Books

• 「大学の森」が見た森と里の再生学 ー京都芦生・美山での挑戦（石原正恵・赤石大輔・徳地直子 編）, 2023, ISBN: 9784814005048 , pp420, 京都大学学術出版会, Kyoto, Japan

  • 第1章　大学・市民・植物園の連携で希少植物を守る（阪口翔太）

    1. 芦生の森に忍び寄る危機　(1）芦生の植物世界（2）人間社会─シカ─森林をめぐる問題

    2. 現場で植物を守る（1）芦生生物相保全プロジェクトの取り組み（2）自生地で守りきれない植物たち（3）市民研究者が作った芦生版レッドデータブック

    3. 協働の始まり（1）森の再生にスポットライトが当たる（2）協働はお互いを知るところから

    4. 現場の「外」で植物を守る（1）始めよう生息域外保全（2）保全の対象にする種を選ぶ　（3）学生と取り組む域外保全研究（4）ゼンテイカの事例：遺伝的にユニークな芦生の個体群　（5）タヌキランの事例：希少種の交雑問題（6）遺伝データに基づくコアコレクションの作成と分散栽培

    5. 域外保全事業の課題と展望

• 日本における森林樹木の遺伝的多様性と地理的遺伝構造（戸丸信弘・内山憲太郎・玉木一郎・阪口翔太 編）, 2022, ISBN: 978-4-944005-32-1 , pp245, ミドリ出版, Hakata, Japan

• 芦生原生林を歩きつくす：フィールドワーク20年の調査と発見（福本繁 著）, 2021, ISBN 9784779516108, pp160, ナカニシヤ出版, Kyoto, Japan.

  • コラム１　希少植物の域外保全プロジェクト（阪口翔太）

  • コラム２　大規模シカ柵で生態系を回復させる（阪口翔太）

• 「中尾佐助 照葉樹林文化論」の展開 ― 多角的視座からの位置づけ（山口裕文・金子務・大形徹・大野朋子 編）, 2016, ISBN： 978- 4-8329-6820-2 , pp862, 北海道大学出版会, Sapporo, Japan

  • 第七章 東アジア温帯林構成植物の歴史生物地理 （阪口翔太） 

  • 日華植物区系とは何か / 系統地理学が明らかにした日華植物区系型分布植物の系統分化 / 日華森林亜区内における陸橋の形成と 植物の分化 / 東シナ海周辺における落葉広葉樹林要素の歴史 / 琉球列島を中心とした常緑広葉樹林要素の歴史

• 地図でわかる 樹木の種苗移動ガイドライン（津村義彦・陶山佳久編）, 2015, ISBN 978-4829965245, pp176, 文一総合出版, Tokyo, Japan.

  • 生態ニッチモデルと遺伝的地域性（阪口翔太）

  • 種苗移動ガイドライン カツラ・ヒロハカツラ（阪口翔太・井鷺裕司）

  • 種苗移動ガイドライン ハリギリ（阪口翔太・井鷺裕司）

• 系統地理学 DNAで解き明かす生きものの自然史（種生物学会編／池田 啓・小泉逸郎 責任編集）, 2013, ISBN 978-4-8299-6203-9, pp314, 文一総合出版, Tokyo, Japan.

  • 第4章 日華植物区系におけるハリギリの生物地理（阪口翔太）

  • コラム1 Cryptic refugia 隠蔽逃避地（阪口翔太）

  • コラム2 生態ニッチモデル（阪口翔太）

Peer-reviewed Articles

Submitted

• Nagasawa, K., Setoguchi, H., and Sakaguchi, S. (submitted) Current position and future direction of evolutionary genomics of adaptation to fumarole fields: A classical but overlooked extreme environment.

• Han, Q., Hao, P.., Wakabayashi, T., Sakaguchi, S., and Setoguchi, H. (submitted) Transcriptome profiling sheds light on the flexibility of predominate flowering pathways in wild radish.

• Sakaguchi, S., Choi, H.-J., Yoichi, W., Takahashi, D., Hirota, S.K., Maki, M., Murakami, S., Harada, T., Kobayashi, N., Kurashige, Y., Song, J.-H., Choi, H.J., and Kim, S.-C. (submitted) Unraveling enigmatic disjunctions: population genetic analysis points to independent origins of rare rhododendrons in the Rhododendron keiskei complex (Ericaceae).

• Kyan, R., Ito, T., Fujii, S., Yamashiro, T., Sakaguchi, S., Ito, M. and Maki, M. (submitted) Comparative transcriptome analyses of convergent adaptation in rheophytic and terrestrial ecotypes of goldenrod.

• Ishikawa, N., Sakaguchi, S., Hasekura, C., Shipunov, A., Matsuo, A., Suyama, Y., Tsukaya, H., Ikeda, H. and Ito, M. (submitted) Allotetraploid origin and putative ancient introgression in Plantago hakusanensis (Plantaginaceae).

• So, J-H., Sakaguchi, S., Chung, S-W., Wang H., Chung, M-S., Chung, Y-S., Lee N-S. (submitted) Genetic structure of Neottia japonica (Orchidaceae) formed by geographic barriers in East Asia.

Published/Accepted

1. Magota, K., Gotoh, E., Sakaguchi, S., Ikeda, H., and Setoguchi, H. (accepted) High-intensity light promotes adaptive divergence of photosynthetic traits between sun-exposed and shaded habitat populations in Saxifraga fortunei, American Journal of Botany.

2. Sakaguchi, S., Fukumoto, S., Masuda, K., Setoguchi, H., Hirota, K.S., Suyama, Y., Fujiki, D., Miura, R., Yamamoto, K., Ota M. and M., Ishihara, I. M. (2024) Evaluating the potential of interpopulation outbreeding to rescue plant populations facing reproductive failures, Ecological Research, doi: https://doi.org/10.1111/1440-1703.12472.

3. Sakaguchi, S., Fukumoto, S. and Yamasaki, M. (accepted) Gamblea innovans f. simplicifolia (Araliaceae), a new form discovered in Honshu, Japan, Acta Phytotaxonomica et Geobotanica.

4. Takahashi, D., Suyama, Y., Fukushima, K., Setoguchi, H. and Sakaguchi, S. (accepted) Deer grazing drove an assemblage-level evolution of plant dwarfism in an insular system, Journal of Ecology.

