Kimura Ryosuke

写真a

Title

Associate Professor

Researcher Number(JSPS Kakenhi)

00453712

Current Affiliation Organization 【 display / non-display

  • Duty   University of the Ryukyus   Graduate School of Medicine   Associate Professor  

External Career 【 display / non-display

  • 2004.04
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    2007.03

    JSPS, Postdoctorial fellow  

  • 2007.04
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    2008.12

    Tokai University School of Medicine, Assistant professor  

  • 2009.01
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    2013.03

    University of the Ryukyus, Transdisciplinary Research Organ, Associate Professor  

  • 2013.04
     
     

    University of the Ryukyus, Graduate School of Medicine, Associate Professor  

Affiliated academic organizations 【 display / non-display

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    American Society of Human Genetics 

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    Society of Molecular Biology and Evolution 

Research Interests 【 display / non-display

  • Evolution,Genetics

Research Areas 【 display / non-display

  • Life Science / Physical anthropology

Research Theme 【 display / non-display

  • Genetic and morphological variations in humans

Published Papers 【 display / non-display

  • Polygenic risk score for bipolar disorder associates with divergent thinking and brain structures in the prefrontal cortex.

    Takeuchi H, Kimura R, Tomita H, Taki Y, Kikuchi Y, Ono C, Yu Z, Matsudaira I, Nouchi R, Yokoyama R, Kotozaki Y, Nakagawa S, Hanawa S, Iizuka K, Sekiguchi A, Araki T, Miyauchi CM, Ikeda S, Sakaki K, Dos S Kawata KH, Nozawa T, Yokota S, Magistro D, Imanishi T, Kawashima R

    Human brain mapping ( Human Brain Mapping )    2021.09 [ Peer Review Accepted ]

    Type of publication: Research paper (scientific journal)

     View Summary

    It has been hypothesized that a higher genetic risk of bipolar disorder (BD) is associated with greater creativity. Given the clinical importance of bipolar disorder and the importance of creativity to human society and cultural development, it is essential to reveal their associations and the neural basis of the genetic risk of bipolar disorder to gain insight into its etiology. However, despite the previous demonstration of the associations of polygenic risk score (PRS) of BD and creative jobs, the associations of BD-PRS and creativity measured by the divergent thinking (CMDT) and regional gray matter volume (rGMV) as well as regional white matter volume (rWMV) have not been investigated. Using psychological analyses and whole-brain voxel-by-voxel analyses, we examined these potential associations in 1558 young, typically developing adult students. After adjusting for confounding variables and multiple comparisons, a greater BD-PRS was associated with a greater total CMDT fluency score, and a significant relationship was found in fluency subscores. A greater BD-PRS was also associated with lower total mood disturbance. Neuroimaging analyses revealed that the BD-PRS was associated with greater rGMV in the right inferior frontal gyrus, which is a consistently affected area in BD, as well as a greater rWMV in the left middle frontal gyrus, which has been suggested to play a central role in the increased creativity associated with the risk of BD with creativity. These findings suggest a relationship between the genetic risk of BD and CMDT and prefrontal cortical structures among young educated individuals.

  • Admixture with indigenous people helps local adaptation: admixture-enabled selection in Polynesians.

    Isshiki M, Naka I, Kimura R, Nishida N, Furusawa T, Natsuhara K, Yamauchi T, Nakazawa M, Ishida T, Inaoka T, Matsumura Y, Ohtsuka R, Ohashi J

    BMC ecology and evolution ( BMC Ecology and Evolution )  21 ( 1 ) 179   2021.09 [ Peer Review Accepted ]

    Type of publication: Research paper (scientific journal)

