Satoshi Yamamoto (

Email: yamamoto(at)
, s_yamamoto(at) (Both are available)
  • Assistant professor 2017–
    at Animal Ecology Lab., Department of Zoology Graduate School of Science, Kyoto University [website]
  • Research fellow 2014-2017
              at Minamoto Lab., Graduate School of Human Development and Environment, Kobe Univeristy [website]
  • Research fellow 2011–2014
    at Toju group, Graduate School of Human and Environmental Studies, Kyoto University [website]
  • Research fellow 2009–2011
    at Sota group
  • DC 2006–2009
    at Sota group
  • MC 2004–2006
    at Sota group of Animal Ecology Lab., Department of Zoology Graduate School of Science, Kyoto University [website]
  • BC 2000–2004
    Faculty of Science, Shinshu University

  • Speciation
  • Insect's life cycle evolution
  • Fungal symbionts in plant tissue
  • Environmental DNA

Speciation of a winter geometrid moth, Inurois punctigera.

Winter harshness separates reproductive season of I. punctigera at highlands and high latitudes in Japan. The separated seasonal populations are reproductively isolated even if they are in sympatric.
[Detail in Japanese (under construction)][むしコラ in Japanese]

Copulation of I. punctigera. Wingless female is a feature of winter geometrid moths.

Early winter population and late winter population are completely separated in time in the regions with cool winter. On the other hand, the reproductive season is not separated in the regions with warm winter.

Fungal symbionts in plant root.

Diverse fungal symbionts co-exist and interact with each other in plant root.
[Detail in Japanese
(under construction)]

Evolutionary ecology of periodical cicada.

How is the evolution of 13- and 17-year cicada [wikipedia]? We revealed the divergence age of Broods, which are groups of cohorts emerging in the same year.
[See also press release, National Geographic News in Japanese]

Ecology and community ecology using environmental DNA.

            see my Google Scholar Citations
  1. Jo T, Murakami H, Masuda R, Sakata M, Yamamoto S, Minamoto T. (2017) Rapid degradation of longer DNA fragments enables the improved estimation of distribution and biomass using environmental DNA. Molecular Ecology Resources In press. doi: 10.1111/1755-0998.12685 [web]
  2. Minamoto T, Fukuda M, Katsuhara KR, Fujiwara A, Hidaka S, Yamamoto S, Takahashi K, Masuda R. (2017) Environmental DNA reflects spatial and temporal jellyfish distribution. PLOS ONE 12: e0173073. doi:10.1371/journal.pone.0173073 [web] .
  3. Kouduka M, Tanabe AS, Yamamoto S, Yanagawa K, Nakamura Y, Akiba F, Tomaru H, Toju H, Suzuki Y. (2017) Eukaryotic diversity in late Pleistocene marine sediments around a shallow methane hydrate deposit in the Japan Sea. Geobiology 15: 715–727.
  4. Yamamoto S, Masuda R, Sato Y, Sado T, Araki H, Kondoh M, Minamoto T, Miya M. (2017) Environmental DNA metabarcoding reveals local fish communities in a species-rich coastal sea. Scientific Reports 7: 40368. doi:10.1038/srep40368 [web]
  5. Miya M, Minamoto T, Yamanaka H, Oka S, Sato K, Yamamoto S, Sado T, Doi H. (2016) Use of a Filter Cartridge for Filtration of Water Samples and Extraction of Environmental DNA. Journal of Visualized Experiments 117: e54741. doi:10.3791/54741 [web]
  6. Yamamoto S, Minami K, Fukaya K, Takahashi K, Sawada H, Murakami H, Tsuji S, Hashizume H, Kubonaga S, Horiuchi T, Hongo M, Nishida J, Okugawa Y, Fujiwara A, Fukuda M, Hidaka S, Suzuki KW, Miya M, Araki H, Yamanaka H, Maruyama A, Miyashita K, Masuda R, Minamoto T, Kondoh M. (2016) Environmental DNA as a 'snapshot' of fish distribution: a case study of Japanese jack mackerel in Maizuru Bay, Sea of Japan. PLoS ONE 11 (3): e0149786. doi:10.1371/journal.pone.0149786 [web]
  7. Toju H, Yamamoto S, Tanabe AS, Hayakawa T, Ishii HS. (2016) Network modules and hubs in plant-root fungal biome. Journal of the Royal Society Interface 13: 20151097. doi: 10.1098/rsif.2015.1097 [web]
  8. Ino K, Kouduka M, Hirota A, Togo Y, Fukuda A, Komatsu D, Tsunogai U, Tanabe AS, Yamamoto S, Iwatsuki T, Mizuno T, Ito K, Suzuki Y. (2016) Deep microbial life in high-quality granitic groundwater from geochemically and geographically distinct underground boreholes. Environmental Microbiology Reports 8: 285–294. doi: 10.1111/1758-2229.12379 [web]
  9. Fujiwara A, Matsuhashi S, Doi H, Yamamoto S, Minamoto T. (2016) Use of environmental DNA to survey the distribution of an invasive submerged plant in ponds. Freshwater Science 35:748–754. doi: 10.1086/685882 [web]
  10. 源利文、山本哲史、笠井亮秀、近藤倫生. (2016) 環境DNAを用いた沿岸域における魚類モニタリング. 沿岸海洋研究 53: 173–178.
  11. Yamamoto S, Beljaev AE, Sota T. (2016) Phylogenetic analysis of the winter geometrid genus Inurois reveals repeated reproductive season shifts. Molecular Phylogenetics and Evolution 94: 47–54. doi: 10.1016/j.ympev.2015.08.016[web]