5. Gaddy, L.L. and Sakaguchi, S. (2024) Taxonomy, Biogeography, and Phylogeography of the genus Shortia (Diapensiaceae), Endangered Species Biology, 1(1), 1-18.

6. Kurata, S., Sakaguchi, S., Hirota, S., Kurashima, O., Suyama, Y., and Ito, M. (2024) Phylogeographic incongruence between two related Geranium species with divergent habitat preferences in East Asia, Ecological Research, doi: http://doi.org/10.1111/1440-1703.12458.

7. Xia, M., Luo, Y., Suyama, Y., Matsuo, A., Sakaguchi, S., Wang, Y. and Li, P. (2024) Genetic divergence and ecological adaptation of an eastern North American spring ephemeral Sanguinaria canadensis, Diversity and Distributions, doi: 10.1111/ddi.13813.

8. Masuda, K., Setoguchi, H., Nagasawa, K., Hirota, S., Suyama, Y., Sawa, K, Fukumoto, S., Ishihara, M., Abe, H., Tsuboi, H., Tango, T., Mori, S.. and Sakaguchi, S. (2024) Genetic consequences of Last Glacial–Holocene changes in snowfall regime in Arnica mallotopus populations—a plant confined to heavy-snow areas of Japan, American Journal of Botany, doi: https://doi.org/10.1002/ajb2.16275.

9. Kurata, S., Sakaguchi, S., Hirota, S., Kurashima, O., Ogawa, R., Suyama, Y., Nishida, S. and Ito, M. (2024) Refugia within refugium of Geranium yesoense varieties: a follow-up study using chloroplast genome sequencing data of specimen from Mt. Asama, Biological Journal of the Linnean Society, doi: https://doi.org/10.1093/biolinnean/blad121.

10. Kadowaki, K., Honjo, M., Nakamura, N., Kitagawa, Y., Ishihara, M., Matsuoka, S., Tachiki, Y., Fukushima, K., Sakaguchi, S., Mizuki, I., Fujiki, D., Sakai, M. Takayanagi, A., Yamasaki, M., Tokuchi, N., Takahashi, D., Nagasawa, K., and Masuda, K. (2023) eDNA metabarcoding analysis reveals the consequence of creating ecosystem-scale refugia from deer grazing for the soil microbial communities, Environmental DNA, doi: https://doi.org/10.1002/edn3.498.

11. 阪口翔太, 渡邉敏夫, 渡邉道子, 髙水正夫, 大石満 (2023) 岐阜県・長野県におけるフガクヤシャビシャク（スグリ科）の初記録, 植物地理・分類研究 71(2) 195-196.

12. Nagasawa, K., Fukushima, K., Setoguchi, H., Katsuyama, M. and Sakaguchi, S. (2023) Extreme low pH, not Al3+ is a key abiotic stressor for the formation of an extremophyte (Carex angustisquama, Cyperaceae) in highly acidic solfatara fields, Plant Biology 25(4) 551-562, doi: https://doi.org/10.1111/plb.13514.

13. Shibabayashi, M., Shimizu, T., Tokuhiro, C., Suyama, Y., Sakaguchi, S., Ito, T., Yu, CC., Chung, KF., Nagasawa, J., Shiuchi, T., Kokubugata, G., Abe, A., Naiki, A., Nagano, A.J. and Isagi, Y. (2023) The contrary conservation situations of two local critically endangered species, Vaccinium emarginatum (Ericaceae) and Elatostema platyphyllum (Urticaceae), growing on the edge of the distribution, Frontiers in Ecology and Evolution, doi: 10.3389/fevo.2023.1093321 .

14. Masuda, K., Setoguchi, H., Fukumoto, S., Ishihara, M. and Sakaguchi, S. (2023) A new color variant of Hemerocallis middendorffii Trautv. et C.A.Mey. var. esculenta (Koidz.) Ohwi (Asphodelaceae), Acta Phytotaxonomica et Geobotanica 74, 33-37, https://doi.org/10.18942/apg.202218.

15. Masuda, K., Setoguchi, H., Nagasawa, K., Ishihara, M., Sawa, K., Horie K., Tsuboi, H., Fukumoto, S., Tango, A., and Sakaguchi, S. (2023) Rear-edge daylily populations show legacies of habitat fragmentation due to the Holocene climate warming, Journal of Biogeography 50(3) 551-563, doi: https://10.1111/jbi.14552.

16. Takahashi, D., Sakaguchi, S., Teramine, T. and Setoguchi, H. (2022) Comparative reproductive ecology of two sister Asarum species (Aristolochiaceae) in relation to the evolution of elongated floral appendage, Plant Biology 24(6) 987-997, doi: https://doi.org/10.1111/plb.13456.

17. Kurata, S., Sakaguchi, S., Ikeda, H., Hirota, S.K., Kurashima, O., Suyama, Y. and Ito, M. (2022) From East Asia to Beringia: reconstructed range dynamics of Geranium erianthum (Geraniaceae) during the last glacial period in the northern Pacific region, Plant Systematics and Evolution 308:28, doi: https://doi.org/10.1007/s00606-022-01820-4.

18. Han, Q., Li, J., Shen, H., Sakaguchi, S., Isagi, Y. and Setoguchi, H. (2022) Genetic diversity and population structure of wild radish in East Asia. Journal of Animal & Plant Sciences 32(4): 1110-1119, doi: http://doi.org/10.36899/JAPS.2022.4.0515.

19. 于 佳欣, 増田和俊, 阪口翔太 (2022) 芦生研究林で再発見された絶滅寸前種マルバスミレ（スミレ科）, 森林研究81, 1-2 (http://hdl.handle.net/2433/276337).

20. Takahashi, D., Isagi, Y., Li, P., Qiu, Y, Setoguchi, H., Suyama, Y., Matsuo, A., Tsunamoto, Y. and Sakaguchi, S. (2022) Stable persistence of relict populations involved evolutionary shifts of reproductive characters in the genus Tanakaea (Saxifragaceae), Journal of Systematics and Evolution, doi: https://doi.org/10.1111/jse.12849.

21. Nagasawa, K., Fukumoto, S., Setoguchi, H., Ishihara, M.I., Masuda, K., Hiratsuka, K. and Sakaguchi, S. (2022) Genetic purity of a rear-edge population of Carex podogyna Franch. et Sav. (Cyperaceae) maintained under interspecific hybridization, Genes & Genetic Systems, doi: https://doi.org/10.1266/ggs.21-00087.

