MicroSoil 2018
Workshop on “Elucidating microbial processes in soils and sediments: Microscale measurements and modeling”
Château de Saint Loup sur Thouet
Saint Loup Lamairé, Deux Sèvres, France
June 26-29, 2018.
Programme
Wednesday June 26, 2018
8:00-9:00: Breakfast in the medieval tower of the château of Saint Loup sur Thouet.
9:00-9:30: Welcome and organizational aspects of workshop
9:30-10:30: Invited talk: “Emergent properties of microbial activity in heterogeneous soil microenvironments: An overview”, Wilfred Otten [40 minutes + 20 minutes for discussion]
10:30-10:45: Coffee break (first chance to see posters of Poster session 1)
Session I: Physical description and modelling. Chair: Hans-Jörg Vogel
10:45-11:20: “Recent progress in the treatment and segmentation of X-ray CT images of soils”, Steffen Schlüter [20 +15]
11:20-11:55: “Quantitative analysis of X-ray CT images of soils”, Fernando San José Martinez [20 +15]
11:55-12:30: “Sharing soil CT images and image analysis software: How do we do it, and should we come up with soil standards?” open discussion centered around 2 short presentations by Marine Lacoste and John Koestel [35]
12:30-14:00: Lunch (cold buffet in the Orangerie, on the grounds of the château)
14:00-14:35: Invited talk: “Soil microaggregates: How useful are they in the research on microscale processes?”, Kai Uwe Totsche [20 +15]
14:35-15:00: “Can pore scale geometry explain sample-scale hydrodynamic properties of soils?”, Aurore Degré [20 +15]
15:00-15:30: “Where do we stand on modelling the microscale physics of soils?”, Philippe Baveye [20 +15]
15:30-16:00: “Areas we should focus on in the physical description of soils”, Open discussion [30]
16:00-16:30: Coffee break (+ posters)
Session II: (Bio)chemical characterization and modelling.
Chair: Ingrid Kögel-Knabner
16:30-17:15: Invited talk: “Using X-ray CT to identify SOM distribution patterns in soils”, Sasha Kravchenko [30 +15]
17:15-17:50: “Mucilage in soils: Characterization and impact”, Andrea Carminati, University of Halle, Germany. [20 +15]
17:50-18:25: “Submicron-scale imaging of soil organic matter dynamics using NanoSIMS”, Carsten Müller [20 +15]
18:25–18:45: Open discussion (including discussion of posters)
Thursday June 26, 2018
8:00-9:00: Breakfast in the medieval tower of the château of Saint Loup sur Thouet.
Session II (continued): (Bio)chemical characterization and modelling.
Chair: Ingrid Kögel-Knabner
9:00-9:50: Invited talk: “Using statistical techniques to extrapolate 2D chemical maps to the 3rd dimension”, Simona Hapca [30 +15]
9:45-10:00: “Where do we stand on modelling the microscale (bio)chemistry of soils? Brief overview of a black hole”, Philippe Baveye [10+5]
10:00-10:30: “Areas we should focus on in the (bio)chemical characterization/description of soils”, Open discussion [30]
10:30-10:45: Coffee break (first chance to see posters of Poster session 2)
Session III: Microbial characterization and modelling.
Chair: Matthias Kästner
10:45-11:20: “Microbial hotspots and hot moments: Conceptual background”, Evgenia Blagodatskaya [20 +15]
11:20-11:55: “Soil-microorganisms interactions revealed through transmission electron microscopy”, Françoise Watteau [20 +15]
11:55-12:30: Poster session
12:30-14:00: Lunch (cold buffet in the Orangerie, on the grounds of the château)
14:00-14:35: “FISH-related techniques to assess the spatial distribution of soil-microorganisms in thin sections”, Hannes Schmidt [20 +15]
14:35-15:00: “Microbial dynamics at the microscale: How can we move to 4D and are micromodels part of the answer?”, Philippe C. Baveye [15 +10]
15:00-15:25: “Round-table discussion: Why are there so few measurements of the microscale spatial distribution and activity of microorganisms, and how can we get more?” Discussion led by Naoise Nunan and Wilfred Otten [35]
15:25-16:00: “Computer simulation of the activity of micoorganisms in soils: Where are we?”, Valérie Pot [20+15]
16:00-16:30: Coffee break (+ posters)
16:30-17:05: “Individual-based modeling of C and N turnover in soils”, Christina Kaiser [20+15]
17:05-17:35: “Areas we should focus on in the microbial characterization/description of soils”, Open discussion [30]
Session IV: Integration and upscaling
Chair: Wilfred Otten
17:35-18:10: “Example of integration of disciplinary perspectives: Linking 3D Soil Structure and Plant-Microbe-Soil Carbon Transfer in the Rhizosphere”, Alix Vidal. [20 +15]
18:10-18:45: Poster session
Friday June 26, 2018
8:00-9:00: Breakfast in the medieval tower of the château of Saint Loup sur Thouet.
