost certainly introduced from southwest Asia.

The faunal remains in many of these sites are extensive, including not only the same species recovered from the Early Neolithic sites, but also lizards (Lacertilia sp.) ground squirrel (Euxerus erythropus), field rat (Aricanthis nioloticus), hyena (Hyaena hyaena), and sand fox (Vulpes rueppelii). One bone is from either orstx (Oryx dammah) or addax (Addax nasosulcatus), The most nurmerous remains are those of hare and the Dorcas gazelle. Nevertheless, the paucity of the fauna and the absence, except for cattle and small livestock, of animals that require permanent water suggests a rather poor environment, most likely comparable to the northernmost Sahel today with about 200 mm of rain or less annually.

The Middle Neolithic was brought to an end by another major but brief period of aridity slightly before 6,500 B.P., when the water table fell several meters and the floors of many basins were deflated and reshaped, The area probably was abandoned at this time.

Late Neolithic

With the increase in rainfall that began around 6,500 years ago. human groups again appeared in the area, but this time with ceramic and lithic traditions that differed from those of the preceding Middle Neolithic. This new complex, identified as Late Neolithic, is distinguished by pottery that is polished and sometimes smudged on the interiors. This pottery resembles that found in the slightly later (about 5,400 or, possibly, 6,300 B.P.) Baderian sites in the Nile Valley of Upper Egypt. [12, 13] It seems likely that an as yet undiscovered early pre-Badarian Neolithic was present in that area and either stimulated or was the source of the Late Neolithic pottery in the Sahara. It is unlikely, however, that this hypothetical early Nilotic Neolithic will date much earlier than 6,500 B.P. There are terminal Paleolithic sites along the Nile that are dated to around 7,000 B.P. and it is highly improbable that two such different life-ways could co-exist exist for long in the closely constrained environment of the Nile Valley.

Late Neolithic sites in the Egyptian Sahara consist mostly of numerous hearths representing many separate episodes of occupation. The hearths are long and oval, dug slightly into the surface of the ground, and filled with charcoal and fire-cracked rocks. No houses are known. Most of the sites are dry-season camps located in the lower parts of basins that were flooded by the seasonal rains. Many of the sites are associated with several large, deep wells.

Many of the Late Neolithic tools are made on “side-blow flakes” that have been retouched into denticulates and notched pieces There are also a few bifacial arrowheads, often with tapering stems, or, rarely with concave bases similar to those found in the Fayum Neolithic where they date between 6,400 and 5,7OO years ago.The end of the Late Neolithic in the Eastern Sahara is not well established.The period may have tasted until around 5,300 B.P. when this part of the Sahara was abandoned.

Due to poor preservation faunal re-mains in Late Neolithic sites are not as abundant as those from the Middle Neolithic. However, the Late and Middle Neolithic samples generally include the same animals suggesting that the environment was also generally similar during these periods. Although large bovids are also present in three Late Nealithic sites, and more frequently than in the faunal assemblages of the preceding period, they still are a minor component of the sample.

The Late Neolithic Nabta is marked by interesting signs of increased social complexity, including several alignments of updght slabs (2 x 3 m) imbedded in, and sometimes almost covered by, the playa sediments. Circles of smaller uptight stabs may calendrical devices. Stone-covered tumuli are also present; two of the smaller ones contain cow burials, one in a prepared and sealed pit. none of the more than 30 large tumuli thus far located, which are by large, roughly shaped blocks of stone, has been excavated.

Even the earliest of these early Holocene Eastern Sahara sites have been attributed to cattle pastoralists. It is presumed that these Early Neolithic groups came into the desert from an as yet unidentified area where wild cattle were present and the initial steps toward their domestication been taken.

This area may have been the Nile Valley between the First and Second Cataracts, where wild cattle were present. Moreover, lithic industries were closely similar to those in the earliest Saharan sites. It has been suggested that cattle may have facilitated human use of the Sahara by providing a mobile, dependable, and renewable source of food in the font of milk and blood. The use of cattle as a renewable resource rather than for meat is seen as a possible explanation for the paucity of cattle remains in most of the Saharan sites. Such use in a desert, where other foods were so limited, may have initiated the modern East African pattern of cattle pastonlism in which cattle are important as a symbol of prestige, are primarily used for milk and blood, and rarely are killed for meat.