22. Kimura, T., Yamada, T., Sakaguchi, S., Ito, M., Maki, M. (2022) Multiple colonizations and genetic differentiation from the mainland populations in insular populations of the perennial herb Solidago virgaurea complex (Asteraceae) on recently formed nearshore oceanic islands, Journal of Biogeography, doi: https://doi.org/10.1111/jbi.14342.

23. Sakaguchi, S., Oishi, M., Takahashi, D., Matsuo, A., Hirota, S.K., Suyama, Y. and Setoguchi, H. (2022) Ribes fujisanense (Grossulariaceae): a new species of obligate epiphytic gooseberry discovered in central Japan, Acta Phytotaxonomica et Geobotanica 72(1) 49-56., doi: 10.18942/apg.202109

24. Kurata, S., Vasques, D.T., Sakaguchi, S., Hirota, S.K., Kurashima, O., Suyama, Y., Nishida, S., Ito, M. (2021) Phylogenetics of Japanese Geranium (Geraniaceae) using chloroplast genome sequences and genome-wide single nucleotide polymorphisms, Plant Systematics and Evolution 307: 63, doi: https://doi.org/10.1007/s00606-021-01788-7.

25. Liu, L., Low, S.L., Sakaguchi, S., Feng, Y., Ge B., Konowalik K. and Pan Li (2021) Development of nuclear and chloroplast polymorphic microsatellites for Crossostephium chinense (Asteraceae), Molecular Biology Reports, doi: https://doi.org/10.1007/s11033-021-06590-9.

26. Han, Q., Sakaguchi, S., Wakabayashi, T. and Setoguchi, H. (2021) Association between RsFT, RsFLC, and RsCOL5 (A&B) expression and flowering regulation in Japanese wild radish, AoB PLANTS, doi: 10.1093/aobpla/plab039

27. Magota, K., Sakaguchi, S., Lee, J., Yamamoto, M., Takahashi, D., Nagano, A.J. and  Setoguchi, H. (2021) Phylogeographic analysis of Saxifraga fortunei complex (Saxifragaceae) reveals multiple origins of morphological and ecological variations in the Japanese Archipelago, Molecular Phylogenetics and Evolution, doi: https://doi.org/10.1016/j.ympev.2021.107230.

28. Nagasawa, K., Setoguchi, H., Maki, M., Sawa, K., Horie, K. and Sakaguchi, S. (2021) Species cohesion of an extremophyte (Carex angustisquama, Cyperaceae) in solfatara fields maintained under interspecific natural hybridization, Annals of Botany. 128(3) 343–356, DdoiOI: https://doi.org/10.1093/aob/mcab069.

29. Masuda, K., Setoguchi, H., Nagasawa, K., Fukumoto, S., Ishihara-Iwamoto, M., Miura, R., Mizusawa, L., Hiratsuka, K. and Sakaguchi, S. (2021) Identification of management units in the threatened populations of Arnica mallotopus Makino (Asteraceae), using novel EST-SSR markers, Genes & Genetic Systems 96, 1-6, doi: https://doi.org/10.1266/ggs.21-00021.

30. Takahashi, D., Sakaguchi, S., Feng, Y., Isaji, Y., Qiu, Y-X, Li, P., Lu, R., Lu, C-T, Chung, S-W, Lin, Y-S, Chen, Y-C, Nagano, A., Kawaguchi, L., Setoguchi, H. (2021) Geographic and subsequent biotic isolations led to a diversity anomaly of Heterotropa (Aristolochiaceae) in insular versus continental regions of the Sino-Japanese Floristic Region, Journal of Biogeography, doi: https://doi.org/10.1111/jbi.14121.

31. 阪口翔太, 鶴田憲次, 光田重幸, 福本繁, 瀬戸口浩彰, 石原正恵 (2021) 京都大学芦生研究林にてアキタスズムシソウを記録する, 森林研究 81: 1-4, http://hdl.handle.net/2433/262992.

32. Nagasawa, K., Sawa, K., Setoguchi, H., Maki, M. and Sakaguchi, S. (2021) Two new natural hybrids between Carex angustisquama (Cyperaceae) and its related species from solfatara fields in Tohoku region, Japan, Acta Phytotaxonomica et Geobotanica 72(3), 241-251, doi: https://doi.org/10.18942/apg.202108.

33. Boukteb, A., Sakaguchi, S., Ichihashi, Y., Kharrat, M., Nagano, J.A., Shirasu, K. and Bouhadida, M. (2021) Analysis of genetic diversity and population structure of Orobanche foetida populations from Tunisia using RADseq, Frontiers in Plant Science, doi: https://doi.org/10.3389/fpls.2021.618245.

34. Worth, J.R.P., Marthick, K.R., Harrison, P.A., Sakaguchi, S., Jordan, J.G., (2021) The palaeoendemic conifer Pherosphaera hookeriana (Podocarpaceae) exhibits high genetic diversity despite Quaternary range contraction and post glacial bottlenecking, Conservation Genetics 22, 307–321, doi: https://doi.org/10.1007/s10592-021-01338-1.

35. Kurata, S., Sakaguchi, S., Mishima, H., Tsuchimatsu, T., Ito, M. (2021) Development and characterization of nuclear microsatellite markers to reveal the neutral demographic background of flower color polymorphism in Geranium thunbergii (Geraniaceae), Genes & Genetic Systems 96, 1-6, doi: https://doi.org/10.1266/ggs.20-00062.

36. Kyan, R., Kimura, T., Yamashiro, T., Fujii, S., Sakaguchi, S., Ito, M., Nagano, A., Kudoh, H., and Maki, M. (2021) Phylogeographic and demographic modelling analyses of the multiple origins of the rheophytic goldenrod Solidago yokusaiana Makino, Heredity, doi: https://doi.org/10.1038/s41437-021-00408-x.

37. Magota, K., Sakaguchi, S., Hirota, S. Tsunamoto, Y. Suyama, Y. Akai, K., Setoguchi, H. (2021) Comparative analysis of spatial genetic structures in sympatric populations of two riparian plants, Saxifraga acerifolia and Saxifraga fortunei (Saxifragaceae), American Journal of Botany, doi: https://doi.org/10.1002/ajb2.1644.

