A5081149374- Forensic and Genetic Research
- Archaeology and ancient environmental studies
- Forensic Anthropology and Bioarchaeology Studies
- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- Pacific and Southeast Asian Studies
- Pleistocene-Era Hominins and Archaeology
- Isotope Analysis in Ecology
- Yersinia bacterium, plague, ectoparasites research
- Identification and Quantification in Food
- Human-Animal Interaction Studies
- Molecular Biology Techniques and Applications
- Rabies epidemiology and control
- Paleopathology and ancient diseases
- Wildlife Ecology and Conservation
- Genetic Associations and Epidemiology
- RNA modifications and cancer
- Linguistics and Cultural Studies
- Ancient and Medieval Archaeology Studies
- Epigenetics and DNA Methylation
- Infectious Diseases and Tuberculosis
- Geology and Paleoclimatology Research
- Probiotics and Fermented Foods
- Eurasian Exchange Networks
- Marine and environmental studies
Kanazawa University
2016-2025
Kitasato University
2015-2025
Japan Society for the Promotion of Science
2015
The University of Tokyo
2010-2014
The human occupation history of Southeast Asia (SEA) remains heavily debated. Current evidence suggests that SEA was occupied by Hòabìnhian hunter-gatherers until ~4000 years ago, when farming economies developed and expanded, restricting foraging groups to remote habitats. Some argue agricultural development indigenous; others favor the "two-layer" hypothesis posits a southward expansion farmers giving rise present-day Asian genetic diversity. By sequencing 26 ancient genomes (25 from SEA,...
We generated Japanese Encyclopedia of Whole-Genome/Exome Sequencing Library (JEWEL), a high-depth whole-genome sequencing dataset comprising 3256 individuals from across Japan. Analysis JEWEL revealed genetic characteristics the population that were not discernible using microarray data. First, rare variant–based analysis an unprecedented fine-scale structure. Together with genetics analysis, present-day can be decomposed into three ancestral components. Second, we identified unreported...
Denisovans are an extinct hominin group defined by ancient genomes of Middle to Late Pleistocene fossils from southern Siberia. Although genomic evidence suggests their widespread distribution throughout eastern Asia and possibly Oceania, so far only a few the Altai Tibet confidently identified molecularly as Denisovan. We mandible (Penghu 1) Taiwan (10,000 70,000 years ago or 130,000 190,000 ago) belonging male Denisovan applying protein analysis. retrieved 4241 amino acid residues two...
Abstract Anatomically modern humans reached East Asia more than 40,000 years ago. However, key questions still remain unanswered with regard to the route(s) and number of wave(s) in dispersal into Eurasia. Ancient genomes at edge region may elucidate a detailed picture peopling Here, we analyze whole-genome sequence 2,500-year-old individual (IK002) from main-island Japan that is characterized typical Jomon culture. The phylogenetic analyses support multiple waves migration, IK002 forming...
Prehistoric Japan underwent rapid transformations in the past 3000 years, first from foraging to wet rice farming and then state formation. A long-standing hypothesis posits that mainland Japanese populations derive dual ancestry indigenous Jomon hunter-gatherer-fishers succeeding Yayoi farmers. However, genomic impact of agricultural migration subsequent sociocultural changes remains unclear. We report 12 ancient genomes pre- postfarming periods. Our analysis finds maintained a small...
Poultry are farmed globally, with chicken (Gallus gallus domesticus) being the leading domesticated species. Although domestic bones have been reported from some Early Holocene sites, their origin is controversial and there no reliable bone older than Middle Holocene. Here, we studied goose Tianluoshan—a 7,000-y-old rice cultivation village in lower Yangtze River valley, China—using histological, geochemical, biochemical, morphological approaches. Histological analysis revealed that one of...
Nine human remains were recovered from Shiraho-Saonetabaru Cave on Ishigaki Island, Okinawa Prefecture, Japan, between 2007 and 2009. Six of the nine samples produced well-preserved biogenic collagen, which was submitted to radiocarbon dating by accelerator mass spectrometry. Three (Nos. 2, 4, 8) fossil chamber dated 16 20 ka BP, can clearly be assigned Late Pleistocene. One animal bone same treated measured for independently also great antiquity (c. 12 BP). These dates are first concrete...
Abstract The globalization of food production and distribution has homogenized human dietary patterns irrespective geography, but it is uncertain how far this homogenization progressed. This study investigated the carbon nitrogen isotope ratios in scalp hair 1305 contemporary Japanese found values −19.4 ± 0.6‰ 9.4 (mean SD), respectively. Within Japan, inter-regional differences for both was less than 1‰, which indicates low heterogeneity among prefectural divisions. showed a significant...
A tripartite structure for the genetic origin of Japanese populations states that present-day are descended from three main ancestors: (1) indigenous Jomon hunter-gatherers; (2) a Northeast Asian component arrived during agrarian Yayoi period; and (3) major influx East ancestry in imperial Kofun period. However, heterogeneity observed different regions archipelago highlights need to assess applicability suitability this model. Here, we analyse historic genomes southern Ryukyu Islands, which...
