Asian migrations as indicated by Y chromosome YAP+ haplogroup

The following two abstracts of article deal with Y chromosome haplogroup D, a type of the YAP+ haplogroups found in Africa and Asia. Most YAP+ haplogroups are found in Africa with the exception of haplogroup D.

The first study suggests that Japanese and Tibetan populations are made up of two primary waves of male ancestors as indicated by Y chromosome types. The D haplogroup apparently spread out over much of East Asia at an early date from more southern parts of Asia, and then was displaced later primarily from migrations of peoples among whom the O haplogroup was dominant. These latter peoples also migrated from the South to the North. In Japan, YAP+ is most frequently found among the Ainu people of Hokkaido.

In the second study, frequencies of YAP+ carriers in Yunnan, a southwestern province of China, are given. The Primi (Pumi), a Tibeto-Burmese-speaking group, has the highest frequency (72.3%) of YAP+ not only in Yunnan but throughout eastern Asia.

The scattered distribution of YAP+ in Asia resembles that of another marker, haplogroup C, which however, is oriented more toward the Pacific islands.

Y chromosome evidence of earliest modern human settlement in East Asia and multiple origins of Tibetan and Japanese populations

Authors: Hong Shi, Hua Zhong, Yi Peng, Yong-li Dong, Xue-bin Qi, Feng
Zhang, Lu-fang Liu, Si-jie Tan, Run-lin Ma, Chun-jie Xiao, Spencer
Wells, Li Jin and Bing Su
BMC Biology 2008, 6:45

The phylogeography of the Y chromosome in Asia previously suggested
that modern humans of African origin initially settled in mainland
southern East Asia, and about 25,000-30,000 years ago, migrated
northward, spreading throughout East Asia. However, the fragmented
distribution of one East Asian specific Y chromosome lineage (D-M174),
which is found at high frequencies only in Tibet, Japan and the
Andaman Islands, is inconsistent with this scenario.

Results: In this study, we collected more than 5,000 male samples from
73 East Asian populations and reconstructed the phylogeography of the
D-M174 lineage. Our results suggest that D-M174 represents an
extremely ancient lineage of modern humans in East Asia, and a deep
divergence was observed between northern and southern populations.

Conclusions: We proposed that D-M174 has a southern origin and its
northward expansion occurred about 60,000 years ago, predating the
northward migration of other major East Asian lineages. The Neolithic
expansion of Han culture and the last glacial maximum are likely the
key factors leading to the current relic distribution of D-M174 in
East Asia.

The Tibetan and Japanese populations are the admixture of two ancient
populations represented by two major East Asian specific Y chromosome
lineages, the O and D haplogroups.



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Sci China C Life Sci. 2003 Apr;46(2):135-40.

The geographic polymorphisms of Y chromosome at YAP locus among 25 ethnic groups in Yunnan, China.

Shi H, Dong Y, Li W, Yang J, Li K, Zan R, Xiao C.

Human Genetics Center of Yunnan University, 650091, Kunming, China.

The genetic polymorphisms of Y chromosome at YAP locus in 25 ethnic groups (33 populations) of China were analyzed in a total of 1294 samples. The average YAP+ frequency of the 33 populations was 9.2%, coinciding with published data of Chinese populations. Primi has the highest YAP+ frequency (72.3%), which is also the highest YAP+ among all the eastern Asian populations studied. The YAP+ occurred in 17 populations studied including Tibetan (36.0%), Naxi (37.5% and 25.5%), Zhuang (21.3%), Jingpo (12.5%), Miao (11.8%), Dai (11.4%, 10.0%, 3.3% and 2.0%), Yi (8.0%), Bai of Yunnan (6.7% and 6.0%), Mongol of Inner Mongolia (4.3%), Tujia of Hunan (2.6%), Yao (2.2%) and Nu (1.8%). The other 15 populations are YAP-including Lahu (2 populations), Hani, Achang, Drung, Lisu, Sui, Bouyei, Va, Bulang, Deang, Man and Hui and Mongol of Yunnan and Bai of Hunan. The YAP+ frequencies varied among the different ethnic groups studied, and even different among the same ethnic group living in different geographic locations. Using the genetic information, combined with the knowledge of ethnology, history and archaeology, the origin and prehistoric migrations of the ethnic groups in China, especially in Yunnan Province were discussed.

