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Environmental factors limiting the interaction of bacteria and fungi in the context of the oxalate-carbonate pathway

English title Environmental factors limiting the interaction of bacteria and fungi in the context of the oxalate-carbonate pathway
Applicant Junier Pilar Eugenia
Number 149853
Funding scheme Interdisciplinary projects
Research institution Laboratoire de Microbiologie Institut de Biologie Université de Neuchâtel
Institution of higher education University of Neuchatel - NE
Main discipline Other disciplines of Environmental Sciences
Start/End 01.01.2014 - 30.04.2016
Approved amount 310'000.00
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Keywords (6)

fungi; calcium; bacteria; soil; carbonate; oxalate

Lay Summary (French)

Lead
La formation de carbonate de calcium (calcaire) dans des sols acides grâce à la dégradation d’origine biologique de l’oxalate repose directement à l’interface entre biologie et géologie. La voie oxalate-carbonate (OCP), mécanisme responsable de cette transformation, se fonde sur l’action conjointe de plantes, champignons et bactéries dans le sol, conduisant au stockage de carbone. Ce puits de carbone revêt un grand intérêt dans le contexte des changements climatiques.
Lay summary

 

L’objectif poursuivi par cette continuation de projet s’articule autour de la caractérisation des binômes naturels champignons-bactéries isolés de sols sous l’influence de l’OCP. Il vise aussi à établir le lien fonctionnel entre facteurs environnementaux variables au cours du temps lors de l’établissement de l’OCP (tels le pH, la biodisponibilité du Ca2+, la matière organique, les caractéristiques géochimiques du sol, sa texture, sa rétention en eau) et la prévalence des interactions bactéries-champignons.

L’interaction bactéries-champignons est mise en avant car il s’agit véritablement d’un élément crucial des services écosystémiques fournis par les sols. En outre, rares sont les études expérimentales mettant en évidence cette interaction. Dans ce contexte, l’OCP reste un modèle naturel idéal permettant à la fois d’étudier le rôle fonctionnel de cette interaction (i.e. la dégradation de l’oxalate de calcium et la production de calcite) et les effets des paramètres environnementaux (i.e. changement de pH, nutriments, formation du sol). Ce projet contribuera significativement à notre compréhension des interactions biologiques dans les écosystèmes associant les sols.

 

Direct link to Lay Summary Last update: 05.10.2013

Lay Summary (English)

Lead
The formation of calcium carbonate (limestone) in acidic soils through the biological degradation of oxalate is at the interface between geology and biology. The oxalate-carbonate pathway (OCP) is the mechanism responsible, linking plants, fungi, and bacteria with soil and its capability to store carbon. By its geographical distribution and the long-term stability of these mineral carbon deposits, this carbon sink is of a crucial interest in the context of climate change.
Lay summary

The aim of this continuation project is to advance on the characterization of the native couples of fungi and bacteria isolated from soils under the OCP influence, and to establish the link between environmental factors that change temporarily on an active OCP (pH, Ca2+ bioavailability, OM, soil geochemistry, soil texture, and humidity) and the prevalence of fungi-bacteria interactions and their activity in the context of the OCP. 

The interaction of fungi and bacteria has been put to the fore as one crucial element for ecosystem services provided by soils, however to date only a few experimental evidence of this has been obtained.  In this context, the OCP is an ideal natural model that allows simultaneously the investigation of the functional role of the interaction (i.e. the degradation of CaOx and the production of calcite) as well as the effect of environmental factors on it (i.e. changing pH, nutrients, soil genesis).  This project can have great impact on the understanding of the importance of biological interactions in the ecosystem functioning of soils.

 

