Emergent coexistence in multispecies microbial communities DOI
Chang‐Yu Chang, Djordje Bajić, Jean C. C. Vila

et al.

Science, Journal Year: 2023, Volume and Issue: 381(6655), P. 343 - 348

Published: July 20, 2023

Understanding the mechanisms that maintain microbial biodiversity is a critical aspiration in ecology. Past work on coexistence has largely focused species pairs, but it unclear whether pairwise isolation required for multispecies community. To address this question, we conducted hundreds of competition experiments among stably coexisting members 12 different enrichment communities vitro. determine outcomes these experiments, developed an automated image analysis pipeline to quantify abundances. We found competitive exclusion was most common outcome, and strongly hierarchical transitive. Because many coexist within stable community fail co-culture under identical conditions, concluded emergent phenomenon. This highlights importance context understanding origins complex ecosystems.

Language: Английский

Networks beyond pairwise interactions: Structure and dynamics DOI Creative Commons
Federico Battiston, Giulia Cencetti, Iacopo Iacopini

et al.

Physics Reports, Journal Year: 2020, Volume and Issue: 874, P. 1 - 92

Published: June 13, 2020

The complexity of many biological, social and technological systems stems from the richness interactions among their units. Over past decades, a great variety complex has been successfully described as networks whose interacting pairs nodes are connected by links. Yet, in face-to-face human communication, chemical reactions ecological systems, can occur groups three or more cannot be simply just terms simple dyads. Until recently, little attention devoted to higher-order architecture real systems. However, mounting body evidence is showing that taking structure these into account greatly enhance our modeling capacities help us understand predict emerging dynamical behaviors. Here, we present complete overview field beyond pairwise interactions. We first discuss methods represent give unified presentation different frameworks used describe highlighting links between existing concepts representations. review measures designed characterize models proposed literature generate synthetic structures, such random growing simplicial complexes, bipartite graphs hypergraphs. introduce rapidly research on topology. focus novel emergent phenomena characterizing landmark processes, diffusion, spreading, synchronization games, when extended elucidate relations topology properties, conclude with summary empirical applications, providing an outlook current conceptual frontiers.

Language: Английский

Citations

1159
Emergent simplicity in microbial community assembly DOI
Joshua E. Goldford, Nanxi Lu, Djordje Bajić

et al.

Science, Journal Year: 2018, Volume and Issue: 361(6401), P. 469 - 474

Published: Aug. 3, 2018

Interchanging species of similar function Under natural conditions, bacteria form mixed, interacting communities. Understanding how such communities assemble and stabilize is important in a range contexts, from biotechnological applications to what happens our guts. Goldford et al. sampled the microbial soil plants containing hundreds thousands sequence variants. The organisms were passaged after culture low concentrations single carbon sources cross-fed with each other's metabolites; then, resulting sequenced using 16S ribosomal RNA, outcomes modeled mathematically. mix that survived under steady conditions converged reproducibly reflect experimentally imposed rather than initially inoculated—although at coarse phylogenetic levels, taxonomic patterns persisted. Science , this issue p. 469

Language: Английский

Citations

898
Higher-order interactions stabilize dynamics in competitive network models DOI
Jacopo Grilli, György Barabás, Matthew J. Smith

et al.

Nature, Journal Year: 2017, Volume and Issue: 548(7666), P. 210 - 213

Published: July 25, 2017

Language: Английский

Citations

560
Establishing Causality: Opportunities of Synthetic Communities for Plant Microbiome Research DOI Creative Commons
Julia A. Vorholt, Christine Vogel,

Charlotte I. Carlström

et al.

Cell Host & Microbe, Journal Year: 2017, Volume and Issue: 22(2), P. 142 - 155

Published: Aug. 1, 2017

Language: Английский

Citations

519
Competition and coexistence in plant communities: intraspecific competition is stronger than interspecific competition DOI Creative Commons
Peter B. Adler,

Danielle M Smull,

Karen H. Beard

et al.