The impact of the Austronesian expansion: Admiralty Islands

A new study examines again the Austronesian expansion from the view of migrating Austronesian speakers reaching Melanesia.

One problem with these studies is that they do clearly differentiate between Austronesian and Malayo-Polynesian expansion. Even if we grant that Austronesian speakers originated in Taiwan, as the new study claims, it is highly doubtful that the Malayo-Polynesian expansion radiated from that region. There are no Malayo-Polynesian languages in Taiwan, and the general distribution of the linguistic branches do not jibe with a Taiwan location.

Another thing is we should not assume anything about the "race" of the Austronesian speakers, or for that matter the "Melanesians" back in the Neolithic period when these expansions occurred.

Austronesian speakers in the Pacific -- Micronesians, Melanesians and Polynesians -- for example, all have significant percentages of Y chromosome C2 haplogroup. In some Polynesian areas, C2 is the dominant haplotype. However, C2 has not been found in Taiwan so far.

Regards,
Paul Kekai Manansala
Sacramento

Mol Biol Evol. 2008 Apr 3

The impact of the Austronesian expansion: evidence from mtDNA and Y-chromosome diversity in the Admiralty Islands of Melanesia.

Kayser M, Choi Y, van Oven M, Mona S, Brauer S, Suarkia D, Schiefenhövel W, Stoneking M.

Department of Forensic Molecular Biology, Erasmus University Medical Center Rotterdam, The Netherlands.

The genetic ancestry of Polynesians can be traced to both Asia and Melanesia, which presumably reflects admixture occurring between incoming Austronesians and resident non-Austronesians in Melanesia before the subsequent occupation of the greater Pacific; however, the genetic impact of the Austronesian expansion to Melanesia remains largely unknown. We therefore studied the diversity of non-recombining Y-chromosomal (NRY) and mitochondrial (mt) DNA in the Admiralty Islands, located north of mainland Papua New Guinea, and updated our previous data from Asia, Melanesia and Polynesia with new NRY markers. The Admiralties are occupied today solely by Austronesian-speaking groups, but their human settlement history goes back 20,000 years prior to the arrival of Austronesians about 3,400 years ago. On the Admiralties we found substantial mtDNA and NRY variation of both Austronesian and non-Austronesian origin, with higher frequencies of Asian mtDNA and Melanesian NRY haplogroups, similar to previous findings in Polynesia, and perhaps as consequence of Austronesian matrilocality. Thus, the Austronesian language replacement on the Admiralties (and elsewhere in Island Melanesia and coastal New Guinea) was accompanied by an incomplete genetic replacement that is more associated with mtDNA than with NRY diversity. These results provide further support for the "Slow Boat" model of Polynesian origins, according to which Polynesian ancestors originated from East Asia but genetically mixed with Melanesians before colonizing the Pacific. We also observed that non-Austronesian groups of coastal New Guinea and Island Melanesia had significantly higher frequencies of Asian mtDNA haplogroups than of Asian NRY haplogroups, suggesting sex-biased admixture perhaps as a consequence of non-Austronesian patrilocality. We additionally found that the predominant NRY haplogroup of Asian origin in the Admiralties (O-M110) likely originated in Taiwan, thus providing the first direct Y-chromosome evidence for a Taiwanese origin of the Austronesian expansion. Furthermore, we identified a NRY haplogroup (K-P79, also found on the Admiralties) in Polynesians that most likely arose in the Bismarck Archipelago, providing the first direct link between northern Island Melanesia and Polynesia. These results significantly advance our understanding of the impact of the Austronesian expansion and of human history in the Pacific region.

YAP insertion signature in South Asia

The YAP+ variant of the Y chromosome has been found in the Andaman and Nicobar islands off the coast of India.

YAP+ here belongs to haplogroup D as compared to haplogroup E of Africa, West Asia and Europe.