The tripartite ancestral structure is a recently proposed model for the genetic origin of modern Japanese, comprising indigenous Jomon hunter-gatherers and two additional continental ancestors from Northeast Asia East Asia. To investigate impact on phenotypic variation today, we conducted biobank-scale analyses by merging Biobank Japan (BBJ; n = 171,287) with ancient Japanese Eurasian genomes (n 22). We demonstrate applicability to populations throughout archipelago, an extremely strong...
The life history of a female individual skeleton (ST61) from the Edo period (AD 1603–1868) was investigated by using multi-tissue and multi-isotope analyses. Her gravestone historical documents revealed that ST61 grandmother chief retainer Akashi clan who died in 1732 aged 77 years. Radiocarbon sulfur stable isotope analyses indicated contribution marine foods to diet relatively low (17.2% protein) despite higher nitrogen ratio rib bone collagen. Carbon analysis serial section tooth dentin...
Recent archaeogenomic studies in Mongolia have elucidated the genetic origins of people from Xiongnu and Mongol eras, but left Medieval period between them only tangentially explored. Due to this dearth ancient genomes, dynamic history with rise fall numerous polities still lacks a genomic perspective. To fill knowledge gap, here we report whole-genome sequences nine individuals eastern Mongolia, who were excavated two nearby cemeteries, Gurvan Dov Tavan Khailaast. They are distributed...
ABSTRACT Previous genomic studies understanding the dispersal of Homo sapiens have suggested that present-day East Eurasians and Native Americans can trace their ancestry to migrations from Southeast Asia. However, ineluctable adaptations during Last Glacial Maximum (LGM) remain unclear. By analyzing 42 genomes up 30-fold coverage prehistoric hunter-gatherers, Jomon, we reveal descent Upper Paleolithic (UP) foragers who migrated isolated in Japanese archipelago Late Pleistocene. We provide...
Highlights•Genomic imputation accurately brings ancient Asian genomes to higher coverages•Selection scans of imputed reveal adaptive evolution in the Jomon•Well-known variants Asia (EDAR/ADH1B/ALDH2) emerged post-agricultureSummaryEarly modern humans lived as hunter-gatherers for millennia before agriculture, yet genetic adaptations these populations remain a mystery. Here, we investigate selection hunter-gatherer-fisher Jomon and contrast pre- post-agricultural adaptation Japanese...
Several cases that do not fit the agricultural adaptation model, in which people's health deteriorated with shift from hunting-gathering to farming, have been reported, such as introduction of rice agriculture during Yayoi Period Japan and Iron Age Southeast Asia, where was maintained or improved. However, farmers homeland areas has rarely reported. This study aims clarify frequency degree stress markers inscribed on Neolithic human bones Yangtze River Delta, one origins agriculture,...
Two complete dog skeletons were recovered during archeological excavations from 1961 to 1970 at the Kamikuroiwa rock shelter, a site that yielded series of cultural entities Late Pleistocene, Incipient Jomon, and Early Jomon periods. Since two dogs buried close human skeletons, it was thought these had been by people, hence provided oldest direct evidence Canis domestication in Japan. However, stratigraphic information contexts are incomplete due lack detailed excavation reports technical...
Abstract Anatomical modern humans reached East Asia by >40,000 years ago (kya). However, key questions still remain elusive with regard to the route(s) and number of wave(s) in dispersal into Eurasia. Ancient genomes at edge Eurasia may shed light on detail picture peopling Here, we analyze whole-genome sequence a 2.5 kya individual (IK002) characterized typical Jomon culture that started Japanese archipelago >16 kya. The phylogenetic analyses support multiple waves migration, IK002...
Phylogenetic relationships among three subspecies of banteng, Burma banteng Bos javanicus birmanicus in mainland Southeast Asia, Javan Java, and Bornean lowi Borneo, the presence/absence interbreeding between wild domestic cattle Sabah, Malaysia, were investigated by partial sequences cytochrome b D-loop mitochondrial DNA. The results show that genetic distance are relatively close to gaur gaurus/gayal frontalis (the b, 0.004–0.025; D-loop, 0.012–0.021) followed 0.027–0.035; 0.040–0.045),...
Rationale Foodcrust, the charred deposit adhering to surface of containers, is a possible source information on function ancient vessels and subsistence prehistoric humans. While carbon isotope ratios in those materials are useful detecting usage C 4 plants, reliability nitrogen isotopic signatures has not been fully investigated. Methods The validity bulk previously investigated coastal or riverine environments, where multiple resources from terrestrial aquatic ecosystems were available,...
Here we report the complete mitochondrial genome of Bornean banteng Bos javanicus lowi (Cetartiodactyla, Bovidae), which was determined using next-generation sequencing. The is 16,344 bp in length containing 13 protein-coding genes, 21 tRNAs and 2 rRNAs. It shows typical pattern bovine arrangement. Phylogenetic tree analysis mtDNA sequences showed that more closely related to gaur than other subspecies. Divergence dating indicated diverged from their common ancestor approximately 5.03...