scholarly journals Jomon genome sheds light on East Asian population history

2019 ◽  
Author(s):  
Takashi Gakuhari ◽  
Shigeki Nakagome ◽  
Simon Rasmussen ◽  
Morten Allentoft ◽  
Takehiro Sato ◽  
...  
Keyword(s):  
Southeast Asia ◽  
East Asia ◽  
Phylogenetic Analyses ◽  
Asian Population ◽  
Population History ◽  
Whole Genome Sequence ◽  
Japanese Archipelago ◽  
Taiwan Aborigines ◽  
The Japanese Archipelago ◽  
Shed Light

AbstractAnatomical modern humans reached East Asia by >40,000 years ago (kya). However, key questions still remain elusive with regard to the route(s) and the number of wave(s) in the dispersal into East Eurasia. Ancient genomes at the edge of East Eurasia may shed light on the detail picture of peopling to East Eurasia. Here, we analyze the whole-genome sequence of a 2.5 kya individual (IK002) characterized with a typical Jomon culture that started in the Japanese archipelago >16 kya. The phylogenetic analyses support multiple waves of migration, with IK002 forming a lineage basal to the rest of the ancient/present-day East Eurasians examined, likely to represent some of the earliest-wave migrants who went north toward East Asia from Southeast Asia. Furthermore, IK002 has the extra genetic affinity with the indigenous Taiwan aborigines, which may support a coastal route of the Jomon-ancestry migration from Southeast Asia to the Japanese archipelago. This study highlight the power of ancient genomics with the isolated population to provide new insights into complex history in East Eurasia.

The enigmatic groundwater amphipod Awacaris kawasawai revisited: synonymisation of the genus Sternomoera, with molecular phylogenetic analyses of Awacaris and Sternomoera species (Crustacea : Amphipoda : Pontogeneiidae)

2017 ◽  
Vol 31 (2) ◽  
pp. 125 ◽  
Author(s):  
Ko Tomikawa ◽  
Masaki Kyono ◽  
Keiko Kuribayashi ◽  
Takafumi Nakano
Keyword(s):  
Phylogenetic Analysis ◽  
Phylogenetic Analyses ◽  
Taxonomic Status ◽  
28S Rrna ◽  
Ancestral State ◽  
Cryptic Diversity ◽  
Japanese Archipelago ◽  
Molecular Phylogenetic ◽  
The Japanese Archipelago ◽  
Kochi Prefecture

Amphipod crustaceans are dominant in subterranean habitats, and members of eight genera are endemic to groundwater environments in the Japanese Archipelago. The taxonomic status of two of these genera remains unclear, because their original descriptions were incomplete. The descriptions of the enigmatic subterranean monotypic genus Awacaris and its type species, A. kawasawai Uéno, 1971, are revisited here. Awacaris kawasawai was originally described based on specimens from a subterranean stream at Himise Cave, Tokushima Prefecture, Shikoku, Japan. Recently, a new population of A. kawasawai was found at Saruta Cave, Kochi Prefecture, Shikoku. Detailed observation of the newly collected specimens reveals the presence of sternal gills, which is the diagnostic character of the pontogeneiid genus Sternomoera, making the validity of Sternomoera open to question. Phylogenetic analyses using nuclear 28S rRNA and mitochondrial cytochrome c oxidase subunit I markers demonstrate that A. kawasawai forms a well-supported clade with the subterranean S. morinoi Tomikawa and Ishimaru, 2014. In addition, phylogenetic analysis reveals cryptic diversity in epigean species of Sternomoera. Ancestral state reconstruction suggests that catadromous Sternomoera species have evolved from freshwater ancestors. Based on our morphological and phylogenetic analysis of Awacaris and Sternomoera species, it is concluded here that Sternomoera should be treated as a subjective junior synonym of Awacaris.

scholarly journals Ancient Jomon genome sequence analysis sheds light on migration patterns of early East Asian populations

2020 ◽  
Vol 3 (1) ◽  
Author(s):  
Takashi Gakuhari ◽  
Shigeki Nakagome ◽  
Simon Rasmussen ◽  
Morten E. Allentoft ◽  
Takehiro Sato ◽  
...  
Keyword(s):  
East Asia ◽  
Genome Sequence ◽  
Phylogenetic Analyses ◽  
Human Migration ◽  
Whole Genome Sequence ◽  
Migration Patterns ◽  
Asian Populations ◽  
Anatomically Modern Humans ◽  
History Of ◽  
Northeast Asian

AbstractAnatomically modern humans reached East Asia more than 40,000 years ago. However, key questions still remain unanswered with regard to the route(s) and the number of wave(s) in the dispersal into East Eurasia. Ancient genomes at the edge of the region may elucidate a more detailed picture of the peopling of East Eurasia. Here, we analyze the whole-genome sequence of a 2,500-year-old individual (IK002) from the main-island of Japan that is  characterized with a typical Jomon culture. The phylogenetic analyses support multiple waves of migration, with IK002 forming a basal lineage to the East and Northeast Asian genomes examined, likely representing some of the earliest-wave migrants who went north from Southeast Asia to East Asia. Furthermore, IK002 shows strong genetic affinity with the indigenous Taiwan aborigines, which may support a coastal route of the Jomon-ancestry migration. This study highlights the power of ancient genomics to provide new insights into the complex history of human migration into East Eurasia.

scholarly journals Integrative taxonomy reveals multiple lineages of the spider genus Cybaeus endemic to the Ryukyu Islands, Japan (Arachnida : Araneae : Cybaeidae)

