Late Jomon Male and Female Genome Sequences from the Funadomari Site in Hokkaido, Japan
ANTHROPOLOGICAL SCIENCE Vol. 127(2), 83–108, 2019 Late Jomon male and female genome sequences from the Funadomari site in Hokkaido, Japan Hideaki KANZAWA-KIRIYAMA1*, Timothy A. JINAM2, Yosuke KAWAI3, Takehiro SATO4, Kazuyoshi HOSOMICHI4, Atsushi TAJIMA4, Noboru ADACHI5, Hirofumi MATSUMURA6, Kirill KRYUKOV7, Naruya SAITOU2, Ken-ichi SHINODA1 1Department of Anthropology, National Museum of Nature and Science, Tsukuba City, Ibaragi 305-0005, Japan 2Division of Population Genetics, National Institute of Genetics, Mishima City, Shizuoka 411-8540, Japan 3Department of Human Genetics, Graduate School of Medicine, The University of Tokyo, Bunkyo-ku, Tokyo 113-0033, Japan 4Department of Bioinformatics and Genomics, Graduate School of Medical Sciences, Kanazawa University, Kanazawa City, Ishikawa 920-0934, Japan 5Department of Legal Medicine, Interdisciplinary Graduate School of Medicine and Engineering, University of Yamanashi, Chuo City, Yamanashi 409-3898, Japan 6Second Division of Physical Therapy, School of Health Sciences, Sapporo Medical University, Sapporo City, Hokkaido 060-0061, Japan 7Department of Molecular Life Science, School of Medicine, Tokai University, Isehara City, Kanagawa 259-1193, Japan Received 18 April 2018; accepted 15 April 2019 Abstract The Funadomari Jomon people were hunter-gatherers living on Rebun Island, Hokkaido, Japan c. 3500–3800 years ago. In this study, we determined the high-depth and low-depth nuclear ge- nome sequences from a Funadomari Jomon female (F23) and male (F5), respectively. We genotyped the nuclear DNA of F23 and determined the human leukocyte antigen (HLA) class-I genotypes and the phenotypic traits. Moreover, a pathogenic mutation in the CPT1A gene was identified in both F23 and F5. The mutation provides metabolic advantages for consumption of a high-fat diet, and its allele fre- quency is more than 70% in Arctic populations, but is absent elsewhere.
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