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Ancient DNA reveals the population interactions and a Neolithic patrilineal community in Northern Yangtze Region

Author

Listed:
  • Tingyu Yang

    (Peking University
    Peking University)

  • Jianing He

    (Peking University)

  • Chunmei Li

    (Peking University
    Yunnan University)

  • Chao Ning

    (Peking University)

  • Tianming Zhang

    (Peking University)

  • Jincheng Wang

    (Peking University)

  • Hai Zhang

    (Peking University)

  • Guanbo Wang

    (Peking University
    Shenzhen Bay Laboratory)

  • Xiaowen Jia

    (Peking University)

  • Chi Zhang

    (Peking University)

  • Shi Yan

    (Minzu University of China)

  • Xiannian Zhang

    (Peking University)

  • Fan Wu

    (Peking University)

  • Chaodong Wu

    (Peking University)

  • Xiaohong Wu

    (Peking University)

  • Yuhong Pang

    (Peking University)

  • Yanyi Huang

    (Peking University
    Peking University
    Shenzhen Bay Laboratory
    Peking University)

Abstract

The scarcity of ancient genomes of early rice cultivators has hindered our understanding of their genetic profiles and dynamic interactions with millet cultivators. In this study, we analyzed 58 ancient genomes from Baligang, a long-term settlement situated on the northern rim of the Middle Yangtze River Basin, spanning from the Middle Neolithic to the Late Bronze Age. This chronostratified genetic dataset offers comprehensive genomic insights into populations engaged in early rice cultivation, enhancing our understanding of East Asian demographic history. Our study revealed that Baligang experienced successive waves of admixture over time, with ~4,200 BP as a critical transition point, marked by a significant genomic influx of southern East Asian populations. We also identify the detailed kinship relations within multi-generational secondary burial and the existence of patrilineal communities dating back five millennia, offering fresh perspectives on early social structure in prehistoric China.

Suggested Citation

  • Tingyu Yang & Jianing He & Chunmei Li & Chao Ning & Tianming Zhang & Jincheng Wang & Hai Zhang & Guanbo Wang & Xiaowen Jia & Chi Zhang & Shi Yan & Xiannian Zhang & Fan Wu & Chaodong Wu & Xiaohong Wu &, 2025. "Ancient DNA reveals the population interactions and a Neolithic patrilineal community in Northern Yangtze Region," Nature Communications, Nature, vol. 16(1), pages 1-14, December.
  • Handle: RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-63743-1
    DOI: 10.1038/s41467-025-63743-1
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    1. Swapan Mallick & Heng Li & Mark Lipson & Iain Mathieson & Melissa Gymrek & Fernando Racimo & Mengyao Zhao & Niru Chennagiri & Susanne Nordenfelt & Arti Tandon & Pontus Skoglund & Iosif Lazaridis & Sri, 2016. "The Simons Genome Diversity Project: 300 genomes from 142 diverse populations," Nature, Nature, vol. 538(7624), pages 201-206, October.
    2. Harald Ringbauer & John Novembre & Matthias Steinrücken, 2021. "Parental relatedness through time revealed by runs of homozygosity in ancient DNA," Nature Communications, Nature, vol. 12(1), pages 1-11, December.
    3. Nick Patterson & Alkes L Price & David Reich, 2006. "Population Structure and Eigenanalysis," PLOS Genetics, Public Library of Science, vol. 2(12), pages 1-20, December.
    4. Wolfgang Haak & Iosif Lazaridis & Nick Patterson & Nadin Rohland & Swapan Mallick & Bastien Llamas & Guido Brandt & Susanne Nordenfelt & Eadaoin Harney & Kristin Stewardson & Qiaomei Fu & Alissa Mittn, 2015. "Massive migration from the steppe was a source for Indo-European languages in Europe," Nature, Nature, vol. 522(7555), pages 207-211, June.
    5. repec:plo:pgen00:1007979 is not listed on IDEAS
    6. Maanasa Raghavan & Pontus Skoglund & Kelly E. Graf & Mait Metspalu & Anders Albrechtsen & Ida Moltke & Simon Rasmussen & Thomas W. Stafford Jr & Ludovic Orlando & Ene Metspalu & Monika Karmin & Kristi, 2014. "Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans," Nature, Nature, vol. 505(7481), pages 87-91, January.
    7. Chao Ning & Tianjiao Li & Ke Wang & Fan Zhang & Tao Li & Xiyan Wu & Shizhu Gao & Quanchao Zhang & Hai Zhang & Mark J. Hudson & Guanghui Dong & Sihao Wu & Yanming Fang & Chen Liu & Chunyan Feng & Wei L, 2020. "Ancient genomes from northern China suggest links between subsistence changes and human migration," Nature Communications, Nature, vol. 11(1), pages 1-9, December.
    8. Daniel M. Fernandes & Kendra A. Sirak & Harald Ringbauer & Jakob Sedig & Nadin Rohland & Olivia Cheronet & Matthew Mah & Swapan Mallick & Iñigo Olalde & Brendan J. Culleton & Nicole Adamski & Rebecca , 2021. "A genetic history of the pre-contact Caribbean," Nature, Nature, vol. 590(7844), pages 103-110, February.
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