It is assumed, because of the apparrent absence of wells at the earliest sites, that the first pastoralists used the desert only after the summer rains, when water was still present in the larger drainage basins. After 8,000 years ago, when large, deep wells were dug, the pastoralists probably resided in the desert year-round.

Evidence from other parts of North Africa

The antiquity of the known domestic cattle elsewhere in North Africa does not offer much encouragement with regard to the presence of early domestic cattle in the Eastern Sahara. Gautier recently summarized the available data, noting that domestic cattle were present in coastal Mauritania and Mali around 4,200 years ago and at Capeletti in the mountains of northern Algeria about 6,500 years ago. At about that same time, they may have been present in the Coastal Neolithic of the Maghreb. Farther south in the Central Sahara, domestic cattle were present at Meniet and Erg d’Admco, both of which date around 5,400 years ago, and at Adrar Rous, where a complete skeleton of a domestic cow is dated 5,760 +/- 500 years B.P ].

Domestic cattle have been found in western Libya at Ti-n-torha North and Uan Muhuggiag, where the lowest level with domestic cattle and small livestock (sheep and goats) dated at 7,438 t 1,200 B.P. At Uan Muhuggiag, there is also a skull of a domestic cow dated 5,950 +/- 120 years. In northern Chad at Gabrong and in the Serir Tibesti, cattle and small livestock were certainly present by 6,000 B.P. and may have been there as early as 7,500 B.P. We are skeptical, however, about the presence of livestock at Uan Muhuggiag and the Serir Tibesti before 7,OO0 B.P., when small livestock first appear in the Eastern Sahara, if we must assume that these animals reached the central Sahara by way of Egypt and the Nile Valley. This also casts doubt on the 7,500 B.P. dates for cattle in these sites.

The earliest domestic cattle in the lower Nile Valley have been found at Merimda, in levels that have several radiocarbon dates ranging between 6,000 and 5,400 B.P. and in the Fayum Neolithic, which dates from 6,400 to 5, 400 B.P. These sites also have domes-tic pigs and either sheep or goats. In Upper Egypt, the earliest confirmed domestic cattle are in the Predynastic site of El Khattara, dated at 5,300 B.P. However, domestic cattle were almost certainly present in the earliest Badarian Neolithic, which dates before 5,400 B.P. and possibly were there as early as 6,300 B.P. Farther south, in Sudan near Khartoum, the first do-mestic cattle and small livestock oc-curred together in the Khartoum Neolithic, which began around 6,000 B.P.

It is probably significant that none of the early Holocene faunal assemblages in the Nile Valley from the Fayum south to Khartoum that date between 9,000 and 7,000 H.P contains the remains of cattle that have been identified as domestic It is this ab-sence of any evidence of recognizable incipient cattle domestication in the Nile Valley or elsewhere in North Africa that cautions us to consider carefully the evidence of early domestic cattle in the Eastern Sahara.

Other opinions

Numerous scholars, including Clutton-Brock, Robertshaw, Muzolini, and Smith, have debated about whether the large bovids are cattle or buffalo and stated that if they are cattle, they probably were wild.

It has also been suggested, because the large bovid bones are so rare, that the Bos were possibly intrusive and not associated with the dated occupations where they occurred That argument is not convincing The occupations at many of the sites with large bovids were limited to only one type of Early Neolithic. Moreover, the bovids were recovered from excavations at 15 Neo-lithic sites dating before 6,500 years ago and, in fact, were found at every site that yielded more than 41 speci-mens of identifiable faunal remains. Unfortunately, it is not possible to date these large bovid hones directly. Several attempts have been made and each was unsuccessful. Apparently. collagen is not preserved in bones found in hyper-arid environments. It should also be noted that the large bovid hones are not fossilized, and thus are not geological intrusions. Also, there are no large bovids living in the Eastern Sahara today nor have there been for several thousands of years.

It has been suggested that the faunal samples from the archeological sites do not reflect the range of animals that existed in that environment. However, Gautier has identified a long list of animals from these sites and, except for gazelles and hares, none is common. Beyond that, all are small and desert-adjusted. These faunal samples probably reflect the expected range of animals living in the desert at that time.