Session IV (continued): Integration and upscaling
Chair: Wilfred Otten
9:00-9:35: “Example of integration of disciplinary perspectives: In situ X-ray tomography imaging of soil water and cyanobacteria from biological soil crusts undergoing desiccation”, Estelle Couradeau and Vincent Felde. [20 +15]
9:35-9:55: “Types of integration we should focus on in the near future”, Open discussion [20]
9:55-10:30: “Emergent properties: Scaling up soil carbon dynamics from microbial cells to ecosystems”, Anke Hermann [20+15]
10:30-10:45: Coffee break
10:45-11:05: “Continued open discussion on scaling-up and new macroscopic measurements”, Open discussion [20]
11:05-12:00: “Where do we go from here? Outlining a possible COST proposal to create European-scale network + other funding opportunities” discussion led by Philippe C. Baveye, Patricia Garnier and Naoise Nunan [55]
Session V. Wrapping up:
12:00-12:30: Concluding comments and award for best poster and runner-up (Sponsored by Frontiers) Philippe C. Baveye [30]
12:30-14:00: Lunch (hot buffet in the Orangerie, on the grounds of the château)
List of participants:
Name | Institution, country | Country | E-mail address |
Allegretta, Ignazio | University of Bari | Italy | ignazio.allegretta@uniba.it |
Balseiro Romero, María | AgroParisTech | France | maria.balseiro@inra.fr |
Baveye, Philippe | AgroParisTech | France | Philippe.Baveye@AgroParisTech.fr |
Benard, Pascal | University of Göttingen, Germany | Germany | pbenard@uni-goettingen.de |
Blagodatskaya, Evgenia | University of Göttingen, Germany | Germany | janeblag@mail.ru |
Bonneville, Steeve | Université Libre de Bruxelles | Belgium | steeve.bonneville@ulb.ac.be |
Brax, Mathilde | University of Koblens-Landau | Germany | brax@uni-landau.de |
Carminati, Andrea | University of Bayreuth, Germany | Germany | Andrea.Carminati@uni-bayreuth.de |
Chalhoub, Maha | BRGM/INRA | France | maha.chalhoub@inra.fr |
Chenu, Claire | AgroParisTech | France | Claire.Chenu@AgroParisTech.fr |
Coche, Alexandre | University of Rennes, France | France | alexandre.coche@univ-rennes1.fr |
Colombi, Tino | Agricultural University, Uppsala | Sweden | tino.colombi@slu.se |
Cornelis, Jean-Thomas | University of Liège, Gembloux | Belgium | jtcornelis@uliege.be |
Couradeau, Estelle | Lawrence Berkeley Laboratory | USA | ecouradeau@lbl.gov |
Degré , Aurore | University of Liège, Gembloux | Belgium | aurore.degre@uliege.be |
Diehl, Dörte | University of Koblens-Landau | Germany | diehl@uni-landau.de |
Felde, Vincent | University of Kassel | Germany | felde@uni-kassel.de |
Garnier, Patricia | INRA | France | patricia.garnier@inra.fr |
Guber, Andrey | Michigan State University | U.S.A. | akguber@msu.edu |
Hallett, Paul | University of Aberdeen | Scotland | paul.hallett@abdn.ac.uk |
Hapca, Simona | University of Dundee | Scotland | s.z.hapca@dundee.ac.uk |
Hermann, Anke | Agricultural University, Uppsala | Sweden | Anke.Herrmann@slu.se |
Kaiser, Christina | University of Vienna | Austria | christina.kaiser@univie.ac.at |
Kaltenbach, Robin | University of Koblens-Landau | Germany | kaltenbach@uni-landau.de |
Kästner, Matthias | Helmholtz Centre for Environmental Research | Germany | matthias.kaestner@ufz.de |
Koestel, John | Agricultural University, Uppsala | Sweden | John.Koestel@slu.se |
Kögel-Knabner, Ingrid | Technical University of Munich | Germany | koegel@wzw.tum.de |
Kravchenko, Alexandra | Michigan State University | U.S.A. | kravche1@msu.edu |
Kröner, Eva | University of Koblens-Landau | Germany | kroener@uni-landau.de |
Lacoste, Marine | INRA | France | Marine.Lacoste@Inra.fr |
Monga, Olivier | IRD, France | France | olivier.monga@ird.fr |
Müller, Carsten | Technical University of Munich | Germany | carsten.mueller@wzw.tum.de |
Nunan, Naoise | CNRS, France | France | naoise.nunan@upmc.fr |
Otten, Wilfred | Cranfield University | England | Wilfred.Otten@Cranfield.ac.uk |
Paradelo, Marcos | Rothamsted | England | mparadeloperez@gmail.com |
Pierret, Alain | IEES, Paris | France | apierret2@gmail.com |
Portell, Xavier | Cranfield University | England | xavier.portell@cranfield.ac.uk |
Pot, Valérie | INRA | France | Valerie.pot@inra.fr |
Raynaud, Xavier | Pierre-and-Marie-Curie University | France | xavier.raynaud@upmc.fr |
San José Martinez. Fernando | Polytechnic University of Madrid | Spain | fernando.sanjose@upm.es |
Schlüter, Steffen | University of Halle | Germany | steffen.schlueter@ufz.de |
Schmidt, Hannes | University of Vienna | Austria | hannes.schmidt@microbial-ecology.net |
Spagnuolo, Matteo | University of Bari | Italy | matteo.spagnuolo@uniba.it |
Totsche, Kai | University of Jena | Germany | kai.totsche@uni-jena.de |
Vedere, Charlotte | Inra | France | Charlotte.Vedere@Inra.fr |
Vetterlein, Doris | University of Halle | Germany | doris.vetterlein@ufz.de |
Vidal, Alix | Technical University of Munich | Germany | alix.vidal@wzw.tum.de |
Vogel, Hans-Jörg | University of Halle | Germany | hans-Joerg.Vogel@ufz.de |
Wagai, Rota | NARO, Tukuba | Japan | rota@affrc.go.jp |
Watteau, Françoise | University of Lorraine, France | France | francoise.watteau@univ-lorraine.fr |
Wick Gessler, Lukas | Helmholtz, Leipzig | Germany | lukas.wick@ufz.de |