38. Sakaguchi, S., Abe, A., Nagasawa, K., Takahashi, D., Setoguchi, H., Maki, M., Kyan, R., Nishino, T., Ishikawa, N., Hirota K. S., Suyama Y. and Ito, M. (2021) Functional traits divergence in parallelly evolved rheophytic populations of Solidago virgaurea L. complex (Asteraceae), Acta Phytotaxonomica et Geobotanica 72, 93-111, doi: https://doi.org/10.18942/apg.202012.

39. Sakaguchi, S., Asaoka, Y., Takahashi, D., Isagi, Y., Imai, R., Nagano, A. J., Qiu, Y-X., Li, P., Lu R. and Setoguchi, H. (2021) Inferring historical survivals of climate relicts: the effects of climate changes, geography, and population-specific factors on herbaceous hydrangeas, Heredity 126, 615–629, doi: https://doi.org/10.1038/s41437-020-00396-4.

40. Kurata, S., Sakaguchi, S., Hirota, S., Suyama, Y., Nishida, S. and Ito, M. (2021) Refugia within refugia of Geranium yesoense (Geraniaceae) in Japan were driven by re-immigration into southern interglacial refugia, Biological Journal of the Linnean Society, doi: https://doi.org/10.1093/biolinnean/blaa212.

41. Masuda, K. Setoguchi, H., Nagasawa, K., Ishihara, M. and Sakaguchi, S. (2021) Development and characterization of EST-SSR markers for Amur daylily, Hemerocallis middendorffii Trautv. et C.A.Mey. (Asphodelaceae), Acta Phytotaxonomica et Geobotanica 72: 73-78. doi: 10.18942/apg.202008

42. Lu, J., Bao, Q., He, W.,  Fan, D-M.,  Cheng, S-M., López‐Pujol, J.,  Chung, M.G.,  Sakaguchi, S., Sánchez González, A.,  Gedik, A.,  Li, D-Z.,  Kou, Y-X.,  Zhang, Z-Y. (2020) Phylogeny and biogeography of Fagus (Fagaceae) based on 28 nuclear single/low-copy loci, Journal of Systematics and Evolution, doi: https://doi.org/10.1111/jse.12695.

43. Takano, A., Sakaguchi, S., Pan, L., Matsuo, A., Suyama, Y., Xia, G-H., Liu X. and Isagi Y. (2020) A narrow endemic or a species showing disjunct distribution? Studies on Meehania montis-koyae Ohwi (Lamiaceae), Plants 2020, 9(9), 1159; doi: https://doi.org/10.3390/plants9091159.

44. Zhu, S-S., Chen, J., Zhao, J., Li, P., Comes, H-P., Xu, W-Q., Lu, R-S., Fu C., Xie X., Sakaguchi, S., Isagi, Y., Lascoux, M., Qiu, Y-X. (2020) Genomic insights on the contribution of balancing selection and local adaptation to the long-term survival of a widespread living fossil tree, Cercidiphyllum japonicum, New Phytologist. doi: https://doi.org/10.1111/nph.16798.

45. Inoue, M., Itô, H., Yamasaki, M., Fukumoto, S., Okamoto, Y., Katsuki, M., Fukushima, K., Sakai, M., Sakaguchi, S., Fujiki, D., Nakagawa, H., Ishihara, M., Takayanagi, A. (2020) Seasonal and annual fluctuations of deer populations estimated by a Bayesian state–space model, PLOS ONE, doi: https://doi.org/10.1371/journal.pone.0225872.

46. Zhu, S., Comes, HP., Tamak, I., Cao, Y., Sakaguchi, S., Yap, Z., Ding, Y., Qiu, Y. (2020) Patterns of genotype variation and demographic history in Lindera glauca (Lauraceae), an apomict-containing dioecious forest tree, Journal of Biogeography, doi: https://doi.org/10.1111/jbi.13874.

47. Sakaguchi, S., Nagasawa, K., Umetsu, Y., Nagasawa, J., Ichikawa,S., Kinoshita, S., Hiratsuka, K., Suyama, Y., Tsunamoto, Y., Isagi, Y. and Setoguchi, H. (2020) Phylogenetic origin of Magnolia pseudokobus (Magnoliaceae), a rare Magnolia extinct in the wild, revealed by chloroplast genome sequencing, genome-wide SNP genotyping and microsatellite analysis, Journal of Forest Research, doi: 10.1080/13416979.2020.1767268.

48. Sakaguchi, S., Nagano, J.A., Yasugi, M., Kudoh, H., Ishikawa, N., and Ito, M. (2020) Genetic consequences of being a dwarf: Do evolutionary changes in life-history traits influence gene flow patterns in populations of the world’s smallest goldenrod?, Annals of Botany, 126(1): 163–177, doi: https://doi.org/10.1093/aob/mcaa062.

49. Cao, Y., Zhu, S., Chen, J., Comes, H-P., Wang, I-J., Chen, L-Y., Sakaguchi, S., Qiu, YX. (2020) Genomic insights into historical population dynamics, local adaptation and climate change vulnerability of the East Asian Tertiary relict Euptelea (Eupteleaceae), Evolutionary Applications, doi: https://doi.org/10.1111/eva.12960.

50. Sakagami, T., Sakaguchi, S., Isagi, Y., Setoguchi, H. (2020) Development and characterization of nuclear microsatellite markers in Aphananthe aspera (Thunb.) Planch. (Cannabaceae), Journal of Forest Research., doi: 10.1080/13416979.2020.1744232.

51. 阪口翔太, 福本繁, 長澤耕樹, 増田和俊, 髙橋大樹, 瀬戸口浩彰, 古田卓, 岸本泰典, 平塚健一, 舩津慧, 石原正恵 (2020) 京都府芦生にてフガクスズムシソウ（ラン科）を記録する, 植物地理・分類研究.

52. Wang, HN., Moore, M., Barrett, RL., Landrein, S., Sakaguchi, S., Maki, M., Wen, J., and Wang, HF. (2020) Plastome phylogenomic insights into the Sino-Japanese biogeography of Diabelia (Caprifoliaceae), Journal of Systematics and Evolution, doi: https://doi.org/10.1111/jse.12560.

