Multiple Human Population Movements and Cultural Dispersal Events Shaped the Landscape of Chinese Paternal Heritage

Molecular Biology and Evolution, Journal Year: 2024, Volume and Issue: 41(7)

Published: June 17, 2024

Abstract Large-scale genomic projects and ancient DNA innovations have ushered in a new paradigm for exploring human evolutionary history. However, the genetic legacy of spatiotemporally diverse Eurasians within Chinese paternal lineages remains unresolved. Here, we report an integrated Y-chromosome database encompassing 15,563 individuals from both modern Eurasians, including 919 newly reported individuals, to investigate diversity. The high-resolution, time-stamped phylogeny reveals multiple diversification events extensive expansions early middle Neolithic. We identify four major population movements, each associated with technological that shaped landscape. First, expansion East Asians millet farmers Yellow River Basin predominantly carrying O2/D subclades significantly influenced formation Sino-Tibetan people facilitated permanent settlement Tibetan Plateau. Second, dispersal rice Yangtze Valley O1 certain O2 sublineages reshapes makeup southern Han Chinese, as well Tai-Kadai, Austronesian, Hmong-Mien, Austroasiatic people. Third, Neolithic Siberian Q/C originated proliferated among hunter-gatherers on Mongolian Plateau Amur Basin, leaving significant imprint gene pools northern China. Fourth, J/G/R derived western Eurasia, which were initially spread by Yamnaya-related steppe pastoralists, maintain their presence primarily northwestern Overall, our research provides comprehensive evidence elucidating impact interactions culturally distinct patterns diversity populations.

Language: Английский

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Sequencing and characterizing human mitochondrial genomes in the biobank-based genomic research paradigm

Science China Life Sciences, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 21, 2025

Language: Английский

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Pilot work of the 10K Chinese People Genomic Diversity Project along the Silk Road suggests a complex east-west admixture landscape and biological adaptations

Science China Life Sciences, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 22, 2025

Language: Английский

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Differentiated adaptative genetic architecture and language-related demographical history in South China inferred from 619 genomes from 56 populations

BMC Biology, Journal Year: 2024, Volume and Issue: 22(1)

Published: March 6, 2024

Abstract Background The underrepresentation of human genomic resources from Southern Chinese populations limited their health equality in the precision medicine era and complete understanding genetic formation, admixture, adaptive features. Besides, linguistical evidence supported controversial hypothesis origin processes. One hotspot case was Guangxi Pinghua Han people (GPH), whose language significantly similar to dialects but uniparental gene pool phylogenetically associated with indigenous Tai-Kadai (TK) people. Here, we analyzed genome-wide SNP data 619 four families 56 geographically different populations, which 261 21 distinct were first reported here. Results We identified significant population stratification among ethnolinguistically diverse suggesting differentiated admixture GPH shared more alleles related Zhuang than received northern ancestry relative Zhuang. Admixture models estimates distances showed that had a close relationship TK compared Northern Chinese, supporting hypothesis. Further time demographic history reconstruction formed via between robust signatures lipid metabolisms, such as fatty acid desaturases (FADS) medically relevant loci Mendelian disorder (GJB2) complex diseases. also explored unique selection ethnically linguistically lineages found some signals immune malaria resistance. Conclusions Our analysis illuminated language-related fine-scale structure provided support can explain pattern observed diversity formation GPH. This work presented one comprehensive focused on demographical adaptative process, for personal management disease risk prediction large-scale whole-genome sequencing projects would provide entire landscape southern contributions traits.

Language: Английский

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Forensic investigative genetic genealogy: expanding pedigree tracing and genetic inquiry in the genomic era

Journal of genetics and genomics/Journal of Genetics and Genomics, Journal Year: 2024, Volume and Issue: unknown

Published: July 1, 2024

Genetic genealogy provides crucial insights into the complex biological relationships within contemporary and ancient human populations by analyzing shared alleles chromosomal segments that are identical descent, to understand kinship, migration patterns, population dynamics. Within forensic science, investigative genetic (FIGG) has gained prominence leveraging next-generation sequencing technologies population-specific genomic resources, opening new avenues. In this review, we synthesize current knowledge, underscore recent advancements, discuss growing role of FIGG in genomics. been pivotal revitalizing dormant inquiries offering leads numerous cold cases. Its effectiveness relies on extensive SNP profiles contributed individuals from diverse specialized databases. Advances computational genomics growth databases have spurred a profound shift application across forensics, anthropology, DNA studies. As field progresses, is evolving nascent practice more sophisticated discipline, shaping future investigations.

Language: Английский

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Differentiated genomic footprints suggest isolation and long-distance migration of Hmong-Mien populations

BMC Biology, Journal Year: 2024, Volume and Issue: 22(1)

