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For: Chang CW, Miki T, Ushio M, Ke PJ, Lu HP, Shiah FK, Hsieh CH. Reconstructing large interaction networks from empirical time series data. Ecol Lett 2021;24:2763-2774. [PMID: 34601794 DOI: 10.1111/ele.13897] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2021] [Accepted: 09/03/2021] [Indexed: 01/03/2023]
Number Cited by Other Article(s)
1
Chang CJ, Chang CW, Lu HP, Hsieh CH, Wu JH. Bioenergetically constrained dynamical microbial interactions govern the performance and stability of methane-producing bioreactors. NPJ Biofilms Microbiomes 2025;11:31. [PMID: 39971951 PMCID: PMC11840090 DOI: 10.1038/s41522-025-00668-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2024] [Accepted: 02/10/2025] [Indexed: 02/21/2025]  Open
2
Yu Z, Gan Z, Tawfik A, Meng F. Exploring interspecific interaction variability in microbiota: A review. ENGINEERING MICROBIOLOGY 2024;4:100178. [PMID: 40104221 PMCID: PMC11915528 DOI: 10.1016/j.engmic.2024.100178] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/23/2024] [Revised: 11/04/2024] [Accepted: 11/04/2024] [Indexed: 03/20/2025]
3
Hashimoto K, Hayasaka D, Eguchi Y, Seko Y, Cai J, Suzuki K, Goka K, Kadoya T. Multifaceted effects of variable biotic interactions on population stability in complex interaction webs. Commun Biol 2024;7:1309. [PMID: 39438612 PMCID: PMC11496648 DOI: 10.1038/s42003-024-06948-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Accepted: 09/24/2024] [Indexed: 10/25/2024]  Open
4
Kawatsu K. Local-manifold-distance-based regression: an estimation method for quantifying dynamic biological interactions with empirical time series. ROYAL SOCIETY OPEN SCIENCE 2024;11:231795. [PMID: 39086828 PMCID: PMC11288672 DOI: 10.1098/rsos.231795] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Revised: 03/12/2024] [Accepted: 06/11/2024] [Indexed: 08/02/2024]
5
Tal O, Ostrovsky I, Gal G. A framework for identifying factors controlling cyanobacterium Microcystis flos-aquae blooms by coupled CCM-ECCM Bayesian networks. Ecol Evol 2024;14:e11475. [PMID: 38932972 PMCID: PMC11199127 DOI: 10.1002/ece3.11475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2023] [Revised: 05/06/2024] [Accepted: 05/10/2024] [Indexed: 06/28/2024]  Open
6
Ushio M, Saito H, Tojo M, Nagano AJ. An ecological network approach for detecting and validating influential organisms for rice growth. eLife 2023;12:RP87202. [PMID: 37702717 PMCID: PMC10499375 DOI: 10.7554/elife.87202] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/14/2023]  Open
7
Gonzalez A, Chase JM, O'Connor MI. A framework for the detection and attribution of biodiversity change. Philos Trans R Soc Lond B Biol Sci 2023;378:20220182. [PMID: 37246383 DOI: 10.1098/rstb.2022.0182] [Citation(s) in RCA: 22] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Accepted: 01/31/2023] [Indexed: 05/30/2023]  Open
8
Zhao Q, Van den Brink PJ, Xu C, Wang S, Clark AT, Karakoç C, Sugihara G, Widdicombe CE, Atkinson A, Matsuzaki SIS, Shinohara R, He S, Wang YXG, De Laender F. Relationships of temperature and biodiversity with stability of natural aquatic food webs. Nat Commun 2023;14:3507. [PMID: 37316479 DOI: 10.1038/s41467-023-38977-6] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2022] [Accepted: 05/22/2023] [Indexed: 06/16/2023]  Open
9
Fujita H, Ushio M, Suzuki K, Abe MS, Yamamichi M, Iwayama K, Canarini A, Hayashi I, Fukushima K, Fukuda S, Kiers ET, Toju H. Alternative stable states, nonlinear behavior, and predictability of microbiome dynamics. MICROBIOME 2023;11:63. [PMID: 36978146 PMCID: PMC10052866 DOI: 10.1186/s40168-023-01474-5] [Citation(s) in RCA: 21] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/13/2022] [Accepted: 01/24/2023] [Indexed: 06/18/2023]
10
Munch SB, Rogers TL, Sugihara G. Recent developments in empirical dynamic modelling. Methods Ecol Evol 2023. [DOI: 10.1111/2041-210x.13983] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/06/2023]