     View Summary

    Background Homo sapiens have experienced admixture many times in the last few thousand years. To examine how admixture affects local adaptation, we investigated genomes of modern Polynesians, who are shaped through admixture between Austronesian-speaking people from Southeast Asia (Asian-related ancestors) and indigenous people in Near Oceania (Papuan-related ancestors). Methods In this study local ancestry was estimated across the genome in Polynesians (23 Tongan subjects) to find the candidate regions of admixture-enabled selection contributed by Papuan-related ancestors. Results The mean proportion of Papuan-related ancestry across the Polynesian genome was estimated as 24.6% (SD = 8.63%), and two genomic regions, the extended major histocompatibility complex (xMHC) region on chromosome 6 and the ATP-binding cassette transporter sub-family C member 11 (ABCC11) gene on chromosome 16, showed proportions of Papuan-related ancestry more than 5 SD greater than the mean (> 67.8%). The coalescent simulation under the assumption of selective neutrality suggested that such signals of Papuan-related ancestry enrichment were caused by positive selection after admixture (false discovery rate = 0.045). The ABCC11 harbors a nonsynonymous SNP, rs17822931, which affects apocrine secretory cell function. The approximate Bayesian computation indicated that, in Polynesian ancestors, a strong positive selection (s = 0.0217) acted on the ancestral allele of rs17822931 derived from Papuan-related ancestors. Conclusions Our results suggest that admixture with Papuan-related ancestors contributed to the rapid local adaptation of Polynesian ancestors. Considering frequent admixture events in human evolution history, the acceleration of local adaptation through admixture should be a common event in humans.

  • Species divergence and repeated ancient hybridization in a Sulawesian lake system.

    Mandagi IF, Kakioka R, Montenegro J, Kobayashi H, Masengi KWA, Inomata N, Nagano AJ, Toyoda A, Ansai S, Matsunami M, Kimura R, Kitano J, Kusumi J, Yamahira K

    Journal of evolutionary biology ( Journal of Evolutionary Biology )    2021.09 [ Peer Review Accepted ]

    Type of publication: Research paper (scientific journal)

     View Summary

    An increasing volume of empirical studies demonstrated that hybridization between distant lineages may have promoted speciation in various taxa. However, the timing, extent and direction of introgressive hybridization remain unknown in many cases. Here, we report a possible case in which repeated hybridization promoted divergence of Oryzias ricefishes (Adrianichthyidae) on Sulawesi, an island of Wallacea. Four Oryzias species are endemic to the Malili Lake system in central Sulawesi, which is composed of five tectonic lakes; of these, one lake is inhabited by two species. Morphological and population genomic analyses of genome-wide single-nucleotide polymorphisms revealed that these two sympatric species are phylogenetically sister to but substantially reproductively isolated from each other. Analyses of admixture and comparison of demographic models revealed that the two sympatric species experienced several substantial introgressions from outgroup populations that probably occurred soon after they had secondary contact with each other in the lake. However, the ratio of migrants from the outgroups was estimated to be different between the two species, which is consistent with the hypothesis that these introgressions aided their divergence or prevented them from forming a hybrid swarm. Repeated lake fragmentations and fusions may have promoted diversification of this freshwater fish species complex that is endemic to this ancient lake system.

  • Whole-Genome Sequencing of a 900-Year-Old Human Skeleton Supports Two Past Migration Events from the Russian Far East to Northern Japan.

    Sato T, Adachi N, Kimura R, Hosomichi K, Yoneda M, Oota H, Tajima A, Toyoda A, Kanzawa-Kiriyama H, Matsumae H, Koganebuchi K, Shimizu KK, Shinoda KI, Hanihara T, Weber A, Kato H, Ishida H

    Genome biology and evolution ( Genome biology and evolution )  13 ( 9 )   2021.09 [ Peer Review Accepted ]

    Type of publication: Research paper (scientific journal)

     View Summary

    Recent studies on paleogenomics have reported some Paleolithic and Neolithic genomes that have provided new insights into the human population history in East and Northeast Asia. However, there remain some cases where more recent migration events need to be examined to elucidate the detailed formation process of local populations. Although the area around northern Japan is one of the regions archaeologically suggested to have been affected by migration waves after the Neolithic period, the genetic source of these migrations are still unclear. Thus, genomic data from such past migrant populations would be highly informative to clarify the detailed formation process of local populations in this region. Here, we report the genome sequence of a 900-year-old adult female (NAT002) belonging to the prehistoric Okhotsk people, who have been considered to be the past migrants to northern Japan after the Neolithic period. We found a close relationship between NAT002 and modern Lower Amur populations and past admixture events between the Amur, Jomon, and Kamchatka ancestries. The admixture dating suggested migration of Amur-related ancestry at approximately 1,600 BP, which is compatible with the archaeological evidence regarding the settlement of the Okhotsk people. Our results also imply migration of Kamchatka-related ancestry at approximately 2,000 BP. In addition, human leukocyte antigen (HLA) typing detected the HLA-B*40 allele, which is reported to increase the risk of arthritis, suggesting the genetic vulnerability of NAT002 to hyperostosis, which was observed around her chest clavicle.