Smith made the most detailed criticism of Gautier’s hypothesis about domestic cattle, basing his objections on two major points. The first is environmental. He noted that Churcher identified wild cattle, African buffalo, hartebeests zebras, and gazelles from an “Early Neolithic” context at Dakhleh Oasis, 300 km north of Bir Kiseiba. If this is a true Early Neolithic faunal assemblage, however, the area would have required a much wetter environment than is indicated by the geological evidence. In fact, this Dakhleh assemblage in-cludes species that require much more moisture than do the species that were in the Nile Valley at this time. This suggests that the environment at Dakhleh was richer and more hospitable than that along the Nile, which is highly unlikely, to say the least. Also, Equus, even in the Late Paleolithic, seems to have been confined to the Red Sea Hills and the east bank of the Nile. [39] The Dakhleh fauna closely resembles that found with lacustrine deposits in the Eastern Sahara and dating to the Last Inter-glacial, while they are associated with Middle Paleolithic artifacts. It seems likely that this Dakhleh fauna was de-rived born deposits of the Middle Pa-leolithic and was somehow mixed with Neolithic artifacts. Churcher (personal communication) accepts this as a possible explanation.

Smith also noted that the Eastern Sahara faunal assemblages do not include the addax, which is still found today in the Central Sahara, or the onyx, giraffe, rhinoceros, or elephant he would expect to see in even the driest environments. There are, of course, two bones of either addax or onyx in the collections. Also, giraffes survived until recently in areas of the Gilf Kebir where there was water. There is, however, no evidence of giraffe on the plains of the Eastern Sahara after the lakes of the Last Interglacial became dry between 70,000 and 65,000 years ago. Occasional elephant teeth and a partial skull have been found in the Neolithic sites, but the elephant skull is more mineralized than are the bones of other fauna recovered from the same site. That skull, as well as the elephant teeth found in other sites, are regarded as Middle Paleolithic or earlier fossils collected by Neolithic people. In our view, the Eastern Sahara was simply too dry for these larger mam-mals, all of which, except the elephant, require nearby water. (The elephant is known to range consider-able distances away from water)

Smith’s other argument is osteological. He noted that Gautier was very cautious in his identifications, using circumstantial evidence to establish the identity of species. Smith observed that large bovid remains from the Eastern Sahara are within the size range of wild cattle in both Europe and North Africa, but that some are larger than known do-mestic cattle. He suggested that these large bovids could just as well be African buffalo (Syncerus caffer) or giant buffalo (Pelorovis antiquus). Both possibilities, however, can be rejected on osteometric and morphological grounds. The entire collection was carefully re-examined to resolve this particular question and the initial identification of the hones as those of Bus was confirmed.

It seems possible that we have not been adequately clear in our discus-sion of the sedimentary and other geological data that support the argument that there was no permanent water in this part of the Sahara. Perhaps, also, our critics’ personal experience in the Sahara has been limited to its more tropical and luxurious areas where permanent lakes existed in the Early Holocene. If so, this may have left them with a dis-torted view of the environment in the Eastern Sahara, where there are nu-merous deflated basins. In the center of many of these basins are extensive remnants of typical playa clays, which grade to silts and sands toward their margins. Diatomites, freshwater limestones, and other organogenic evidence of permanent water do not occur. There are no aquatic species of invertebrates and none of the fauna except large bovids requires permanent water. It is for these reasons that we reject the hypothesis that cattle were an integral part of the natural, wild fauna of the Eastern Sahara in the early Holocene. In this area under these conditions, cattle had to have been under human control, and thus at least incipiently domestic. The cattle had to have been moved from one grazing area and water hole to another and then, when the drainage basins became dry returned to a place with permanent water.

Wild cattle were numerous in the Nile Valley at this time. It might be hypothesized that after the summer rains the cattle ranged westward on their own to graze and the new grass then returned to the valley before the dry season. Although it is possible that this could have happened at Nabta, which is only 100 km from the Nile, it is extremely unlikely to have occurred at Bir Kiseiba, about 250 km west of the Nile. Also, this hypothesis makes little ecological sense. If large cattle went far out into the desert, why didn’t medium-size animals do the same? This is a particularly important question with regard to the hartebeest, which is also common in the Nile Valley and is better adapted to aridity than are cattle.