  12. 山本哲史. (2015) 季節性の違いによって生じる冬尺蛾の種分化. 『生物時計の生態学(種生物学会 編、新田梢・陶山佳久 責任編集)』 第9章(pp171–190).[web]
  13. Miya M, Sato Y, Fukunaga T, Sado T, Poulsen JY, Sato K, Minamoto T, Yamamoto S, Yamanaka H, Araki H, Kondoh M, Iwasaki W. (2015) MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: Detection of >230 subtropical marine species. Royal Society Open Science 2: 150088. doi: 10.1098/rsos.150088 [web]

  14. Konuma J, Yamamoto S, Sota T. (2014) Morphological integration and pleiotropy in the adaptive body shape of the snail-feeding carabid beetle Damaster blaptoides. Molecular Ecology 23: 5843–5854. doi: 10.1111/mec.12976 [web]
  15. Hata H, Tanabe SA, Yamamoto S, Toju H, Kohda M, Hori M. (2014) Diet disparity among sympatric herbivorous cichlids in the same ecomorphs in Lake Tanganyika: amplicon pyrosequences on algal farms and stomach contents. BMC Biology 12: 90. doi: 10.1186/s12915-014-0090-4 [web]
  16. Yamamoto S, Sato H, Tanabe AS, Hidaka A, Kadowaki K, Toju H. (2014) Speatial segregation and aggregation of ectomycorrhizal and root-endophytic fungi in the seedlings of two Quercus species. PLoS ONE 9: e96363. doi: 10.1371/journal.pone.0096363 [web]
  17. Kadowaki K, Sato H, Yamamoto S, Tanabe AS, Hidaka A, Toju H. (2014) Detection of the horizontal spatial structure of soil fungal communities in a natural forest. Population Ecology 56: 301–310. doi: 10.1007/s10144-013-0424-z [web]

  18. Toju H, Yamamoto S, Sato H, Tanabe AS. (2013) Sharing of diverse mycorrhizal and root-endophytic fungi among plant species in an oak-dominated cool-temperate forest. PLoS ONE 8: e78248. doi: 10.1371/journal.pone.0078248 [web]
  19. Toju H, Yamamoto S, Sato H, Kadowaki K, Tanabe AS, Yazawa T, Nishimura O, Agata K. (2013) How are plant and fungal communities linked to each other in below-graund ecosystems? A massively-parallel pyrosequencing analysis of the association specificity of root-associated fungi and their host plants. Ecology and Evolution 3: 3112–3124. doi: 10.1002/ece3.706 [web]
  20. Toju H, Yamamoto S, Sato H, Tanabe AS, Gilbert G, Kadowaki K. (2013) Community composition of root-associated fungi in a Quercus-dominated temperate forest: “co-dominance” of mycorrhizal and root-endophytic fungi. Ecology and Evolution 3: 1281–1293. doi: 10.1002/ece3.546 [web]
  21. Sota T, Yamamoto S, Cooley JR, Hill KBR, Simon C, Yoshimura J. (2013) Independent divergence of 13- and 17-y life cycles among three periodical cicada lineages. Proceedings of the National Academy of Science U.S.A. 110: 6919–6924. doi: 10.1073/pnas.1220060110 [web]

  22. Toju H, Tanabe AS, Yamamoto S, Sato H. (2012) High-coverage ITS primers for the DNA-based identification of Ascomycetes and Basidiomycetes in environmental samples. PLOS ONE 7: e40863. doi: 10.1371/journal.pone.0040863 [web]
  23. Yamamoto S, Sota T. (2012) Parallel allochronic divergence in a winter moth due to disruption of reproductive period by winter harshness. Molecular Ecology 21: 174–183. doi: 10.1111/j.1365-294X.2011.05371.x [web]
  24. Sato A, Yamamoto S, Hayaishi S, Sota T. (2012) Characterization of six microsatellite loci in the mangrove cricket Apteronemobius asahinai. Entomological Science 15: 133–136. doi: 10.1111/j.1479-8298.2011.00475.x [web]
  25. Yamamoto S, Sota T. (2009) Incipient allochronic speciation by climatic disruption of the reproductive period. Proceedings of the Royal Society B 276: 2711-2719. doi: 10.1098/rspb.2009.0349 [web]
  26. Yamamoto S, Sota T. (2007) Phylogeny of the Geometridae and the evolution of winter moths inferred from a simultaneous analysis of mitochondrial and nuclear genes. Molecular Phylogenetics and Evolution 44: 711-723. doi: 10.1016/j.ympev.2006.12.027  [web]