53. Nagasawa, K., Setoguchi, H., Maki, M., Goto, H., Fukushima, K., Isagi, Y., Suyama, Y., Matsuo, A., Tsunamoto, Y., Sawa, K., Sakaguchi, S. (2020) Genetic consequences of plant edaphic specialization to solfatara fields; phylogenetic and population genetic analysis of Carex angustisquama (Cyperaceae), Molecular Ecology, doi: https://doi.org/10.1111/mec.15324.

54. Lu, R-S., Chen, Y., Tamaki, I., Sakaguchi, S., Ding, Y-Q., Takahashi, D., Li, P., Isaji, Y., Chen, J., Qiu, Y. (2020) Pre-Quaternary diversification and glacial demographic expansions of Cardiocrinum (Liliaceae) in temperate forest biomes of Sino-Japanese Floristic Region (Liliaceae), Molecular Phylogeny and Evolution, 143 (https://doi.org/10.1016/j.ympev.2019.106693).

55. Nakamasu, R., Inoue, Y., Sakaguchi, S., Setoguchi, H. (2020) A New Bulbil-Producing Variety Tricyrtis macropoda var. bulbifera (Liliaceae) From Northwestern Kyushu Island, Japan, Acta Phytotaxonomica et Geobotanica 71(2) 171-175, doi: https://doi.org/10.18942/apg.201917.

56. Nakamasu, R., Sakaguchi, S., and Setoguchi, H. (2020) Development and characterization of EST-SSR markers for Tricyrtis sect. Tricyrtis (Liliaceae), Acta Phytotaxonomica et Geobotanica, 71 (1): 73–76, doi: 10.18942/apg.201907.

57. Zhu, Z., Wang, J.H., Sakaguchi, S., Zhao, K.K., Moore, M.J., Wang, H.F. (2020) The complete plastome sequences of two Neottia species and comparative analysis with other Neottieae species (Orchidaceae), Folia Geobotanica, doi: 10.1007/s12224-019-09356-1.

58. Wang, H., Zhao, K., Landrein, S. Barrett, B., Sakaguchi, S., Maki, M., Mu, W., Yang, T., Zhu, Z., Liu, H.  (2019) Phylogeographic analysis and genetic structure of an endemic Sino-Japanese disjunctive genus Diabelia (Caprifoliaceae), Frontiers Plant Science, https://doi.org/10.3389/fpls.2019.00913.

59. Takahashi, D., Teramine, T., Sakaguchi, S., Setoguchi, H. (2019) Genetic data reveals a complex history of multiple admixture events in presently allopatric wild gingers (Asarum spp.) showing intertaxonomic clinal variation in calyx lobe length, Molecular Phylogenetics and Evolution, 137: 146-155.

60. Gaddy, LL. Carter, TH., Ely B., Sakaguchi, S., Matsuo, A. and Suyama, Y. (2019) Shortia brevistyla (Diapensiaceae), a new species from the Catawba River drainage of North Carolina, Phytologia 101(2): 113-119.

61. Kurata, S., Sakaguchi, S., Ito, M. (2019) Genetic diversity and population demography of Geranium soboliferum Kom var. kiusianum: A glacial relict plant in the wetlands of Japan, Conservation Genetics, 20(3): 431–445, doi: https://doi.org/10.1007/s10592-018-01141-5.

62. Crisp, M., Cook, L., Bowman, D., Cosgrove, M., Isagi, Y., and Sakaguchi, S. (2018) Turnover of southern cypresses in the post‐Gondwanan world: extinction, transoceanic dispersal, adaptation and rediversification, New Phytologist, 221(4): 2308-2319, doi: 10.1111/nph.15561.

63. Nagasawa, K., Setoguchi, H., Maki, M., Goto, H., Fukushima, K., Isagi, Y. and Sakaguchi, S. (2018) Development and characterization of EST-SSR markers for Carex angustisquama (Cyperaceae), an extremophyte in solfatara fields, Applications in Plant Sciences, doi: 10.1002/aps3.1185.

64. Takahashi, D., Sakaguchi, S., Isagi, Y., Setoguchi, H. (2018) Comparative chloroplast genomics of series Sakawanum in genus Asarum (Aristolochiaceae) to develop single nucleotide polymorphism (SNP) and simple sequence repeat (SSR) markers, Journal of Forest Research, doi: 10.1080/13416979.2018.1518649.

65. Worth, J.R.P., Sakaguchi, S., Harrison P.A., Brueniche-Olsen A., Janes J.K., Crisp M.C. and Bowman, D.M.J.S. (2018) Pleistocene divergence of two disjunct conifers in the eastern Australian temperate zone, Biological Journal of the Linnean Society, doi: 10.1093/biolinnean/bly127.

66. Sakaguchi, S., Horie, K., Ishikawa, N., Nishio, S., Worth, J., Fukushima, K., Yamasaki, M., and Ito, M. (2018) Maintenance of soil ecotypes of Solidago virgaurea in close parapatry via divergent flowering time and selection against immigrants, Journal of Ecology. https://doi.org/10.1111/1365-2745.13034.

67. Magota, K., Sakaguchi, S., Akai, K., Isagi, Y., Setoguchi, H. (2018) Genetic diversity of Saxifraga acerifolia and S. fortunei based on nuclear and chloroplast microsatellite markers, Bull. Natl. Mus. Nat. Sci., Ser. B, 44, 2, 85–96.

68. Echevarria, G., Baker, AJM,, Boyd, R., van der Ent, A., Mizuno, T., Rajakaruna, N., Sakaguchi, S., Bani, A., (2018) A global forum on ultramafic ecosystems: from ultramafic ecology to rehabilitation of degraded environments, Ecological Research, 33, 517. https://doi.org/10.1007/s11284-018-1611-3

69. Sakaguchi, S., Kimura, T., Kyan, R., Maki, M., Nishino, T., Ishikawa, N., Nagano, A., Honjo, M., Yasugi, M., Kudoh, H., Li, P., Choi, H- J., Chernyagina, O. and Ito, M. (2018) Phylogeographic analysis of the East Asian goldenrod (Solidago virgaurea complex, Asteraceae) reveals hidden ecological diversification with recurrent formation of ecotypes, Annals of Botany, doi: 10.1093/aob/mcx182.

70. Sakaguchi, S., Horie, K., Kimura, T., Nagano, A.J., Isagi, Y., Ito, M. (2017) Phylogeographic testing of alternative histories of single- origin versus parallel evolution of early flowering serpentine populations of Picris hieracioides L. (Asteraceae) in Japan, Ecological Research, doi: 10.1007/s11284-017-1536-2.