Now, haplogroup D has also been found among "tribal" peoples of Northeast India sometimes at frequencies of up to 65%.

The YAP+ insertion has been of interest in Asia because of its presence among the mysterious Ainu people of Japan.

Previously it was thought that YAP+ reached Japan from Central Asia but there was a "missing link" in the haplotype's genetic tree. That link was eventually found among Andaman and Nicobar Islanders.

Although superficially different, the Andaman Islanders and the Ainu share a similar diminutive stature on par with the Agta or "Negrito" peoples, and a type with straighter, more abundant hair in Southeast Asia; and the Khoisan, Mbuti, Twa and similar peoples of Africa.

Many earlier researchers found physical characteristics in the Ainu that pointed more toward origins in the South Seas than in Siberia, the other area theorized as the place from which the Ainu migrated to Japan. Of course, the Ainu could also carry genes from multiple migrations from different directions.

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ABSTRACT

Ann Hum Biol. 2007 Sep-Oct;34(5):582-6

YAP insertion signature in South Asia.

Chandrasekar A et al.

A total of 2169 samples from 21 tribal populations from different regions of India were scanned for the Y-chromosome Alu polymorphism. This study reports, for the first time, high frequencies (8-65%) of Y Alu polymorphic (YAP) insertion in northeast Indian tribes. All seven Jarawa samples from the Andaman and Nicobar islands had the YAP insertion, in conformity with an earlier study of Andaman Islanders. One isolated case with haplotype E* was found in Dungri Bhill, a western Indian population, while YAP insertion in northeast India and Andaman tribes was found in association with haplotype D* (M168, M174). YAP insertion frequencies reported in the mainland Indian populations are negligible, according to previous studies. Genetic drift may be the causative factor for the variable frequency of the YAP insertion in the mainland populations, while the founder effect may have resulted in the highest incidence of haplotype D among the Andaman Islanders. The results of YAP insertion and the evidence of previous mtDNA studies indicate an early out of Africa migration to the Andaman and Nicobar Islands. The findings of YAP insertion in northeast Indian tribes are very significant for understanding the evolutionary history of the region.
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Regards,
Paul Kekai Manansala
Sacramento

Y chromosome study probes ancient Liangzhu culture

A new DNA study from China suggests, among other things, that the ancient Liangzhu Culture of the Yangtze region, famed for its jade work, had genetic signatures suggesting an Austronesian and Daic population. One has to question whether genetics, in this case the O1 haplotype, can say anything about language culture especially that far back in time, but the study does support the archaeological evidence suggesting Liangzhu had links with areas further South.

Y chromosomes of prehistoric people along the Yangtze River.

Li H, Huang Y, Mustavich LF, Zhang F, Tan JZ, Wang LE, Qian J, Gao MH, Jin L.

MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University, Shanghai, 200433, China.

The ability to extract mitochondrial and nuclear DNA from ancient remains has enabled the study of ancient DNA, a legitimate field for over 20 years now. Recently, Y chromosome genotyping has begun to be applied to ancient DNA. The Y chromosome haplogroup in East Asia has since caught the attention of molecular anthropologists, as it is one of the most ethnic-related genetic markers of the region. In this paper, the Y chromosome haplogroup of DNA from ancient East Asians was examined, in order to genetically link them to modern populations. Fifty-six human remains were sampled from five archaeological sites, primarily along the Yangtze River. Strict criteria were followed to eliminate potential contamination. Five SNPs from the Y chromosome were successfully amplified from most of the samples, with at least 62.5% of the samples belonging to the O haplogroup, similar to the frequency for modern East Asian populations. A high frequency of O1 was found in Liangzhu Culture sites around the mouth of the Yangtze River, linking this culture to modern Austronesian and Daic populations. A rare haplogroup, O3d, was found at the Daxi site in the middle reaches of the Yangtze River, indicating that the Daxi people might be the ancestors of modern Hmong-Mien populations, which show only small traces of O3d today. Noticeable genetic segregation was observed among the prehistoric cultures, demonstrating the genetic foundation of the multiple origins of the Chinese Civilization.