We have also considered the possibility that the cattle bones are remnants of food brought to the desert from the Nile Valley by groups of hunters. However, this is unlikely, for almost all of the bones recovered are lower limb elements, which have little or no meat and frequently are discarded at killing and butchery sites.

Conclusion

How can we accommodate the conflicting evidence regarding cattle pastoralists during the early Holocene in the Eastern Sahara? In particular, how can we propose that the first steps toward cattle domestication began in the Nile Valley, perhaps during the Late Pleistocene, when there is so little faunal evidence to support that hypothesis? The answer may lie in the identification of the cattle remains found in the Late Paleolithic sites in Sudanese and Egyptian Nubia. It has been suggested that it would be very difficult to separate the bones of the incipiently domestic cattle from those of wild cattle. When the first cattle were discovered in the Eastern Sahara, Gautier rechecked the Bos remains that had been found in all of the Late Paleolithic Nilotic sites. He gave particular attention to those from the Qadan site at Tushka, dated 14, 500 B.P., where cattle skulls were used as head markers for several human burials, and those from the Ark-inian site with a 14C date around 10,500 B.P. The Arkinian site was of special interest because the little lithic assemblage from there closely resembles the assemblages from the earliest El Nabta type Neolithic in the Eastern Sahara. Gautier found that the cattle in both the Qadan and Arkinian sites fell in two size groups one of which he considered to be males, the other females both groups were identified as being wild Bos primigenius.

Recently, however, work in a killing and butchery site near Esna, Egypt, dated 19,100 B.P., yielded the remains of six very large Bos, much larger than any other previously recovered in the Nile Valley. Indeed, these Bos are even larger than those from much older Middle Paleolithic sites. On the basis of this discovery, Gautier has suggested that Bos primigenius bulls in the Nile Valley may well have been much larger than was previously believed, and that the larger Bos from the Qadan and Arkinian sites were female wild Bos. If so, the smaller animals in those assemblages may have been these ones that were in an early stage of domestication. Morphologically, the Eastern Sahara cattle would then be well within the range of these incipiently domestic cattle. The additional work planned at the Esna butchery site may clarify this hypothesis.

By employing the method of “strong inferences,” which involves formulating alternative hypotheses, testing them to exclude one or more, arid adopting those that remain, we have concluded that domestic cattle probably were present in the Eastern Sahara as early as 9,000 years ago and, perhaps earlier. At the same time, we recognize that there is no such thing as proof and that science advances only by disproofs. Future evidence may suggest a better hypothesis or indeed, this controversy may be conclusively resolved if DNA testing now under way determines that the Bos remains found in African and Southwest Asian archeological sites belong to the same closely related gene pool or that they represent two populations that have been separated for many thousands of years. Until then, Gautier’s hypothesis of domestic cattle in the Eastern Sahara during the Early Holocene remains reasonable, if insecure

I have to say I disagree with them, on two grounds. DNA distribution of African cattle is pretty limited, and the main basis for their case four is that very big cattle bones have been found at another site. If cattle bones from the area generally showed that the wild cattle were big, but one group found near humans were small, I’d  buy it. This could easily be the remains of an extinct subspecies, or they were just selecting the biggest bulls they could find for some ritual purpose. And why were the cattle that came before smaller? the linguistic arguments (on original) were pretty thin too.

Case for the early domestication of African cattle… pretty thin, but not impossible. Maybe they could compare their DNA diversity to the other two kind to compare them!

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Eugen Strouhal’s summary of Pre-dynastic Badarians racial affinites.

June 26, 2008 · 16 Comments

Eugen Strouhal

The Journal of African History, Vol. 12, No. 1. (1971), pp. 1-9.

In Nubia, according to the analysis of physical anthropology, the original Europoid (Caucasoid) stock of the population was several times overrun by Negroid waves, flowing from the South. Negroes and Negroids penetrated to Egypt only sporadically, and their frequency, uneven according to time, place and the diagnostical knowledge of the investigator, has been estimated as 1 to 5 per cent. An increase in the number of Negroes was observed only in the New Kingdom, in connexion with the expansion of Egyptian domination to the south. From that time onwards, they were pictured as symbols of the south. The perfect portrayal of their morphological features shows that the Egyptian artists knew them very well.”

