Reconstruct recent multi-population migration history by using identical-by-descent sharing

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外文摘要：Identical-by-descent(IBD)is a fundamental genomic characteristic in population genetics and has been widely used for population history reconstruction.However,limited by the nature of IBD,which could only capture the relationship between two individuals/haplotypes,existing IBD-based history inference is con-strained to two populations.In this study,we propose a framework by leveraging IBD sharing in multi-population and develop a method,MatrixIBD,to reconstruct recent multi-population migration history.Specifically,we employ the structured coalescent theory to precisely model the genealogical process and then estimate the IBD sharing across multiple populations.Within our model,we establish a theoretical connection between migration history and IBD sharing.Our method is rigorously evaluated through sim-ulations,revealing its remarkable accuracy and robustness.Furthermore,we apply MatrixIBD to Central and South Asia in the Human Genome Diversity Project and successfully reconstruct the recent migration history of three closely related populations in South Asia.By taking into account the IBD sharing across multiple populations simultaneously,MatrixIBD enables us to attain clearer and more comprehensive in-sights into the history of regions characterized by complex migration dynamics,providing a holistic perspective on intricate patterns embedded within the recent population migration history.

外文关键词：

Population geneticsIBD sharingMigration historyStructured coalescent theoryGene flow

作者：

Wenxiao Zhang、Kai Yuan、Ru Wen、Haifang Li、Xumin Ni

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作者单位：

School of Mathematics and Statistics,Beijing Jiaotong University,Beijing 100044,China

The Stanley Center for Psychiatric Research,Broad Institute of MIT and Harvard,Cambridge,MA 02142,USA

Baidu Incorporated,Beijing 100085,China

基金：

Fundamental Research Funds for the Central UniversitiesNational Natural Science Foundation of China(NSFC)GrantBeijing Natural Science Foundation GrantStanley Center for Psychiatric Research at Broad Institute

项目编号：

2023JBMC01112271026L222051

出版年：

2024

DOI：

10.1016/j.jgg.2024.02.006

遗传学报

中国遗传学会中国科学院遗传与发育生物学研究所

遗传学报

CSTPCD

影响因子：0.821

ISSN：1673-8527

年,卷(期)：2024.51(6)