Published: Jan. 25, 2024

Abstract Background The underrepresentation of Hmong-Mien (HM) people in Asian genomic studies has hindered our comprehensive understanding the full landscape their evolutionary history and complex trait architecture. South China is a multi-ethnic region indigenously settled by ethnolinguistically diverse HM, Austroasiatic (AA), Tai-Kadai (TK), Austronesian (AN), Sino-Tibetan (ST) people, which regarded as East Asia’s initial cradle biodiversity. However, previous fragmented genetic have only presented fraction diversity this region, especially lack haplotype-based resources. deep characterization demographic natural-selection-relevant architecture HM was necessary. Results We reported one HM-specific resource comprehensively explored fine-scale structure adaptative features inferred from genome-wide SNP data 440 individuals 33 ethnolinguistic populations, including previously unreported She. identified solid differentiation between Han Chinese at 7.64‒15.86 years ago (kya) split events southern inland (Miao/Yao) coastal (She) middle Bronze Age period latter obtained more gene flow Ancient Northern Asians. Multiple admixture models further confirmed that extensive surrounding ST, TK, AN entangled forming pool people. Genetic findings isolated shared unique ancestral components based on sharing alleles haplotypes deconstructed Yungui Plateau carried breadth unknown diversity. direct recent connection Southeast they most extended identity-by-descent fragments, supporting long-distance migration hypothesis. Uniparental phylogenetic topology network-based relationship reconstruction found ancient uniparental founding lineages southwestern Finally, population-specific biological adaptation study differentiated natural selection signatures among associated with physical immune functions. allele frequency spectrum cancer susceptibility pharmacogenomic genes showed significant differences northern Conclusions Our evidence combined historical documents supported view originated regions “Three-Miao tribes” descended Daxi-Qujialing-Shijiahe Then, some recently migrated rapidly to Asia, eastward mixed respectively indigenes, Liangzhu-related incoming southward ST Generally, population migration, admixture, contributed complicated patterns geographically

Language: Английский

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Malaria resistance-related biological adaptation and complex evolutionary footprints inferred from one integrative Tai-Kadai-related genomic resource

Heliyon, Journal Year: 2024, Volume and Issue: 10(8), P. e29235 - e29235

Published: April 1, 2024

Pathogen‒host adaptative interactions and complex population demographical processes, including admixture, drift, Darwen selection, have considerably shaped the Neolithic-to-Modern Western Eurasian structure genetic susceptibility to modern human diseases. However, footprints of evolutionary events in East Asia remain unknown due underrepresentation genomic diversity design large-scale studies. We reported one aggregated database genome-wide SNP variations from 796 Tai-Kadai (TK) genomes, that Bouyei first here, explore history, structure, biological features TK people southern China Southeast Asia. found geography-related substructure among using state-of-the-art reconstruction techniques based on allele frequency spectrum haplotype-resolved phased fragments. northern Guizhou harbored TK-dominant ancestry maximized people, Thailand were more influenced by Asians indigenous people. reconstructed fitted admixture models demographic graphs, which showed received gene flow ancient rice farmer-related lineages related Hmong-Mien Austroasiatic millet farmers associated with Sino-Tibetan Biological adaptation focused our identified unique Bouyei, many adaptive signatures conferring Malaria resistance low-rate lipid metabolism. Further enrichment, distribution derived alleles, their correlation incidence further confirmed

Language: Английский

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Population genetic admixture and evolutionary history in the Shandong Peninsula inferred from integrative modern and ancient genomic resources

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: June 18, 2024

Abstract Background Ancient northern East Asians (ANEA) from the Yellow River region, who pioneered millet cultivation, play a crucial role in understanding origins of ethnolinguistically diverse populations modern China and entire landscape deep genetic structure variation discovery Asians. However, direct links between ANEA geographically proximate populations, as well biological adaptive processes involved, remain poorly understood. Results Here, we generated genome-wide SNP data for 264 individuals different Han Shandong. An integrated genomic resource encompassing both ancient was compiled to examine fine-scale population admixture scenarios traits. The reconstruction demographic history hierarchical clustering patterns revealed that Shandong Peninsula share close affinity with ANEA, indicating long-term continuity mobility lower basin since early Neolithic period. Biological signatures, including those related immune metabolic pathways, were identified through analyses haplotype homozygosity allele frequency spectra. These signatures are linked complex traits such height body mass index, which may be associated adaptations cold environments, dietary practices, pathogen exposure. Additionally, trajectories over time network two highly differentiated genes, ABCC11 SLC10A1 , delineated. axillary odor bilirubin metabolism, respectively, illustrate how local can influence diversification Conclusions Our findings provide comprehensive dataset elucidates evolutionary trajectory natural selection signals disease susceptibility Chinese populations. This study serves paradigm integrating spatiotemporally genomes era medicine.

Language: Английский

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Perspectives and opportunities in forensic human, animal, and plant integrative genomics in the Pangenome era

Forensic Science International, Journal Year: 2025, Volume and Issue: 367, P. 112370 - 112370

Published: Jan. 12, 2025

Language: Английский

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YHSeqY3000 panel captures all founding lineages in the Chinese paternal genomic diversity database

BMC Biology, Journal Year: 2025, Volume and Issue: 23(1)

Published: Jan. 21, 2025

The advancements in second-/third-generation sequencing technologies, alongside computational innovations, have significantly enhanced our understanding of the genomic structure Y-chromosomes and their unique phylogenetic characteristics. These researches, despite challenges posed by lack population-scale databases, potential to revolutionize approach high-resolution, population-specific Y-chromosome panels databases for anthropological forensic applications. This study aimed develop highest-resolution Y-targeted panel, utilizing time-stamped, core informative mutations identified from high-coverage sequences YanHuang cohort. panel is intended provide a new tool complex pedigree search paternal biogeographical ancestry inference, as well explore general patterns fine-scale evolutionary history ethnolinguistically diverse Chinese populations. performance East Asian-specific Y-chromosomal including 2999-core SNP variants, was found be robust reliable. YHSeqY3000 designed capture genetic diversity lineages 3500 years ago, identifying 408 terminal 2097 individuals across 41 genetically geographically distinct We substructure that correlating with ancient population migrations expansions. New evidence provided extensive gene flow events between minority ethnic groups Han people, based on integrative Paternal Genomic Diversity Database. work successfully integrated Y-chromosome-related basic science translational applications, emphasizing necessity comprehensively characterizing genomically under-representative particularly important second phase medical or cohorts, where dense sampling strategies are employed.

Language: Английский

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