Y-chromosome-based genetic pattern in East Asia affected by Neolithic transition

Wen, Shaoqing; Tong, Xin-Zhu; Li, Hui

doi:10.1016/j.quaint.2016.03.027

Cited by 15 publications

(19 citation statements)

References 54 publications

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“…Previously, it was suggested that the demographic expansion pattern in the Neolithic in SEA shows strong expansion dynamics, different characteristics than the Paleolithic expansion, and sex-specific expansion patterns, with earlier expansions in female than in male lineages. (Wen et al 2016). The expansion signals in our results coincide with the beginning of the SEA Neolithic ~5 to 4.5 kya, during which farming expanded from China to SEA (Bellwood 2018).…”

Section: Genetic Variation and Origin Of The Monmentioning

confidence: 99%

“…the symbolism on the Dvaravati coin which indicates the importance of royalty, and includes several motifs associated with Indian precedents of the 1 st -4 th century A.D (Higham and Thosarat 2012).Demographic changesDemographic expansion of Thai/Lao populations are noticeably detected in both paternal and maternal lineages at the beginning of the Holocene, ~10 kya (Figure 6). In this period, increasing and more stable temperatures might have facilitated population expansion(Wen et al 2016). The male Ne increase during the Holocene is primarily driven by the O2a2a* and O2a1c* lineages(Figure 8).…”

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confidence: 99%

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Contrasting paternal and maternal genetic histories of Thai and Lao populations

Kutanan

Kampuansai

Srikummool

et al. 2019

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The human demographic history of Mainland Southeast Asia (MSEA) has not been well-studied; in particular there have been very few sequence-based studies of variation in the male-specific portions of the Y chromosome (MSY). Here, we report new MSY sequences of ~2.3 mB from 914 males, and combine these with previous data for a total of 928 MSY sequences belonging to 59 populations from Thailand and Laos who speak languages belonging to three major MSEA families: Austroasiatic (AA), Tai-Kadai (TK) and Sino-Tibetan (ST).Among the 92 MSY haplogroups, two main MSY lineages (O1b1a1a* (O-M95*) and O2a* (O-M324*)) contribute substantially to the paternal genetic makeup of Thailand and Laos. We also analyse complete mtDNA genome sequences published previously from the same groups, and find contrasting pattern of male and female genetic variation and demographic expansions, especially for the hill tribes, Mon, and some major Thai groups.In particular, we detect an effect of post-marital residence pattern on genetic diversity in patrilocal vs. matrilocal groups. Additionally, both male and female demographic expansions were observed during the early Mesolithic (~10 kya), with two later major male-specific expansions during the Neolithic period (~4-5 kya) and the Bronze/Iron Age (~2.0-2.5 kya). These two later expansions are characteristic of the modern AA and TK groups, respectively, consistent with recent ancient DNA studies. We simulate MSY data based on three demographic models (continuous migration, demic diffusion and cultural diffusion) of major Thai groups and find different results from mtDNA simulations, supporting contrasting male and female genetic histories.

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Section: Genetic Variation and Origin Of The Monmentioning

confidence: 99%

mentioning

confidence: 99%

Contrasting paternal and maternal genetic histories of Thai and Lao populations

Kutanan

Kampuansai

Srikummool

et al. 2019

Preprint

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“…In addition, the applicability of the DNA Signature Prep Kit had been evaluated and verified on challenging samples, DNA mixture, degradative DNA [48][49][50], formalin-fixed paraffin-embedded tissues [49,51], and remains of skeletons and bones [48,[52][53][54], to extend the applications for forensic sciences [55][56][57][58][59][60][61][62][63][64][65][66][67][68]. Hence, on the basis of the sufficient validations of the stability and homogeneity, more essential data of worldwide populations are needed urgently at present to improve the standard experimental procedures, promote the efficiencies of MPS-based system, and strengthen and unify the contacts between capillary electrophoresis-based (CE-based) and MPS-based data for the basic and extended applications of forensic sciences and others.As the aborigines in Hainan island where was the entrances to East Asia (either the southern entrance from Indo-China peninsula or the northern entrance from Central Asia) [12,[69][70][71], Hainan Li, the second largest population after Han Chinese in Hainan island, has unique ethnic properties and derived characteristics which serves as potential "transfer station" or "bridge" for the Austroasiatic populations (or the Tai-Kadai populations) expansion into East Asia [72][73][74][75]. Therefore, we collected the first batch of DNA polymorphic profiles of the Hlai language-speaking population utilizing the MPS-based ForenSeq™ DNA Signature Prep Kit (DPMA), and multiple population genetic analyses were conducted from different geographic scales incorporation with…”

mentioning

confidence: 99%

“…As the aborigines in Hainan island where was the entrances to East Asia (either the southern entrance from Indo-China peninsula or the northern entrance from Central Asia) [12,[69][70][71], Hainan Li, the second largest population after Han Chinese in Hainan island, has unique ethnic properties and derived characteristics which serves as potential "transfer station" or "bridge" for the Austroasiatic populations (or the Tai-Kadai populations) expansion into East Asia [72][73][74][75]. Therefore, we collected the first batch of DNA polymorphic profiles of the Hlai language-speaking population utilizing the MPS-based ForenSeq™ DNA Signature Prep Kit (DPMA), and multiple population genetic analyses were conducted from different geographic scales incorporation with…”

mentioning

confidence: 99%

The forensic landscape and the population genetic analyses of Hainan Li based on massively parallel sequencing DNA profiling