11
Grziwotz F, Chang CW, Dakos V, van Nes EH, Schwarzländer M, Kamps O, Heßler M, Tokuda IT, Telschow A, Hsieh CH. Anticipating the occurrence and type of critical transitions. SCIENCE ADVANCES 2023;9:eabq4558. [PMID: 36608135 PMCID: PMC9821862 DOI: 10.1126/sciadv.abq4558] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Accepted: 12/02/2022] [Indexed: 06/17/2023]
12
Medeiros LP, Allesina S, Dakos V, Sugihara G, Saavedra S. Ranking species based on sensitivity to perturbations under non-equilibrium community dynamics. Ecol Lett 2023;26:170-183. [PMID: 36318189 PMCID: PMC10092288 DOI: 10.1111/ele.14131] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2022] [Revised: 09/20/2022] [Accepted: 09/27/2022] [Indexed: 11/06/2022]
13
Effects of phytoplankton, viral communities, and warming on free-living and particle-associated marine prokaryotic community structure. Nat Commun 2022;13:7905. [PMID: 36550140 PMCID: PMC9780322 DOI: 10.1038/s41467-022-35551-4] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2022] [Accepted: 12/09/2022] [Indexed: 12/24/2022]  Open
14
Mühlbauer LK, Harpole WS, Clark AT. Differences in initial abundances reveal divergent dynamic structures in Gause's predator-prey experiments. Ecol Evol 2022;12:e9638. [PMID: 36545367 PMCID: PMC9760897 DOI: 10.1002/ece3.9638] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Revised: 10/25/2022] [Accepted: 11/23/2022] [Indexed: 12/23/2022]  Open
15
Clark AT, Mühlbauer LK, Hillebrand H, Karakoç C. Measuring stability in ecological systems without static equilibria. Ecosphere 2022. [DOI: 10.1002/ecs2.4328] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]  Open
16
Decomposing predictability to identify dominant causal drivers in complex ecosystems. Proc Natl Acad Sci U S A 2022;119:e2204405119. [PMID: 36215500 PMCID: PMC9586263 DOI: 10.1073/pnas.2204405119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
17
Yu Z, Huang Y, Gan Z, Meng Y, Meng F. State-Space-Based Framework for Predicting Microbial Interaction Variability in Wastewater Treatment Plants. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022;56:12765-12777. [PMID: 35943816 DOI: 10.1021/acs.est.2c02844] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
18
Daugaard U, Munch SB, Inauen D, Pennekamp F, Petchey OL. Forecasting in the face of ecological complexity: Number and strength of species interactions determine forecast skill in ecological communities. Ecol Lett 2022;25:1974-1985. [PMID: 35831269 PMCID: PMC9540476 DOI: 10.1111/ele.14070] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Revised: 06/12/2022] [Accepted: 06/17/2022] [Indexed: 11/28/2022]
19
Huang Y, Kausrud K, Hassim A, Ochai SO, van Schalkwyk OL, Dekker EH, Buyantuev A, Cloete CC, Kilian JW, Mfune JKE, Kamath PL, van Heerden H, Turner WC. Environmental drivers of biseasonal anthrax outbreak dynamics in two multihost savanna systems. ECOL MONOGR 2022. [DOI: 10.1002/ecm.1526] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
20
Chang CW, Miki T, Ye H, Souissi S, Adrian R, Anneville O, Agasild H, Ban S, Be'eri-Shlevin Y, Chiang YR, Feuchtmayr H, Gal G, Ichise S, Kagami M, Kumagai M, Liu X, Matsuzaki SIS, Manca MM, Nõges P, Piscia R, Rogora M, Shiah FK, Thackeray SJ, Widdicombe CE, Wu JT, Zohary T, Hsieh CH. Causal networks of phytoplankton diversity and biomass are modulated by environmental context. Nat Commun 2022;13:1140. [PMID: 35241667 PMCID: PMC8894464 DOI: 10.1038/s41467-022-28761-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2020] [Accepted: 02/11/2022] [Indexed: 11/21/2022]  Open
21
Ushio M. Interaction capacity as a potential driver of community diversity. Proc Biol Sci 2022;289:20212690. [PMID: 35193401 PMCID: PMC8864351 DOI: 10.1098/rspb.2021.2690] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]  Open
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