Ecology Letters, Journal Year: 2018, Volume and Issue: 21(9), P. 1319 - 1329

Published: June 25, 2018

Abstract Theory predicts that intraspecific competition should be stronger than interspecific for any pair of stably coexisting species, yet previous literature reviews found little support this pattern. We screened over 5400 publications and identified 39 studies quantified phenomenological interactions in terrestrial plant communities. Of the 67% species pairs which both intra‐ effects were negative (competitive), was, on average, four to five‐fold competition. remaining pairs, 93% featured facilitation, a situation stabilises coexistence. The difference between tended larger observational experimental data sets, field greenhouse studies, population growth full life cycle rather single fitness components. Our results imply processes promoting stable coexistence at local scales are common consequential across

Language: Английский

Citations

428
From networks to optimal higher-order models of complex systems DOI
Renaud Lambiotte, Martin Rosvall, Ingo Scholtes

et al.

Nature Physics, Journal Year: 2019, Volume and Issue: 15(4), P. 313 - 320

Published: March 25, 2019

Language: Английский

Citations

387
Chesson's coexistence theory DOI Creative Commons
György Barabás, Rafael D’Andrea, Simon Maccracken Stump

et al.

Ecological Monographs, Journal Year: 2018, Volume and Issue: 88(3), P. 277 - 303

Published: April 15, 2018

Abstract We give a comprehensive review of Chesson's coexistence theory, summarizing, for the first time, all its fundamental details in one single document. Our goal is both theoretical and empirical ecologists to be able use theory interpret their findings, get precise sense limits applicability. To this end, we introduce an explicit handling limiting factors, new way defining scaling factors that partition invasion growth rates into different mechanisms contributing coexistence. explain terminology such as relative nonlinearity, storage effect, growth‐density covariance, formal setting through biological interpretation. theory's applications contributions our current understanding species While very general, it not well suited problems, so carefully point out limitations. Finally, critique paradigm decomposing stabilizing equalizing components: argue these concepts are useful when used judiciously, but have often been employed overly simplified justify false claims.

Language: Английский

Citations

386
Dynamics on higher-order networks: a review DOI Creative Commons
Soumen Majhi, Matjaž Perc, Dibakar Ghosh

et al.

Journal of The Royal Society Interface, Journal Year: 2022, Volume and Issue: 19(188)

Published: March 1, 2022

Network science has evolved into an indispensable platform for studying complex systems. But recent research identified limits of classical networks, where links connect pairs nodes, to comprehensively describe group interactions. Higher-order a link can more than two have therefore emerged as new frontier in network science. Since interactions are common social, biological and technological systems, higher-order networks recently led important discoveries across many fields research. Here, we review these works, focusing particular on the novel aspects dynamics that emerges networks. We cover variety dynamical processes thus far been studied, including different synchronization phenomena, contagion processes, evolution cooperation consensus formation. also outline open challenges promising directions future

Language: Английский

Citations

329
Updates on mechanisms of maintenance of species diversity DOI Creative Commons
Peter Chesson

Journal of Ecology, Journal Year: 2018, Volume and Issue: 106(5), P. 1773 - 1794

Published: Aug. 13, 2018

Abstract A quantitative approach to species coexistence based on the invasibility criterion has led an appreciation of mechanisms in terms stabilizing and equalizing components, but major challenges are need consider general multispecies settings, interactions beyond competition, multiple scales space time. Moreover, two essential concepts, species‐level average fitness scaling factors, have not had clear definitions. defining fitnesses factors is given, along with origin as deviations from a reference model where no possible. Illustrations Lotka–Volterra models, models accounting specifically for resource use natural enemies, temporal fluctuations. Community averages reveal overall opportunities coexistence, define more precisely through their formulae. Average adjusted presence provide better definition mechanisms. While these ideas apply components invasion rates, permanence theory stochastic persistence show how rates can be used demonstrate complex settings. Although often focused detailed roles enemies new perspective nature. The concept apparent competition recognizes symmetry between density‐dependence depletion supporting enemies. Natural enemy partitioning analogue equivalent role promoting coexistence. Rather than reinforcing each other, however, strength intermediate that implied by alone alone, elucidated recent theory. Synthesis . there alternative approaches understanding continue insights. Multiple trophic levels naturally challenging, theories support critical thus derived into differences components.

Language: Английский

Citations

282
Indirect effects drive coevolution in mutualistic networks DOI
Paulo R. Guimarães, Mathias M. Pires, Pedro Jordano

et al.

Nature, Journal Year: 2017, Volume and Issue: 550(7677), P. 511 - 514

Published: Oct. 1, 2017

Language: Английский

Citations

272