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Objectives: The culturally unique Sanya Hui (SYH) people are considered descendants of ancient Cham people in Central Vietnam and exhibit a scenario of complex migration and admixture history. We aimed to characterize the genetic structure, origin, and admixture history of SYH people and explore the effect of the cultural admixture from Central/South Asia and East Asia on their genetic admixture. Materials and Methods: We sampled 94 Hui individuals from Hainan and genotyped these samples using the Infinium Global Screening Array version 2 with over 717K SNPs. We then investigated the demographic history of SYH people by combining currently available modern and ancient genome‐wide SNP data and leveraging shared allele‐ and haplotype‐based strategies. Results: Patterns of genetic differentiation showed that SYH people were genetically different from the northern Hui but harbored a close genomic affinity with indigenous Vietnamese. SYH had a relatively distant relationship with the Cham, which confirmed the hypothesis of the documented recent historical migration from Central Vietnam and assimilation with the Hainan indigenous people. The fitted three‐way admixture models and the reconstructed demographic frameworks showed that SYH was the admixture result with primary ancestry from East Asia and mainland Southeast Asia and minor ancestry related to Central/South Asia. GLOBETTRTER and ALDER‐based admixture time estimation revealed that genetic contact with Central Asia occurred around 28 generations ago. Our model was consistent with the frequent cultural communication along the Southern Maritime Silk Road and extensive interaction with East Asia. Besides, analyses focused on natural‐selected signatures of SYH people revealed some candidate loci associated with metabolism and immune function. Discussion: The SYH people are considered to be Cham refugees' descendants. A long‐standing hypothesis posits that SYH derives from different genetic and cultural origins, which hypothesizes that the genetically attested admixture history of SYH people is different from northern Hui people possessing prominent Han‐related ancestry and minor western Eurasian ancestry. We found that the genetic structure of SYH people was different from Vietnam Cham and geographically diverse Hui people. Generally, three genetically attested genealogies from Central Vietnam, East Asia, and Central/South Asia in modern SYH people supported their tripartite model of genomic origins. [ABSTRACT FROM AUTHOR]

Objectives: The origin and differentiation of Austronesian populations and their languages have long fascinated linguists, archeologists, and geneticists. However, the founding process of Austronesians and when they separated from their close relatives, such as the Daic and Austro‐Asiatic populations in the mainland of Asia, remain unclear. In this study, we explored the paternal origin of Malays in Southeast Asia and the early differentiation of Austronesians. Materials and Methods: We generated whole Y‐chromosome sequences of 50 Malays and co‐analyzed 200 sequences from other Austronesians and related populations. We generated a revised phylogenetic tree with time estimation. Results: We identified six founding paternal lineages among the studied Malays samples. These founding lineages showed a surprisingly coincident expansion age at 5000 to 6000 years ago. We also found numerous mostly close related samples of the founding lineages of Malays among populations from Mainland of Asia. Conclusion: Our analyses provided a refined phylogenetic resolution for the dominant paternal lineages of Austronesians found by previous studies. We suggested that the co‐expansion of numerous founding paternal lineages corresponds to the initial differentiation of the most recent common ancestor of modern Austronesians. The splitting time and divergence pattern in perspective of paternal Y‐chromosome evidence are highly consistent with the previous theories of ethnologists, linguists, and archeologists. [ABSTRACT FROM AUTHOR]

Objectives: The aim of this research was to explore the origin, diversification, and demographic history of O1a‐M119 over the past 10,000 years, as well as its role during the formation of East Asian and Southeast Asian populations, particularly the Han, Tai‐Kadai‐speaking, and Austronesian‐speaking populations. Materials and Methods: Y‐chromosome sequences (n = 141) of the O1a‐M119 lineage, including 17 newly generated in this study, were used to reconstruct a revised phylogenetic tree with age estimates, and identify sub‐lineages. The geographic distribution of 12 O1a‐M119 sub‐lineages was summarized, based on 7325 O1a‐M119 individuals identified among 60,009 Chinese males. Results: A revised phylogenetic tree, age estimation, and distribution maps indicated continuous expansion of haplogroup O1a‐M119 over the past 10,000 years, and differences in demographic history across geographic regions. We propose several sub‐lineages of O1a‐M119 as founding paternal lineages of Han, Tai‐Kadai‐speaking, and Austronesian‐speaking populations. The sharing of several young O1a‐M119 sub‐lineages with expansion times less than 6000 years between these three population groups supports a partial common ancestry for them in the Neolithic Age; however, the paternal genetic divergence pattern is much more complex than previous hypotheses based on ethnology, archeology, and linguistics. Discussion Our analyses contribute to a better understanding of the demographic history of O1a‐M119 sub‐lineages over the past 10,000 years during the emergence of Han, Austronesians, Tai‐Kadai‐speaking populations. The data described in this study will assist in understanding of the history of Han, Tai‐Kadai‐speaking, and Austronesian‐speaking populations from ethnology, archeology, and linguistic perspectives in the future. [ABSTRACT FROM AUTHOR]