Direct link to Lay Summary Last update: 05.10.2013

Responsible applicant and co-applicants

Employees

Publications

Publication
Biocontrolled soil nutrient distribution under the influence of an oxalogenic-oxalotrophic ecosystem
Pons Sophie, Bindschedler Saskia, Sebad David, Junier Pilar, Verrecchia Eric, Cailleau Guillaume (2018), Biocontrolled soil nutrient distribution under the influence of an oxalogenic-oxalotrophic ecosystem, in Plant and Soil, 42, 145-160.
Carbonate accumulation in the bark of Terminalia bellirica: A new habitat for the oxalate-carbonate pathway
Herve Vincent, Clerc Martin, Cailleau Guillaume, Bueche Matthieu, Junier Thomas, Verrecchia Eric, Junier Pilar (2018), Carbonate accumulation in the bark of Terminalia bellirica: A new habitat for the oxalate-carbonate pathway, in Geomicrobiology Journal , 35, 31-39.
Moving carbon between spheres, the potential oxalate-carbonate pathway of Brosimum alicastrum Sw.; Moraceae
Rowley Mike C., Estrada-Medina Héctor, Tzec-Gamboa Magnolia, Rozin Aviram, Cailleau Guillaume, Verrecchia Eric P., Green Iain (2017), Moving carbon between spheres, the potential oxalate-carbonate pathway of Brosimum alicastrum Sw.; Moraceae, in Plant and Soil, 412(1-2), 465-479.
An in situ inventory of fungi and their associated migrating bacteria in forest soils using fungal highway columns
Simon Anaele, Herve Vincent, Al-Dourobi Andrej, Verrecchia Eric, Junier Pilar (2017), An in situ inventory of fungi and their associated migrating bacteria in forest soils using fungal highway columns, in FEMS Microbiology Ecology, fiw217.
Exploring the diversity of the root-associated microbiome of Ilex paraguariensis St. Hil. (Yerba Mate)
Bergottini Veronica, Herve Vincent, Sosa Daniel, Otegui Monica, Zapata Pedro (2017), Exploring the diversity of the root-associated microbiome of Ilex paraguariensis St. Hil. (Yerba Mate), in Applied Soil Ecology, 109, 23-31.
Diversity and ecology of oxalotrophic bacteria
Herve Vincent, Junier Thomas, Verrecchia Eric, Junier Pilar (2016), Diversity and ecology of oxalotrophic bacteria, in World Journal of Microbiology and Biotechnology, 32, 28.
Exploiting the Fungal highway: Development of a novel tool for the selective isolation of soil fungi and associated migratory bacteria in situ
Simon Anaele, Bindschedler Saskia, Job Daniel, Filippidou Sevasti, Kooli Wafa M., Wick Lukas P., Verrecchia Eric, Junier Pilar (2015), Exploiting the Fungal highway: Development of a novel tool for the selective isolation of soil fungi and associated migratory bacteria in situ, in FEMS Microbiology Ecology, fiv116.
Isolation and characterization of oxalotrophic bacteria from tropical soils
Bravo Daniel, Braissant Olivier, Cailleau Guillaume, Verrecchia Eric, Junier Pilar (2015), Isolation and characterization of oxalotrophic bacteria from tropical soils, in Archives in Microbiology, 65-77.

Collaboration

Group / person Country
Types of collaboration
Nérée Awana Onguéné Cameroon (Africa)
- in-depth/constructive exchanges on approaches, methods or results
- Publication
- Research Infrastructure
- Exchange of personnel
Lukas Y. Wick Germany (Europe)
- in-depth/constructive exchanges on approaches, methods or results
- Publication
- Research Infrastructure
- Exchange of personnel
Olivier Braissant Switzerland (Europe)
- in-depth/constructive exchanges on approaches, methods or results
- Publication
- Research Infrastructure

