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Exploring the principles of complex biological systems
Exploring the principles of complex biological systems
News
News
2026/04/11 The accepted manuscript of a review paper on microbiome stability has been released.
Toju H, Suzuki S, Sánchez-Pinillos, M, Shima G, Kageyama T, Hayashi I, Noguchi M, Fujita H, Goto Y, Nakaoka S, Ushio M, Ichihashi Y, Fricke WF, Mizumoto K, Takayasu L, Suda W, Takayasu M, Yamamichi M, Weckwerth W. (in press) Microbiome assembly statistics toward ecosystem-scale insights, forecasting, and management. The ISME Journal [Link]
2026/04/10 Ibuki's paper on the stochastic divergence of microbiome structure has been accepted by Ecology Letters.
Hayashi I, Sánchez-Pinillos M, Toju H (accepted) Stochastic forces in microbial community assembly: founding community size governs divergent ecological trajectories. Ecology Letters https://doi.org/10.1101/2025.08.09.669462l
2026/04/01 Tomohiko Ri (JSPS postdoc), Kyota Inoue (master student), and Naomi Hayashi (administrative assistant) have joined the lab!
2026/03/25 A new next-generation sequencer (Illumina MiSeq i100 Plus) has been introduced to the laboratory.
2026/03/13 A collaborative paper with Dr. Alberto Canarini has been published.
Canarini A, Mariotte P, Carrillo Y, Ochoa-Hueso R, Bougoure J, Vasileiadis S, Anderson IC, Dijkstra FA, Richter A, Toju H, Donner E, Power SA, Drigo B (2026) Enhanced belowground functioning is associated with higher plant resistance against drought: implications for ecosystem functions. Journal of Ecology [Link]
2025/11/10 A preprint of a manuscript by Mikihito Noguchi has been posted online.
Noguchi M, Suzuki K, Fujita H, Toju H (submitted) Statistical inference of keystone taxa reshaping the assembly rules of forest root microbiomes. https://doi.org/10.21203/rs.3.rs-7962497/v1
Representative papers
Fujita H, Yoshida S, Suzuki K, Toju H (2025) Alternative stable states of microbiome structure and soil ecosystem functions. Environmental Microbiome 20:28 [Link]
Toju H, Suzuki SS, Baba YG. (2024) Dynamics of interaction networks and species’ contributions to community-scale flexibility. PNAS Nexus 3:page047 [Link]
Hayashi, Fujita H, Toju H (2024) Deterministic and stochastic processes generating alternative states of microbiomes. ISME Communications 4: ycae007 [Link]
Suzuki SS, Baba YG, Toju H (2023) Dynamics of species-rich predator–prey networks and seasonal alternations of core species. Nature Ecology & Evolution 7:1432-1443 [Link] [Online-only full text]
Fujita H, Ushio M, Suzuki K, Abe MS, Yamamichi Y, Iwayama K, Canarini A, Hayashi I, Fukushima K, Fukuda S, Kiers ET, Toju H (2023) Alternative stable states, nonlinear behavior, and predictability of microbiome dynamics. Microbiome 11:63. [Link]
Fujita H, Ushio M, Suzuki K, Abe MS, Yamamichi Y, Iwayama K, Canarini A, Hayashi I, Fukushima K, Fukuda S, Kiers ET, Toju H (2023) Alternative stable states, nonlinear behavior, and predictability of microbiome dynamics. Microbiome 11:63. [Link]
Yajima D, Fujita H, Hayashi I, Shima G, Suzuki K, Toju H (2023) Core species and interactions prominent in fish-associated microbiome dynamics. Microbiome. 11:53. [Link]
Yajima D, Fujita H, Hayashi I, Shima G, Suzuki K, Toju H (2023) Core species and interactions prominent in fish-associated microbiome dynamics. Microbiome. 11:53. [Link]
Toju H, Yamamichi M, Guimarães PR Jr, Olesen JM, Mougi A, Yoshida T, Thompson JN (2017) Species-rich networks and eco-evolutionary synthesis at the metacommunity level. Nature Ecology & Evolution 1:0024. [Link]
Toju H, Yamamichi M, Guimarães PR Jr, Olesen JM, Mougi A, Yoshida T, Thompson JN (2017) Species-rich networks and eco-evolutionary synthesis at the metacommunity level. Nature Ecology & Evolution 1:0024. [Link]
Toju H, Yamamoto S, Tanabe AS, Hayakawa T, Ishii HS (2016) Network modules and hubs in plant–root fungal biomes. Journal of the Royal Society Interface 13:20151097. [Link]
Toju H, Ueno S, Taniguchi F, and Sota T. (2011) Metapopulation structure of a seed-predatory weevil and its host plant in arms race coevolution. Evolution 65: 1707-1722. [Link]
Toju H, Ueno S, Taniguchi F, and Sota T. (2011) Metapopulation structure of a seed-predatory weevil and its host plant in arms race coevolution. Evolution 65: 1707-1722. [Link]
Toju H, Abe H, Ueno S, Miyazawa Y, Taniguchi F, Sota T, and Yahara T. (2011) Climatic gradients of arms race coevolution. The American Naturalist 177: 562-573. [Link]
Toju H (2008) Fine-scale local adaptation of weevil mouthpart length and camellia pericarp thickness: altitudinal gradient of a putative arms race. Evolution 62: 1086–1102. [Link]
Toju H and Sota T. (2006) Imbalance of predator and prey armament: geographic clines in phenotypic interface and natural selection. The American Naturalist 167: 105-117. [Link]
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