Fan

Wang

et al. 2020

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Due to the formation of the Qiongzhou Strait by climate change and marine transition, Hainan island isolated from the mainland southern China during the Last Glacial Maximum. Hainan island, located at the southernmost part of China and separated from the Leizhou Peninsula by the Qiongzhou Strait, laid on one of the modern human northward migration routes from Southeast Asia to East Asia. The Hlai-language speaking Li minority, the second largest population after Han Chinese in Hainan island, is the direct descendants of the initial migrants in Hainan island and has unique ethnic properties and derived characteristics, however, the forensic associated studies on Hainan Li population are still insufficient.Hence, 136 Hainan Li individuals were genotyped in this study using the MPS-based ForenSeq™ DNA Signature Prep Kit (DNA Primer Set A) to characterize the forensic genetic polymorphism landscape, and DNA profiles were obtained from 152 different molecular genetic markers (27 autosomal STRs, 24 Y-STRs, 7 X-STRs, and 94 iiSNPs). A total of 419 distinct length variants and 586 repeat sequence sub-variants, with 31 novel alleles (at 17 loci), were identified across the 58 STR loci from the DNA profiles of Hainan Li population. We evaluated the forensic characteristics and efficiencies of DAPA, it demonstrated that the STRs and iiSNPs in DAPA were highly polymorphic in Hainan Li population and could be employed in forensic applications. In addition, we set up three Datasets, which included the genetic data of (Ⅰ). iiSNPs (27 populations, 2640 individuals), (Ⅱ). Y-STRs (42 populations, 8281 individuals), and (Ⅲ). Yhaplogroups (123 populations, 4837 individuals) along with the population ancestries and language families, to perform population genetic analyses separately from different perspectives.In conclusion, the phylogenetic analyses indicated that Hainan Li, with a southern East Asia origin and Tai-Kadai language-speaking language, is an isolated population relatively. But the genetic pool of Hainan Li influenced by the limited gene flows from other Tai-Kadai populations and Hainan populations. Furthermore, the establishment of isolated population models will be beneficial to clarify the exquisite population structures and develop specific genetic markers for subpopulations in forensic genetic fields. Signature Prep Kit; Massively parallel sequencing. mass landings of the Han (since BC 214 in Qin Dynasty) and Lingao people (about BC 500 during the Spring and Autumn period) compressed the living space of Hainan Li, making Li from the north to the south of Hainan island [1,2,9,29,30]. (Nowadays, the main distributions of Hainan Li minority are shown in Fig. 1C.) In all ages, ever since the primordial settlements in Hainan island, Hlai language was the dominant language for the original migrants and their descendants, and the intangible cultural and spiritual heritages within Hainan Li were preserved by oral transmission without ancient writings to hand down. Hlai, which is one important branch of the Tai-Kadai languag...

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“…By analyzing the Y chromosome haplotype patterns, three Neolithic super-grandfather haplotypes have been discovered that together account for ~40% of present day Han Chinese males 3–5 . The expansion dates are estimated 5400 YBP (years before present) for O3a2c1a-M117-F5 (O2a2b1a1a-F5 or F8, ISOGG 2017), 6500 YBP for O3a2c1-F46 (O2a2b1a2a1-F46), or 6800 YBP for O3a1c-002611-F11 (O2a1b1a1a1a-F11), and these three haplotypes represent 16%, 11%, and 14% of present day Han Chinese males, respectively.…”

Section: Introductionmentioning

confidence: 99%

Ancient DNAs and the Neolithic Chinese super-grandfather Y haplotypes

Zhang

Lei

Chen

et al. 2018

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Previous studies identified 3 Neolithic Han Chinese super-grandfather Y haplotypes, O2a2b1a1a-F5, O2a2b1a2a1-F46, and O2a1b1a1a1a-F11, but their relationships with the archaeological and written records remain unexplored. We here report genome wide DNA data for 12 ancient samples (0.02x-1.28x) from China ranging from 6500 to 2500 years before present (YBP). They belonged to 4 different genetic groups, designated as Dashanqian (DSQ) of Xiajiadian Culture in the Northeast, Banpo (BP) of middle Yangshao Culture in the Central West, Zhengzhou Xishan (ZX) of Miaodigou Culture in the Central Plains, and Others. Present day F5 samples were closer in autosomal distances to the ZX and DSQ groups while F11, C, O1, and O2 samples were closer to the BP group. We also sequenced the Y chromosome of one of these ancient samples K12 from DSQ and found both K12 and a previously reported ~4000 year old sample MG48 from Northwest China to have the O2a2b1a1a1a2a-F2137 haplotype, belonging to the most prolific branch O2a2b1a1a1-F438 immediately under F5. We further found close relationships between ZX and DSQ and between ZX and ancient M117 Tibetans or present day Southwest Dai Chinese carrying the F5 subtype O2a2b1a1a6, implicating radiations of F5 subtypes from the putative place of F5 origin in ZX. These results are remarkably consistent with archaeological and written records.

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Y-chromosome-based genetic pattern in East Asia affected by Neolithic transition

Cited by 15 publications

References 54 publications

Contrasting paternal and maternal genetic histories of Thai and Lao populations

Contrasting paternal and maternal genetic histories of Thai and Lao populations

The forensic landscape and the population genetic analyses of Hainan Li based on massively parallel sequencing DNA profiling

Ancient DNAs and the Neolithic Chinese super-grandfather Y haplotypes

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