71. Sakaguchi, S., Takahashi, D., Setoguchi, H., and Isagi, Y. (2017) Genetic structure of the clonal herb Tanakaea radicans (Saxifragaceae) at multiple spatial scales, revealed by nuclear and mitochondrial microsatellite markers, Plant Species Biology,doi: 10.1111/1442-1984.12196.

72. Worth, J. R. P, Yang, J-C., Kanetani, S., Kikuchi, S., Sakaguchi, S., Ihara-Udino, T. (2017) Development of nuclear microsatellite markers for the Japanese conifers Tsuga diversifolia and T. sieboldii (Pinaceae), Plant Species Biology, doi: 10.1111/1442-1984.12182.

73. Takahashi, D., Teramine, T., Sakaguchi, S., and Setoguchi, H. (2017) Relative contributions of neutral and non-neutral processes to clinal variation in calyx lobe length in the series Sakawanum (Asarum: Aristolochiaceae), Annals of Botany, doi: 10.1093/aob/mcx122.

74. Sakaguchi, S., Horie, K., Ishikawa, N., Nagano, J.A., Yasugi, M., Kudoh, H. and Ito, M. (2017) Simultaneous evaluation of the effects of geographic, environmental and temporal isolation in ecotypic populations of Solidago virgaurea, New Phytologist, 216(4):1268-1280, doi:10.1111/nph.14744.

75. Sugahara, K., Kaneko, Y., Sakaguchi, S., Ito, S., Yamanaka, K., Sakio, H., Hoshizaki, K., Suzuki, W., Yamanaka, N., Isagi, Y., Momohara, A., Setoguchi, H. (2017) Quaternary range-shift history of Japanese wingnut (Pterocarya rhoifolia) in the Japanese Archipelago evidenced from chloroplast DNA and ecological niche modeling, Journal of Forest Research, 1-12; 10.1080/13416979.2017.1351837.

76. Hirano, M., Sakaguchi, S., Takahashi, K. (2017) Phenotypic differentiation of the Solidago virgaurea complex along an elevational gradient: Insights from a common garden experiment and population genetics, Ecology and Evolution, doi: 10.1002/ece3.3252.

77. Sakaguchi, S., Ueno, S., Tsumura, Y., Setoguchi, H., Ito, M., Hattori, C., Nozoe, S., Takahashi, D., Nakamasu, R., Sakagami, T., Lannuzel, G., Fogliani, B., Wulff, A.S., L’Huillier, L. and Isagi, Y. (2017) Application of a simplified method of chloroplast enrichment to small amounts of tissue for chloroplast genome sequencing, Applications in Plant Sciences, doi: http://dx.doi.org/10.3732/apps.1700002.

78. Kurata, S., Sakaguchi, S., Ito, M. (2016) Development of nuclear microsatellite markers for the threatened wetland plant Geranium soboliferum var. kiusianum (Geraniaceae), Plant Species Biology, doi: 10.1111/1442-1984.12160.

79. Yoichi, W., Sakaguchi, S., Ueno, S., Tomaru, N., and Uehara, K. (2016) Development and characterization of EST-SSR markers for the genus Rhododendron section Brachycalyx (Ericaceae), Plant Species Biology, doi: 10.1111/1442-1984.12155.

80. Takahashi, D., Sakaguchi, S., and Setoguchi, H. (2016) Development and characterization of EST-SSR markers in Asarum sakawanum var. stellatum and cross-amplification in related species, Plant Species Biology, doi: 10.1111/1442-1984.12156.

81. Yoichi, W., Tamaki, I., Sakaguchi, S., Song, J-S., Yamamoto, S-I., Tomaru, N. (2016) Population demographic history of a temperate shrub, Rhododendron weyrichii (Ericaceae), on continental islands of Japan and South Korea, Ecology and Evolution, 6: 8800–8810. doi: 10.1002/ece3.2576.

82. James R. P. Worth, Gregory J. Jordan, James R. Marthick, Sakaguchi, S., Eric A. Colhoun, Grant J. Williamson, Motomi Ito and David J.M.S Bowman (2016) Fire is a major driver of the genetic diversity of two co-occurring Tasmanian palaeo-endemic conifers, Journal of Biogeography; doi:10.1111/jbi.12919.

83. James R. P. Worth, Sakaguchi, S., Karl D. Rann, Clarence J. W. Bowman, Motomi Ito, Gregory J. Jordan, David M. J. S. Bowman (2016) Gondwanan conifer clones imperilled by bushfire, Scientific Reports 6, (doi:10.1038/srep33930). 

84. Zhao, KK.,Wang, HF., Sakaguchi, S., Landrein, S., Isagi, Y., Maki, M. (2016) Development and characterization of EST-SSR markers in an East Asian temperate plant genus Diabelia (Caprifoliaceae), Plant Species Biology (doi: 10.1111/1442-1984.12143).

85. Han, QX. , Sakaguchi, S., Setoguchi, H. (2016) Geographic variation in leaf trichome of wild radish (Raphanus sativus L. var. raphanistroides Makino) in Japan, Journal of Phytogeography and Taxonomy 64: 17-23.

86. 岩崎貴也，阪口翔太，津田吉晃 (2016) 分子系統地理学に生態ニッチモデリングがもたらす新展開と課題, 植物地理・分類研究.

87. Cao, Y-N., Comes, H.P., Sakaguchi, S., Chen, L.Y., and Qiu, Y.X. (2016) Evolution of East Asia’s Arcto-Tertiary relict Euptelea(Eupteleaceae) shaped by Late Neogene vicariance and Quaternary climate change. BMC Evolutionary Biology 16:66 (DOI: 10.1186/s12862-016-0636-x).

88. Ishikawa, N., Sakaguchi, S., Motomi Ito (2016) Development and characterization of SSR Markers for Aster savatieri(Asteraceae). Applications in Plant Sciences, 4(6) apps.1500143 (DOI:  10.3732/apps.1500143).

89. Worth, J.R.P, Larcombe, M.J., Sakaguchi, S., Marthick, J.R., Bowman, D.M.J.S., Ito, M. and Jordan, G.J. (2016) Transient hybridization, not homoploid hybrid speciation, between ancient and deeply divergent conifers. American Journal of Botany, 103(2):246-259.

