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Adamatzky, A., Goles, E., Martinez, G. J., Tsompanas, M. A., Tegelaar, M., & Wosten, H. A. B. (2020). Fungal Automata. Complex Syst., 29(4), 759–778.
Abstract: We study a cellular automaton (CA) model of information dynamics on a single hypha of a fungal mycelium. Such a filament is divided in compartments (here also called cells) by septa. These septa are invaginations of the cell wall and their pores allow for the flow of cytoplasm between compartments and hyphae. The septal pores of the fungal phylum of the Ascomycota can be closed by organelles called Woronin bodies. Septal closure is increased when the septa become older and when exposed to stress conditions. Thus, Woronin bodies act as informational flow valves. The one-dimensional fungal automaton is a binary-state ternary neighborhood CA, where every compartment follows one of the elementary cellular automaton (ECA) rules if its pores are open and either remains in state 0 (first species of fungal automata) or its previous state (second species of fungal automata) if its pores are closed. The Woronin bodies closing the pores are also governed by ECA rules. We analyze a structure of the composition space of cell-state transition and pore-state transition rules and the complexity of fungal automata with just a few Woronin bodies, and exemplify several important local events in the automaton dynamics.
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Goles, E., Tsompanas, M. A., Adamatzky, A., Tegelaar, M., Wosten, H. A. B., & Martinez, G. J. (2020). Computational universality of fungal sandpile automata. Phys. Lett. A, 384(22), 8 pp.
Abstract: Hyphae within the mycelia of the ascomycetous fungi are compartmentalised by septa. Each septum has a pore that allows for inter-compartmental and inter-hyphal streaming of cytosol and even organelles. The compartments, however, have special organelles, Woronin bodies, that can plug the pores. When the pores are blocked, no flow of cytoplasm takes place. Inspired by the controllable compartmentalisation within the mycelium of the ascomycetous fungi we designed two-dimensional fungal automata. A fungal automaton is a cellular automaton where communication between neighbouring cells can be blocked on demand. We demonstrate computational universality of the fungal automata by implementing sandpile cellular automata circuits there. We reduce the Monotone Circuit Value Problem to the Fungal Automaton Prediction Problem. We construct families of wires, cross-overs and gates to prove that the fungal automata are P-complete. (C) 2020 Elsevier B.V. All rights reserved.
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Menares, F., Carrasco, M. A., Gonzalez, B., Fuentes, I., & Casanova, M. (2017). Phytostabilization Ability of Baccharis linearis and Its Relation to Properties of a Tailings-Derived Technosol. Water Air Soil Pollut., 228(5), 17 pp.
Abstract: Spontaneous colonization of mine tailing dams by plants is a potential tool for phytostabilization of such reservoirs. However, the physical and chemical properties of each mine tailings deposit determine the success of natural plant establishment. The plant Baccharis linearis is the main native nanophanerophyte species (evergreen sclerophyllous shrub) that naturally colonizes abandoned copper tailings dams in arid to semiarid north-central Chile. This study compare growth of B. linearis against the physical and chemical properties of a Technosol derived from copper mine tailings. Five sites inside the deposit were selected based on B. linearis vegetation density (VD), at two soil sampling depths under the canopy of adult individuals. Physical and chemical properties of tailings samples and nutrient concentrations in tailings and plants were each determined. Some morphological features of the plants (roots and aerial parts) were also quantified. There were significant differences in soil available water capacity (AW) and relative density (Rd) at different VD. Sites with low AW and high Rd had lower nutrient concentrations and higher Zn content in tailings, decreased infection by arbuscular mycorrhizal fungi, and increased fine root abundance and root hair length in individual plants. In contrast, higher AW, which was positively correlated with fine particles and organic matter content, had a positive effect on vegetation coverage, increased N and P contents in tailings, and increased N contents in leaf tissues, even when available N and P levels in tailings were low. Multiple constraints, such as low AW, N, P, and B contents and high Zn concentrations in the tailings restricted vegetation coverage, but no phenotypic differences were observed between individuals. Thus, in order to promote dense coverage by B. linearis, water retention in these tailings must be improved by increasing colloidal particles (organic and/or inorganic) contents, which have a positive effect on colonization by this species.
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Poupin, M. J., Ledger, T., Rosello-Mora, R., & Gonzalez, B. (2023). The Arabidopsis holobiont: a (re)source of insights to understand the amazing world of plant-microbe interactions. Environ. microbiome, 18(1), 9.
Abstract: As holobiont, a plant is intrinsically connected to its microbiomes. However, some characteristics of these microbiomes, such as their taxonomic composition, biological and evolutionary role, and especially the drivers that shape them, are not entirely elucidated. Reports on the microbiota of Arabidopsis thaliana first appeared more than ten years ago. However, there is still a lack of a comprehensive understanding of the vast amount of information that has been generated using this holobiont. The main goal of this review was to perform an in-depth, exhaustive, and systematic analysis of the literature regarding the Arabidopsis-microbiome interaction. A core microbiota was identified as composed of a few bacterial and non-bacterial taxa. The soil (and, to a lesser degree, air) were detected as primary microorganism sources. From the plant perspective, the species, ecotype, circadian cycle, developmental stage, environmental responses, and the exudation of metabolites were crucial factors shaping the plant-microbe interaction. From the microbial perspective, the microbe-microbe interactions, the type of microorganisms belonging to the microbiota (i.e., beneficial or detrimental), and the microbial metabolic responses were also key drivers. The underlying mechanisms are just beginning to be unveiled, but relevant future research needs were identified. Thus, this review provides valuable information and novel analyses that will shed light to deepen our understanding of this plant holobiont and its interaction with the environment.
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