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DIMR SIGNED

Data Intensive Modelling of the Rhizosphere Processes

Total Cost €

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EC-Contrib. €

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Partnership

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Project "DIMR" data sheet

The following table provides information about the project.

Coordinator
UNIVERSITY OF SOUTHAMPTON 

Organization address
address: Highfield
city: SOUTHAMPTON
postcode: SO17 1BJ
website: http://www.southampton.ac.uk

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country United Kingdom [UK]
 Project website https://www.southampton.ac.uk/engineering/about/staff/tr1r07.page
 Total cost 1˙996˙246 €
 EC max contribution 1˙996˙246 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2014-CoG
 Funding Scheme ERC-COG
 Starting year 2015
 Duration (year-month-day) from 2015-09-01   to  2021-08-31

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    UNIVERSITY OF SOUTHAMPTON UK (SOUTHAMPTON) coordinator 1˙996˙246.00

Map

 Project objective

We rely on soil to support the crops on which we depend. Less obviously we also rely on soil for a host of 'free services' from which we benefit. For example, soil buffers the hydrological system greatly reducing the risk of flooding after heavy rain; soil contains very large quantities of carbon, which would otherwise be released into the atmosphere where it would contribute to climate change. Given its importance it is not surprising that soil, especially its interaction with plant roots, has been a focus of many researchers. However the complex and opaque nature of soil has always made it a difficult medium to study. In this ERC research program I will develop a state of the art image based model of the physical and chemical properties of soil and soil-root interactions, i.e., a quantitative, model of the rhizosphere based on fundamental scientific laws. This will be realised by a combination of innovative, data rich fusion of structural and chemical imaging methods, integration of experimental efforts to both support and challenge modelling capabilities at the scale of underpinning bio-physical processes, and application of mathematically sound homogenisation/scale-up techniques to translate knowledge from rhizosphere to field scale. The specific science questions I will address with these techniques are: (1) how does the soil around the root, the rhizosphere, function and influence the soil ecosystems at multiple scales, (2) what is the role of root-soil interface micro morphology and mycorrhizae on plant nutrient uptake, (3) what is the effect of plant exuded mucilage on the soil morphology, mechanics and resulting field and ecosystem scale soil function and (4) how to translate this knowledge from the single root scale to root system, field and ecosystem scale in order to predict how the climate change, different soil management strategies and plant breeding will influence the soil fertility.