90. Sakaguchi, S., Sugino, T., Tsumura, Y., Ito, M., Crisp, M.D., Bowman, D.M.J.S., Nagano, A.J., Honjo, M.N., Yasugi, M., Kudoh, H., Matsuki, Y., Suyama, Y. and Isagi, Y. (2015) High-throughput linkage mapping of Australian white cypress pine (Callitris glaucophylla) and map transferability to related species. Tree Genetics & Genomes, 11, 6, 1-12.

91. Ikeda, H., Sakaguchi, S., Yakubov, V., Barkalov, V., Setoguchi, H. (2015) Importance of demographic history for phylogeographic inference on the arctic – alpine plant Phyllodoce caerulea in East Asia. Heredity 116: 232-238. doi: 10.1038/hdy.

92. Sakaguchi, S., Lannuzel, G., Fogliani, B., Wulff, A. S., L’Huillier, L., Kurata, S., Ueno, S., Isagi, Y., Tsumura, Y., Ito, M. (2015) Development of nuclear and chloroplast microsatellite markers for the endangered conifer Callitris sulcata (Cupressaceae). Applications in Plant Sciences, 3(8) (DOI: http://dx.doi.org/10.3732/apps.1500045).

93. Sakaguchi, S., Worth, J., Jordan, G., Thomas, P. and Ito, M. (2015) Development of nuclear and mitochondrial microsatellite markers for the relictual conifer genus Athrotaxis (Cupressaceae). Conservation Genetics Resources  7, 477–481 (DOI: 10.1007/s12686-014- 0400-8).

94. Sakaguchi, S., Worth, J., Jordan, G., Thomas, P. and Ito, M. (2015) Development of nuclear microsatellite markers for the Tasmanian endemic conifer Diselma archeri Hook. F. (Cupressaceae). Conservation Genetics Resources 7, 369–372 (DOI: 10.1007/s12686-014- 0368-4). 

95. 岩崎貴也・阪口翔太・横山良太・高見泰興・大澤剛士・池田紘士・陶山佳久 (2014) 地理情報システム技術を用いた歴史生物地理学的解析．日本生態学会誌, 64, 183-199.

96. Sakaguchi, S., Tsumura, Y., Crisp, M.D., Bowman, D.M.J.S. and Isagi, Y. (2014) Genetic evidence for paternal inheritance of the chloroplast in four Australian Callitris species (Cupressaceae). Journal of Forest Research, 19, 244-248.

97. Qi, X-S., Comes, H. P., Yuan, N., Sakaguchi, S., Qiu, Y-X. (2014) A strong 'filter' effect of the East China Sea land bridge for East Asia's temperate plant species: inferences from molecular phylogeography and ecological niche modelling of Platycrater arguta (Hydrangeaceae). BMC Evolutionary Biology, 14-41.

98. 福島慶太郎・阪口翔太・井上みずき・藤木大介・徳地直子・西岡裕平・長谷川敦史・藤井弘明・山崎理正・高柳敦 (2014) シカによる下層植生の過採食が森林の土壌窒素動態に与える影響．日本緑化工学会誌 39, 360-367．

99. Sakata, Y., Sakaguchi, S. and Yamasaki, M. (2014) Does community-level floral abundance affect the pollination success of a rewardless orchid, Calanthe reflexa Maxim.? Plant Species Biology, 29, 159-168.

100. Sakaguchi, S. and Ito, M. (2014) Development and characterization of EST-SSR markers for Solidago virgaurea complex (Asteraceae) in the Japanese Archipelago. Applications in Plant Sciences, 1400035 (DOI: 10.3732/apps.1400035).

101. Worth, J., Williamson, G., Sakaguchi, S., Nevill, P., Jordan, G. (2014) Environmental niche modelling fails to predict Last Glacial Maximum refugia: niche shifts, microrefugia or incorrect palaeoclimate estimates? Global Ecology and Biogeography, 23, 1186–1197.

102. Sakaguchi, S., Bowman, D. M. J. S., Prior, L. D.,Crisp, M. D., Linde, C. C., Tsumura, Y., and Isagi, Y. (2013) Climate, not Aboriginal landscape burning, controlled the historical demography and distribution of fire-sensitive conifer populations across Australia. Proceedings of the Royal Society B, 280 1773 20132182.

103. Worth, J.R.P., Sakaguchi, S., Tanaka, N., Yamasaki, M. and Isagi, Y. (2013) Northern richness and southern poverty: Contrasting genetic footprints of glacial refugia in the relictual tree Sciadopitys verticillata (Coniferales; Sciadopityaceae). Biological Journal of the Linnean Society, 108, 263-277.

104. Higashi, H., Sakaguchi, S., Ikeda, H., Isagi, Y. and Setoguchi, H. (2013) Multiple introgression events and range shifts of Schizocodon (Diapensiaceae) during the Pleistocene. Botanical Journal of the Linnean Society, 173, 46–63.

105. Inoue, M., Sakaguchi, S., Fukushima, K., Sakai, M., Takayanagi, A., Fujiki, D. and Yamasaki, M. (2013) Among-year variation in deer population density index estimated from road count surveys. Journal of Forest Research, 18, 491-497.

106. Sakaguchi, S., Qiu, Y.X., Liu, Y., Qi, X.S., Kim, S.H., Han, J., Takeuchi, Y., Worth, J.R.P., Yamasaki, M., Sakurai, S. and Isagi, Y. (2012) Climate oscillation during the Quaternary associated with landscape heterogeneity promoted allopatric lineage divergence of a temperate tree Kalopanax septemlobus (Araliaceae) in East Asia. Molecular Ecology, 21, 3823-3838.

107. Qi, X.S., Chen, C., Comes, H.P., Sakaguchi, S., Liu, Y.H., Tanaka, N., Sakio, H. and Qiu, Y.X. (2012) Molecular data and ecological niche modelling reveal a highly dynamic evolutionary history of the East Asian Tertiary relict Cercidiphyllum (Cercidiphyllaceae). New Phytologist, 196, 617-630.

108. Sakaguchi, S., Yamasaki, M., Tanaka, C. and Isagi, Y. (2012) Examining the factors influencing leaf disease intensity of Kalopanax septemlobus (Thunb. ex Murray) Koidzumi (Araliaceae) over multiple spatial scales: from the individual, forest stand, to the regions in the Japanese Archipelago. The Journal of Ecology and Field Biology, 35 (4), 1-7.