Scientific events

Active participation

Title Type of contribution Title of article or contribution Date Place Persons involved
6th Swiss Microbial Ecology Meeting Poster Enhanced access to organic nitrogen as a direct benefit in the interaction of the fungus Morchella crassipes with soil bacteria 10.09.2015 Ascona, Switzerland Junier Pilar Eugenia; Verrecchia Eric;
6th Swiss Microbial Ecology Meeting Poster Ecology and diversity of oxalotrophic bacteria 10.09.2015 Ascona, Switzerland Junier Pilar Eugenia; Verrecchia Eric; Herve Vincent;
72nd Annual Assembly of the Swiss Society for Microbiology Talk given at a conference Do ‘fungal highways’ exist in nature? Design of a new tool to assess the presence of fungal-driven bacterial dispersal in natural ecosystems 19.06.2015 Fribourg, Switzerland Simon Anaele; Verrecchia Eric; Junier Pilar Eugenia;
6th Congress of European Microbiologists Talk given at a conference The ‘fungal highway’ toll: metabolisms and genes involved in fungal-driven bacterial dispersal in natural ecosystems 07.06.2015 Maastricht, Netherlands Verrecchia Eric; Junier Pilar Eugenia; Simon Anaele;
6th Congress of European Microbiologists Poster Enhanced access to organic nitrogen as a direct benefit in the interaction of the fungus Morchella crassipes with soil bacteria 07.06.2015 Maastricht, Netherlands Junier Pilar Eugenia; Verrecchia Eric;
73rd Annual Assembly of the Swiss Society for Microbiology, Poster Enhanced access to organic nitrogen as a direct benefit in the interaction of the fungus Morchella crassipes with soil bacteria 28.05.2015 Lugano, Switzerland Verrecchia Eric; Junier Pilar Eugenia;
73rd Annual Assembly of the Swiss Society for Microbiology Poster TAKING THE ‘FUNGAL HIGHWAY’: METABOLISMS AND GENES INVOLVED IN FUNGAL-DRIVEN BACTERIAL DISPERSAL IN NATURAL ECOSYSTEMS 28.05.2015 Lugano, Switzerland Simon Anaele; Verrecchia Eric; Junier Pilar Eugenia;
15th International Symposium on Microbial Ecology Talk given at a conference Do ‘fungal highways’ exist in nature? Design of a new tool to assess the presence of fungal-driven bacterial dispersal in natural ecosystems 24.08.2014 Seoul, Korean Republic (South Korea) Verrecchia Eric; Simon Anaele; Junier Pilar Eugenia;


Associated projects

Number Title Start Funding scheme
137994 The oxalate-carbonate pathway: measuring biological interactions and dynamics in a natural C sink ecosystem 01.01.2012 Interdisciplinary projects

Abstract

The formation of calcium carbonate in acidic soils through the biological degradation of oxalate is a process dubbed the oxalate-carbonate pathway (OCP), which occurs at the interface between geological and biological systems. This pathway starts with the fixation of atmospheric CO2 by the photosynthetic activity of oxalogenic plants that will use part of the C for the production of oxalate. Intracellular oxalate helps regulating Ca2+ concentrations by forming calcium oxalate (CaOx). The decay of plant material by saprophytic fungi or other organic matter (OM) degraders (e.g. termites) results in a source of CaOx for other trophic levels. Additional CaOx can be provided by fungi, which are able to produce this organic acid to cope with elevated metal concentrations. In spite of its abundance as a substrate, CaOx is very stable and can only be metabolized by oxalotrophic bacteria that use it as a carbon and energy source. The catabolism of CaOx changes the local soil pH and releases Ca2+ and HCO3- and, if the conditions are adequate, will indirectly lead to the precipitation of secondary calcium carbonate (calcite) under unexpected geological settings. If Ca2+ originates from a non-carbonate source, this pathway constitutes a soil mineral carbon sink. By its geographical distribution and the long-term stability of these mineral C deposits, this terrestrial C sink is of a crucial interest in the context of climate change and global C budget.Our knowledge of the OCP has been the result of a multidisciplinary approach that combines expertise in geology and microbiology, as well as field expeditions and laboratory work. In the SNF interdisciplinary project CR22I2-137994, our team has developed an experimental approach for the evaluation of the prevalence of biological interactions between bacteria and fungi in the OCP. In addition, we have assessed the importance of the Ca2+ source for pedogenic carbonate accumulations. In the first case, we have shown that fungi-bacteria interactions occur in soils under the OCP influence. In the second case, we have evidence for the conversion of a Ca-poor into a Ca-rich system due to the positive feedback affecting soil and the OCP overtime. The aim of this continuation project is to advance on the characterization of the native couples of fungi and bacteria isolated from soils under the OCP influence, and to establish the link between the environmental factors that change temporarily on an active OCP (pH, Ca2+ bioavailability, OM, soil geochemistry, soil texture, and humidity) and the prevalence of fungi-bacteria interactions and their activity in the context of the OCP. The interaction of fungi and bacteria has been put to the fore as one crucial element for the ecosystem services provided by soils, however to date really few experimental evidence of this has been obtained. In this context, the OCP is an ideal natural model that allows simultaneously the functional role of the interaction (i.e. the degradation of CaOx and the production of calcite) as well as the effect of environmental factors on it (i.e. changing pH, nutrients, soil genesis) to be evaluated. This project can have great impact on the understanding of the importance of biological interactions in the ecosystem functioning of soils.
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