  • Mesozoic origin and 'out-of-India' radiation of ricefishes (Adrianichthyidae).

    Yamahira K, Ansai S, Kakioka R, Yaguchi H, Kon T, Montenegro J, Kobayashi H, Fujimoto S, Kimura R, Takehana Y, Setiamarga DHE, Takami Y, Tanaka R, Maeda K, Tran HD, Koizumi N, Morioka S, Bounsong V, Watanabe K, Musikasinthorn P, Tun S, Yun LKC, Masengi KWA, Anoop VK, Raghavan R, Kitano J

    Biology letters ( Biology Letters )  17 ( 8 ) 20210212   2021.08 [ Peer Review Accepted ]

    Type of publication: Research paper (scientific journal)

     View Summary

    The Indian subcontinent has an origin geologically different from Eurasia, but many terrestrial animal and plant species on it have congeneric or sister species in other parts of Asia, especially in the Southeast. This faunal and floral similarity between India and Southeast Asia is explained by either of the two biogeographic scenarios, 'into-India' or 'out-of-India'. Phylogenies based on complete mitochondrial genomes and five nuclear genes were undertaken for ricefishes (Adrianichthyidae) to examine which of these two biogeographic scenarios fits better. We found that Oryzias setnai, the only adrianichthyid distributed in and endemic to the Western Ghats, a mountain range running parallel to the western coast of the Indian subcontinent, is sister to all other adrianichthyids from eastern India and Southeast-East Asia. Divergence time estimates and ancestral area reconstructions reveal that this western Indian species diverged in the late Mesozoic during the northward drift of the Indian subcontinent. These findings indicate that adrianichthyids dispersed eastward 'out-of-India' after the collision of the Indian subcontinent with Eurasia, and subsequently diversified in Southeast-East Asia. A review of geographic distributions of 'out-of-India' taxa reveals that they may have largely fuelled or modified the biodiversity of Eurasia.

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Other Papers 【 display / non-display

  • 琉球列島人の集団ゲノム解析

    松波雅俊, 今村美菜子, 小金渕佳江, 木村亮介, 堀越桃子, 寺尾知可史, 鎌谷洋一郎, 石田肇, 前田士郎

    日本進化学会大会プログラム・講演要旨集(Web)   21st   105 (WEB ONLY)   2019.08

     

    J-GLOBAL

  • SEARCH FOR SIGNATURES OF HUMAN GENETIC ADAPTATIONS IN EAST ASIA

    KIMURA Ryosuke

    Japanese Journal of Physiological Anthropology ( Japan Society of Physiological Anthropology )  24 ( 2 ) 87 - 91   2019  [Refereed]

     

    DOI

  • Just-completed sympatric speciation in an ancient lake

    NOBU Sutra, MOKODONGAN Daniel Frikli, NAGANO Atsushi J, MATSUNAMI Masatoshi, KIMURA Ryosuke, YAMAHIRA Kazunori

    日本生態学会大会講演要旨(Web)   65th   ROMBUNNO.P2‐126 (WEB ONLY)   2018

     

    J-GLOBAL

  • Highly-structured freshwater fish populations within a single river system

    MANDAGI Ixchel Feibie, MANDAGI Ixchel Feibie, LAWELLE Sjamsu Alam, MASENGI Kawilarang, Warouw Alex, MOKODONGAN Daniel Frikli, NAGANO Atsushi J, MATSUNAMI Masatoshi, KIMURA Ryosuke, YAMAHIRA Kazunori

    日本生態学会大会講演要旨(Web)   65th   ROMBUNNO.P2‐125 (WEB ONLY)   2018

     

    J-GLOBAL

  • 口唇裂をもたらすIRF6遺伝子多型は東アジア健常集団における口唇鼻形態と関連する

    冨田 大介, 山口 徹太郎, 中脇 貴俊, 疋田 悠, Adel Mohamed, 芳賀 秀郷, 高橋 正皓, 木村 亮介, 槇 宏太郎

    東京矯正歯科学会雑誌 ( 東京矯正歯科学会 )  27 ( 2 ) 142 - 142   2017.12

     

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