“By the individual analysis of nasal measurements and indices of the first Badarian series in comparison with the mixed Europoid-Negroid series from Wadi Qitna in Nubia (fourth-fifth century AD), with the Europoid series from Manfalout in Upper Egypt (Ptolemaic period) and with a series of recent Nilotes, I came to the conclusion that the distribution of the Badarian skulls extends from the Europoid to the Negroid range.”

“Of the total 117 skulls, 15 were found to be markedly Europoid, 9 of these were of the gracile Mediterranean type, 6 were of very robust structure reminiscent of the North African Cromagnon type. Eight skulls were clearly Negroid… We may conclude that the share of both components was nearly the same, with some overweight to the Europoid side.”

“In some of the Badarian crania hair was preserved, thanks to good conditions in the desert sand. In the first series, according to the descriptions of the excavators, they were curly in 6 cases, wavy in 33 cases and straight in 10 cases. They were black in 16 samples, dark brown in 11, brown in 12, light brown in 1 and grey in 11 cases.”

This is the study I saw Keita misquote, as saying ‘80% of the hair was negroid’. I’m pretty sure ‘black’ is the only colour you see in Africans without admixture.

EARLY NILE VALLEY FARMERS FROM EL-BADARI, Aboriginals or “European”Agro-Nostratic Immigrants? Craniometric Affinities Considered With Other Data.

I also want to know why Keita didn’t use the neighboring Caucasians as a base line… he used Nordic-types from as his baseline instead of the nearby North Africans (quite a difference facially and in skull shape) and omitted one nasal measurement, which is a dead giveaway as far as racial relationships go. Essentially, this study contains one very dubious quote, and a dubious methodology. In another paper he says that NW Europeans show no relationship to European phenotype Mahgrebians, so his choice of them as his European baseline is very odd indeed.

Since I’m pretty familiar with the neolithic expansion by now, I’ll simplify it for all.

 About 8,000 BP, the Neolithic farmers arrived in Northern Egypt (from Turkey, originally) and then spread across the North of Africa, and down the Nile (minorty contributors to North Africa, but still there). At the same time, the other branches of the expansion were reaching Pakistan, the Ukraine and the Balkans. 

Modern Egyptians are; upper Egypt still 80% native African, and in lower Egypt 60%, with a large proportion of the rest traceable to the incoming neolithic farmers. Prior to that the people along the Nile were a mix of an ancient Eurasian back migration, and east African, who expanded slowly out as far as Somalia and the Levant at varying times.

This makes the ancient Egyptians pretty similar to the modern ones. In fact, they show themselves to be so every time you compare things like limb length, teeth, hair and skulls. At least one of the studies I have on Nubian teeth shows a major population influx before pre-dynastic Egyptian times, and one on Egyptian teeth that shows a ‘continuity of population from pre-dynastic times to present’.

So, I’d like to see this Keita study re-done with South Eastern Europeans, Berbers and modern Egyptians and  as some of the baseline populations, including the nasal measurements!

Categories: Ancient Egypt · Anthropology · pre-history · race
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Early Eurasian ceramics.

June 25, 2008 · 1 Comment

Lets’s start by listing the known dates and locations… (source)

  • Fukui Cave, Japan (Jomon), calibrated at 13,900 BC to 12,300 BC.
  • Gaysia site, Amur river, Russia, calibrated at 14,050 to 13,200 BC.
  • Khummi site, Amur river, Russia, calibrated at 14,300 to 13,650 BC.
  • Odai Yamamoto 1 site, Japan, calibrated at 14,900 to 14,250 BC.
  • Ust-Karenga , nearer lake Baikal, calibrated at 11,800 to 10,500 BC.

This makes the oldest Jomon pottery now about 16,500 years old, Russian 16,000 years old

Given the distribution pattern of the pottery, i’d say it spread along the river pretty quickly. The Russian sites are in the Osipovka complex, and further west at the Ust-Karenga complex.

Categories: Archaeology · pre-history
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