109. 石原正恵・今西亜友美・阪口翔太・福澤加里部・向昌宏・吉岡崇仁 (2012) 芦生研究林におけるシカ排除柵によるススキ群落の回復過程. 森林研究 78, 39-56 .

110. 阪口翔太・藤木大介・井上みずき・山崎理正・福島慶太郎・高柳敦 (2012) ニホンジカが多雪地域の樹木個体群の更新過程・種多様性に 及ぼす影響. 森林研究 78, 57-69.

111. 阪口翔太・藤木大介・井上みずき・山崎理正・福島慶太郎・高柳敦 (2012) 日本海側冷温帯性針広混交林におけるニホンジカの植物嗜好性. 森林研究 78, 71-80.

112. Sakaguchi, S., Takeuchi, Y., Yamasaki, M., Sakurai, S. and Isagi, Y. (2011) Lineage admixture during postglacial range expansion is responsible for the increased gene diversity of Kalopanax septemlobus in a recently colonised territory. Heredity, 107, 338–348.

113. Sakaguchi, S., Uchiyama, K., Ueno, S., Ujino-Ihara, T., Tsumura, Y., Prior, L.D., Bowman, D.M.J.S., Crisp, M.D. and Isagi, Y. (2011) Isolation and characterization of 52 polymorphic EST-SSR markers for Callitris columellaris (Cupressaceae). American Journal of Botany, 98, e363–e368.

114. Sakaguchi, S., Sakurai, S., Yamasaki, M. and Isagi, Y. (2010) How did the exposed seafloor function in postglacial northward range expansion of Kalopanax septemlobus? Evidence from ecological niche modelling. Ecological Research, 25, 1183–1195.

115. 井上みずき・合田禄・阪口翔太・藤木大介・山崎理正・高柳敦・藤崎憲治 (2008) ニホンジカの森林生態系へのインパクト－芦生研究林. 森林研究, 77, 1-4.

116. 阪口翔太・藤木大介・井上みずき・高柳敦 (2008) 芦生上谷流域の植物多様性と群集構造 ―トランセクトネットワークによる植物群集と希少植物の検出―. 森林研究, 77, 43-61.

Articles without review

1. 水澤玲子・黒沢高秀・阪口翔太・山下由美 (2023) 尾瀬国立公園燧ヶ岳山麓の トガクシソウRanzania japonica (T.Itô ex Maxim.) T.Itôの 訪花昆虫, 尾瀬の保護と復元 第35号, 41-46. 

2. 阪口翔太 (2023) 希少種・特産種 気になるあの植物18〈イワユキノシタ〉. 趣味の山野草 2023年6月号, 栃の葉書房.

3. 阪口翔太 (2023) 希少種・特産種 気になるあの植物16〈ウスギゼンテイカ〉. 趣味の山野草 2023年4月号, 栃の葉書房.

4. 阪口翔太 (2023) 森林遺伝育種のデータ解析方法（実践編 11）生態ニッチモデリング（前編）, 森林遺伝育種12(1) 9-15. doi: https://doi.org/10.32135/fgtb.12.1_9.

5. 阪口翔太 (2022) 希少種・特産種 気になるあの植物13〈ヤマタヌキラン〉. 趣味の山野草 2023年1月号, 栃の葉書房.

6. 阪口翔太 (2022) 希少種・特産種 気になるあの植物10〈ヤンバルアオヤギバナ〉. 趣味の山野草 2022年10月号, 栃の葉書房.

7. 阪口翔太 (2022) 希少種・特産種 気になるあの植物6〈フガクヤシャビシャク〉. 趣味の山野草 2022年6月号, 栃の葉書房.

8. 平塚健一・阪口翔太・阿部篤志・大谷拓也・石川智昇・長澤淳一・陶山佳久・松尾歩・瀬戸口浩彰 (2020) 日本産トビカズラ属植物（マメ科）の遺伝的多様性. 日本植物園協会誌, 55.

9. 阪口翔太 (2019) 北海道の蛇紋岩地帯におけるキク科植物2種の生態的種分化, 旭川市北邦野草園 研究報告第7号 1-16.

10. 阪口翔太 (2019) 生態的多様化を遂げた植物群の次世代シークエンス解析, 森林遺伝育種 8(1).

11. 阪口翔太 (2018) 歴史ロマンも山草趣味も楽しめる植物多様性研究, 植物地理・分類研究66(2) 111-120, doi: 10.18942/chiribunrui.0662-02．

12. 阪口翔太 (2017) 花の咲く時期の違いが新しい種を生む – 秋に咲かなくなったアキノキリンソウの進化学. Academist Journal (2017.9.21 掲載).

13. 阪口翔太 (2016) 日本の森林樹木の地理的遺伝構造（8）ハリギリ（ウコギ科ハリギリ属）. 森林遺伝育種, 5, 138-142.

14. 阪口翔太 (2015) 日本の森林樹木の地理的遺伝構造（13） カツラとヒロハカツラ（カツラ科）. 森林遺伝育種, 4, 16-21.

15. 阪口翔太 (2014) 樹木の遺伝情報から見えてきた過去の環境変動と個体群の関係. グリーン・パワー, 421, 12.

16. 玉木一郎・木村恵・加藤珠理・阪口翔太・渡辺洋一・小笠原玄記・九石太樹・岩崎貴也・内山憲太郎・鳥丸猛・近藤俊明・上野真義・ 村上聡 (2014) 第4回森林遺伝学若手勉強会の報告. 森林遺伝育種, 3, 37-41.

17. 阪口翔太 (2014) 伊豆諸島産アキノキリンソウについて, 七島花の会会報, 65, 24.

18. 福島慶太郎・井上みずき・境優・阪口翔太・岩井有加・橋本智之・本田美里・坂田ゆず・藤木大介・山崎理正・中島皇・高柳敦 (2013) 芦生冷温帯天然林における大規模シカ防除柵設置5年度の生態系機能の回復過程とそのメカニズムに関する研究. プロ・ナトゥーラ・ ファンド第21期助成成果報告書, 27-52.

19. 阪口翔太 (2012) 大規模防鹿柵を用いた森林生態系機能復元技術の実証．平成 23 年度森林環境保全総合対策事業―森林被害対策事業― 野生鳥獣による森林生態系への被害対策技術開発事業報告書. (株) 野生動物保護管理事務所, 93-100. 

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