2021 ◽  
Author(s):  
Yoh Ihara ◽  
Naoki Koike ◽  
Takafumi Nakano
Keyword(s):  
New Species ◽  
Phylogenetic Analyses ◽  
Mitochondrial Gene ◽  
The Other ◽  
Ryukyu Islands ◽  
Yakushima Island ◽  
Gene Markers ◽  
Japanese Archipelago ◽  
The Ryukyu Islands ◽  
The Japanese Archipelago

The epigean spiders of the genus Cybaeus L. Koch, 1868 are known to have diversified in western North America and the Japanese Archipelago. To date, ~80 species of Cybaeus are known from Japan, but they have not previously been recorded from the Ryukyu Islands that harbour a diversity of endemic species. Here we describe eight new species of Cybaeus from the Ryukyu Islands, extending the range of Cybaeus southward to the central Ryukyus. Both sexes of each of the new species are described, and their phylogenetic relationships are estimated using nuclear and mitochondrial gene markers. Although Cybaeus okumurai, sp. nov. and C. kumadori, sp. nov. possess genital features that are common in the other Japanese congeners, the other six species (C. yakushimensis, sp. nov., C. kodama, sp. nov., C. amamiensis, sp. nov., C. aikana, sp. nov., C. tokunoshimensis, sp. nov., and C. hikidai, sp. nov.) are characterised by an elongated embolus and tubular spermathecae. These unique genital characteristics and the phylogeny recovered here suggest that these features evolved independently among the Japanese and Ryukyu Cybaeus species. Phylogenetic analyses highlight an unusual biogeographical pattern in which C. yakushimensis and C. kodama endemic to Yakushima Island in the northern Ryukyus are related to species distributed in the central Ryukyus. In contrast, our phylogeny suggests that C. okumurai from Tanegashima Island in the northern Ryukyus is sister to C. ashikitaensis (Komatsu, 1968), distributed in Kyushu of the Japanese Archipelago. The retreat constructs and sympatric distribution of Cybaeus found among the Ryukyus are also briefly discussed. ZooBank: urn:lsid:zoobank.org:pub:640D15AA-17F4-48EE-88B4-485CFF8FCD60

The first Korean species of Euconnus (Cladoconnus), with a synopsis of the E. ussuriensis species group (Coleoptera, Staphylinidae, Scydmaeninae)

Zootaxa ◽  
2019 ◽  
Vol 4615 (3) ◽  
pp. 481-488
Author(s):  
PAWEŁ JAŁOSZYŃSKI
Keyword(s):  
South Korea ◽  
East Asia ◽  
Sea Of Japan ◽  
Species Group ◽  
The Sea Of Japan ◽  
Similar Species ◽  
Primorsky Krai ◽  
Japanese Archipelago ◽  
The Japanese Archipelago ◽  
Uniform Group

Most species of Euconnus (Cladoconnus) inhabit West Palaearctic, and only three are known from East Asia. The latter form a morphologically uniform group that comprises E. ussuriensis (Primorsky Krai), E. matsuae (Central Honshu) and E. nakahamai (Shikoku). These species cannot be reliably distinguished by external features; they differ mainly in the shape of the endophallic sclerites. Diagnostic characters of these species are summarized, and a new member of the E. ussuriensis species group is described, Euconnus (Cladoconnus) rudimentalis n. sp. (South Korea). Members of this group are restricted to the areas surrounding the Sea of Japan; the known distribution suggests that similar species can be expected to occur also in the northern part of the Japanese Archipelago and in North Korea. 

scholarly journals READING EUROPEAN UNIVERSAL HISTORIES IN JAPAN, 1790s–1840s

2020 ◽  
pp. 1-27
Author(s):  
DAVID MERVART
Keyword(s):  
Eighteenth Century ◽  
East Asia ◽  
The West ◽  
Japanese Archipelago ◽  
The World ◽  
Classical Chinese ◽  
The Japanese Archipelago ◽  
Historical Trajectory

Abstract This article offers a case study in the nature of uses of the European past in East Asia at a time when the search for the knowledge of the West was not yet motivated primarily by any sense of its civilizational, moral, or technological superiority. In the course of the later eighteenth century, as Dutch philological expertise gradually became another available tool – alongside the long-established Sinological erudition – for generating knowledge about the world, commentators around the Japanese archipelago began to turn not only to the medical and astronomical manuals of the occidentals but also to their histories. The translation-cum-commentary Miscellanea from the western seas by Yamamura Saisuke (1801) is a case in point. The text became effectively a crossroads of two philological and historiographical bodies of knowledge that intersected in unexpected ways as the European past was subjected to a reinterpretation in terms of the classical Chinese precedent, while the product of that reinterpretation informed a different understanding of the recent and contemporary historical trajectory of a Japan now exposed to the dynamics of the global European presence.

Origin and formation of Yaponesians based on genome sequences

Impact ◽  
2020 ◽  
Vol 2020 (7) ◽  
pp. 56-58
Author(s):  
Naruya Saitou
Keyword(s):  
Population Genetics ◽  
Human Migration ◽  
Human Populations ◽  
Genome Sequences ◽  
Japanese Archipelago ◽  
Broad Term ◽  
The Japanese Archipelago ◽  
Ebb And Flow ◽  
National Institute Of Genetics

The ebb and flow of human migration across the planet can nowadays be probed with advanced archaeology, linguistics, anthropology and genomics. Together, these can provide a convincing picture of the various divergences and convergences of different human populations across vast areas. It is now possible to better understand how, why and where a particular group or society arose. Professor Naruya Saitou of the Population Genetics Laboratory at the National Institute of Genetics in Mishima has dedicated his career to the synthesis of these disciplines. The current focus of his research is on understanding the origins and formation of the Yaponesian people. This broad term was coined by writer Toshio Shimao in 1960s to encompass the diverse peoples of the Japanese Archipelago over its many thousands of years of inhabitation. Saitou's research is helping to uncover Japan's ancient past.

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