[{"data":1,"prerenderedAt":-1},["ShallowReactive",2],{"doc-detail-45869-en":3,"doc-seo-45869-105":30,"detail-sidebar-cat-0-en-105":91},{"code":4,"msg":5,"data":6},0,"success",{"doc_id":7,"user_id":8,"nickname":9,"user_avatar":10,"doc_module":4,"category_id":11,"category_name":12,"doc_title":13,"doc_description":14,"doc_content":15,"file_id":16,"file_url":17,"file_type":18,"file_size":19,"view_count":20,"is_deleted":4,"is_public":21,"is_downloadable":21,"audit_status":21,"page_count":22,"language":23,"language_code":24,"site_id":25,"html_lang":24,"table_of_contents":26,"faqs":27,"seo_title":13,"seo_description":14,"update_tm":28,"read_time":29},45869,1099514068035,"Ezra","https://ap-avatar.wpscdn.com/davatar_276721f389ce27ea32af1340a28f341c",8,"Research & Report","The Fine-Scale Genetic Structure and Evolution of the Japanese Population","Contemporary Japanese populations comprise three genetically distinct groups—Hondo, Ryukyu, and Ainu. Principal-component analysis separates the groups clearly, yet Hondo individuals form an almost indistinguishable cluster. To resolve fine-scale structure, haplotype-based statistical methods analyze genome-wide SNP data from 1,600 Japanese individuals across eight regions, combined with 26 other Asian populations. Results identify nine geographically concordant genetic clusters, ancestry contributions from Korean and Han Chinese clusters, and evidence for dated admixture.","OPEN ACCESS  \nCitation: Takeuchi F, Katsuya T, Kimura R, Nabika T, Isomura M, Ohkubo T, et al. (2017) The finescale genetic structure and evolution of the Japanese population. PLoS ONE 12(11):  \ne0185487 . [https://doi.org/10.1371/journal](https://doi.org/10.1371/journal). pone.0185487  \nEditor: Francesc Calafell, Universitat Pompeu Fabra, SPAIN  \nReceived: December 19, 2016  \nAccepted: September 13, 2017  \nPublished: November 1, 2017  \nCopyright: © 2017 Takeuchi et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.  \nData Availability Statement: The Asian Diversity Project data have been deposited at the European Genome-phenome Archive under the accession number EGAS00001002100. The URLs for data and software presented herein are as follows:  \nEuropean Genome-phenome Archive, [https://ega](https://ega)[archive.org](archive.org); FigTree program, [http://tree.bio.ed.ac](http://tree.bio.ed.ac). uk/software/; HapMap project, [http://hapmap.ncbi](http://hapmap.ncbi). [nlm.nih.gov/](nlm.nih.gov/); Human Genome Diversity Project, [http://www.hagsc.org/hgdp/files.htm](http://www.hagsc.org/hgdp/files.html)[l](http://www.hagsc.org/hgdp/files.html); Jorde Lab, [http://jorde-lab.genetics.utah.edu/?page_id=23](http://jorde-lab.genetics.utah.edu/?page_id=23); R software, [http://www.r-project.org/](http://www.r-project.org/. Al)[. Al](http://www.r-project.org/. Al)l additional  \nRESEARCH ARTICLE  \nThe fine-scale genetic structure and evolution of the Japanese population  \nFumihiko Takeuchi1 *, Tomohiro Katsuya2, Ryosuke Kimura3, Toru Nabika4, Minoru Isomura4, Takayoshi Ohkubo5, Yasuharu Tabara6, Ken Yamamoto7, Mitsuhiro Yokota8, Xuanyao Liu9,10, Woei-Yuh Saw9,11, Dolikun Mamatyusupu12, Wenjun Yang13, Shuhua Xu14,15,16, Japanese Genome Variation Consortium¶, YikYing Teo1,9,10,11,17,18☯, Norihiro Kato1☯*  \n1 Department of Gene Diagnostics and Therapeutics, National Center for Global Health and Medicine, Tokyo, Japan, 2 Department of Clinical Gene Therapy, Osaka University Graduate School of Medicine, Suita, Japan, 3 Department of Human Biology and Anatomy, Graduate School of Medicine, University of the Ryukyus, Nishihara-cho, Japan, 4 Department of Functional Pathology, Shimane University School of Medicine, Izumo, Japan, 5 Department of Hygiene and Public Health, Teikyo University School of Medicine, Tokyo, Japan, 6 Center for Genomic Medicine, Kyoto University Graduate School of Medicine, Kyoto, Japan, 7 Department of Medical Chemistry, Kurume University School of Medicine, Kurume, Japan, 8 Department of Genome Science, School of Dentistry, Aichi Gakuin University, Nagoya, Japan, 9 Saw Swee Hock School of Public Health, National University of Singapore, Singapore, 10 NUS Graduate School for Integrative Science and Engineering, National University of Singapore, Singapore, Singapore, 11 Life Sciences Institute, National University of Singapore, Singapore, Singapore, 12 College of the Life Sciences and Technology, Xinjiang University, Urumqi, China, 13 Key Laboratory of Reproduction and Heredity of Ningxia Region, Ningxia Medical University, Yinchuan, Ningxia, China, 14 Max Planck Independent Research Group on Population Genomics, Chinese Academy of Sciences and Max Planck Society Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences Shanghai, China, 15 School of Life Sciences and Technology, ShanghaiTech University, Shanghai, China,  \n16 Collaborative Innovation Center of Genetics and Development, Shanghai, China, 17 Genome Institute of Singapore, Agency for Science, Technology and Research, Singapore, Singapore, 18 Department of Statistics and Applied Probability, National University of Singapore, Singapore, Singapore  \n☯ These authors contributed equally to this work.  \n¶ Membership of the ","cbCaivBDPXEjniNH","https://ap.wps.com/l/cbCaivBDPXEjniNH","pdf",8205533,2,1,28,"English","en",105,"# Abstract\n# Research article metadata\n## Publication information\n## Data availability","[{\"question\":\"What are the three genetically distinct groups within contemporary Japanese populations?\",\"answer\":\"The study identifies Hondo, Ryukyu, and Ainu as three genetically distinct groups.\"},{\"question\":\"How was fine-scale genetic structure investigated in the paper?\",\"answer\":\"The researchers used haplotype-based statistical methods on genome-wide SNP data from 1,600 Japanese individuals sampled from eight regions.\"},{\"question\":\"What patterns did the study find regarding ancestry and genetic differentiation?\",\"answer\":\"Japanese individuals formed nine genetic clusters with strong geographic concordance; major ancestry components align with Korean and Han Chinese clusters, with dated admixture detected. Differentiation between Ryukyu and Hondo is suggested to involve positive selection, while Hondo-cluster differentiation appears driven mainly by genetic drift.\"}]",1783467684,71,{"code":4,"msg":31,"data":32},"ok",{"site_id":25,"language":24,"slug":33,"title":13,"keywords":34,"description":14,"schema_data":35,"social_meta":86,"head_meta":88,"extra_data":90,"updated_unix":28},"the-fine-scale-genetic-structure-and-evolution-of-the-japanese-population","",{"@graph":36,"@context":85},[37,53,68],{"@type":38,"itemListElement":39},"BreadcrumbList",[40,44,47,50],{"item":41,"name":42,"@type":43,"position":21},"https://docshare.wps.com","Home","ListItem",{"item":45,"name":46,"@type":43,"position":20},"https://docshare.wps.com/document/","Document",{"item":48,"name":12,"@type":43,"position":49},"https://docshare.wps.com/document/research-report/",3,{"item":51,"name":13,"@type":43,"position":52},"https://docshare.wps.com/document/the-fine-scale-genetic-structure-and-evolution-of-the-japanese-population/45869/",4,{"url":51,"name":13,"@type":54,"author":55,"headline":13,"publisher":57,"fileFormat":60,"inLanguage":24,"description":14,"dateModified":61,"datePublished":62,"encodingFormat":60,"isAccessibleForFree":63,"interactionStatistic":64},"DigitalDocument",{"name":9,"@type":56},"Person",{"url":41,"name":58,"@type":59},"DocShare","Organization","application/pdf","2026-07-17","2026-07-07",true,{"@type":65,"interactionType":66,"userInteractionCount":20},"InteractionCounter",{"@type":67},"ViewAction",{"@type":69,"mainEntity":70},"FAQPage",[71,77,81],{"name":72,"@type":73,"acceptedAnswer":74},"What are the three genetically distinct groups within contemporary Japanese populations?","Question",{"text":75,"@type":76},"The study identifies Hondo, Ryukyu, and Ainu as three genetically distinct groups.","Answer",{"name":78,"@type":73,"acceptedAnswer":79},"How was fine-scale genetic structure investigated in the paper?",{"text":80,"@type":76},"The researchers used haplotype-based statistical methods on genome-wide SNP data from 1,600 Japanese individuals sampled from eight regions.",{"name":82,"@type":73,"acceptedAnswer":83},"What patterns did the study find regarding ancestry and genetic differentiation?",{"text":84,"@type":76},"Japanese individuals formed nine genetic clusters with strong geographic concordance; major ancestry components align with Korean and Han Chinese clusters, with dated admixture detected. Differentiation between Ryukyu and Hondo is suggested to involve positive selection, while Hondo-cluster differentiation appears driven mainly by genetic drift.","https://schema.org",{"og:url":51,"og:type":87,"og:title":13,"og:site_name":58,"og:description":14},"article",{"robots":89,"canonical":51},"index,follow",{"doc_id":7,"site_id":25},{"code":4,"msg":5,"data":92},[93,97,101,105,110,115,120,123,128,131,135],{"id":21,"doc_module":4,"doc_module_name":46,"category_name":94,"show_sort_weight":95,"slug":96},"Story & Novel",90,"story-novel",{"id":20,"doc_module":4,"doc_module_name":46,"category_name":98,"show_sort_weight":99,"slug":100},"Literature",80,"literature",{"id":52,"doc_module":4,"doc_module_name":46,"category_name":102,"show_sort_weight":103,"slug":104},"Exam",70,"exam",{"id":106,"doc_module":4,"doc_module_name":46,"category_name":107,"show_sort_weight":108,"slug":109},5,"Comic",60,"comic",{"id":111,"doc_module":4,"doc_module_name":46,"category_name":112,"show_sort_weight":113,"slug":114},6,"Technology",50,"technology",{"id":116,"doc_module":4,"doc_module_name":46,"category_name":117,"show_sort_weight":118,"slug":119},7,"Healthcare",40,"healthcare",{"id":11,"doc_module":4,"doc_module_name":46,"category_name":12,"show_sort_weight":121,"slug":122},30,"research-report",{"id":124,"doc_module":4,"doc_module_name":46,"category_name":125,"show_sort_weight":126,"slug":127},9,"Religion & Spirituality",20,"religion-spirituality",{"id":126,"doc_module":4,"doc_module_name":46,"category_name":129,"show_sort_weight":126,"slug":130},"World Cup","world-cup",{"id":132,"doc_module":4,"doc_module_name":46,"category_name":133,"show_sort_weight":132,"slug":134},10,"Lifestyle","lifestyle",{"id":136,"doc_module":4,"doc_module_name":46,"category_name":137,"show_sort_weight":106,"slug":138},19,"General","general"]