 Publications

year authors and title journal last update
List of publications.
2019 D. M. McKay Fletcher, R. Shaw, A. R. Sánchez-Rodríguez, K. R. Daly, A. van Veelen, D. L. Jones, T. Roose
Quantifying citrate-enhanced phosphate root uptake using microdialysis
published pages: , ISSN: 0032-079X, DOI: 10.1007/s11104-019-04376-4
Plant and Soil 2020-03-13
2019 Daniel M. McKay Fletcher, Samuel D. Keyes, Keith R. Daly, Arjen van Veelen, Tiina Roose
A multi image-based approach for modelling plant-fertiliser interaction
published pages: 100152, ISSN: 2452-2198, DOI: 10.1016/j.rhisph.2019.100152
Rhizosphere 10 2020-03-13
2019 M. Naveed, M. A. Ahmed, P. Benard, L. K. Brown, T. S. George, A. G. Bengough, T. Roose, N. Koebernick, P. D. Hallett
Surface tension, rheology and hydrophobicity of rhizodeposits and seed mucilage influence soil water retention and hysteresis
published pages: 65-81, ISSN: 0032-079X, DOI: 10.1007/s11104-019-03939-9
Plant and Soil 437/1-2 2020-03-13
2019 Arjen Veelen, Nicolai Koebernick, Callum S. Scotson, Daniel McKay‐Fletcher, Thomas Huthwelker, Camelia N. Borca, J. Fred W. Mosselmans, Tiina Roose
Root‐induced soil deformation influences Fe, S and P: rhizosphere chemistry investigated using synchrotron XRF and XANES
published pages: 1476-1490, ISSN: 0028-646X, DOI: 10.1111/nph.16242
New Phytologist 225/4 2020-03-13
2019 Simon J. Duncan, Keith R. Daly, Daniel M. McKay Fletcher, Siul Ruiz, Paul Sweeney, Tiina Roose
Multiple Scale Homogenisation of Nutrient Movement and Crop Growth in Partially Saturated Soil
published pages: 3778-3802, ISSN: 0092-8240, DOI: 10.1007/s11538-019-00656-3
Bulletin of Mathematical Biology 81/10 2020-03-13
2018 Nicolai Koebernick, Keith R. Daly, Samuel D. Keyes, Anthony G. Bengough, Lawrie K. Brown, Laura J. Cooper, Timothy S. George, Paul D. Hallett, Muhammad Naveed, Annette Raffan, Tiina Roose
Imaging microstructure of the barley rhizosphere: particle packing and root hair influences
published pages: 1878-1889, ISSN: 0028-646X, DOI: 10.1111/nph.15516
New Phytologist 221/4 2020-03-13
2020 S. Ruiz, N. Koebernick, S. Duncan, D. McKay Fletcher, C. Scotson, A. Boghi, M. Marin, A. G. Bengough, T. S. George, L. K. Brown, P. D. Hallett, T. Roose
Significance of root hairs at the field scale – modelling root water and phosphorus uptake under different field conditions
published pages: 281-304, ISSN: 0032-079X, DOI: 10.1007/s11104-019-04308-2
Plant and Soil 447/1-2 2020-03-13
2019 Guy J.D. Kirk, Andrea Boghi, Marie‐Cecile Affholder, Samuel D. Keyes, James Heppell, Tiina Roose
Soil carbon dioxide venting through rice roots
published pages: 3197-3207, ISSN: 0140-7791, DOI: 10.1111/pce.13638
Plant, Cell & Environment 42/12 2020-03-13
2016 H. Vereecken, A. Schnepf, J.W. Hopmans, M. Javaux, D. Or, T. Roose, J. Vanderborght, M.H. Young, W. Amelung, M. Aitkenhead, S.D. Allison, S. Assouline, P. Baveye, M. Berli, N. Brüggemann, P. Finke, M. Flury, T. Gaiser, G. Govers, T. Ghezzehei, P. Hallett, H.J. Hendricks Franssen, J. Heppell, R. Horn, J.A. Huisman, D. Jacques, F. Jonard, S. Kollet, F. Lafolie, K. Lamorski, D. Leitner, A. McBratney, B. Minasny, C. Montzka, W. Nowak, Y. Pachepsky, J. Padarian, N. Romano, K. Roth, Y. Rothfuss, E.C. Rowe, A. Schwen, J. Šimůnek, A. Tiktak, J. Van Dam, S.E.A.T.M. van der Zee, H.J. Vogel, J.A. Vrugt, T. Wöhling, I.M. Young
Modeling Soil Processes: Review, Key Challenges, and New Perspectives
published pages: , ISSN: 1539-1663, DOI: 10.2136/vzj2015.09.0131
Vadose Zone Journal 15/5 2019-05-30
2017 L. J. Cooper, K. R. Daly, P. D. Hallett, M. Naveed, N. Koebernick, A. G. Bengough, T. S. George, T. Roose
Fluid flow in porous media using image-based modelling to parametrize Richards\' equation
published pages: 20170178, ISSN: 1364-5021, DOI: 10.1098/rspa.2017.0178
Proceedings of the Royal Society A: Mathematical, Physical and Engineering Science 473/2207 2019-05-30
2016 T. Roose, S. D. Keyes, K. R. Daly, A. Carminati, W. Otten, D. Vetterlein, S. Peth
Challenges in imaging and predictive modeling of rhizosphere processes
published pages: Processing charg, ISSN: 0032-079X, DOI: 10.1007/s11104-016-2872-7
Plant and Soil 2019-05-30
2017 S. D. Keyes, L. Cooper, S. Duncan, N. Koebernick, D. M. McKay Fletcher, C. P. Scotson, A. van Veelen, I. Sinclair, T. Roose
Measurement of micro-scale soil deformation around roots using four-dimensional synchrotron tomography and image correlation
published pages: 20170560, ISSN: 1742-5689, DOI: 10.1098/rsif.2017.0560
Journal of The Royal Society Interface 14/136 2019-05-30
2018 M. Naveed, L.K. Brown, A.C. Raffan, T.S. George, A.G. Bengough, T. Roose, I. Sinclair, N. Koebernick, L. Cooper, P.D. Hallett
Rhizosphere-Scale Quantification of Hydraulic and Mechanical Properties of Soil Impacted by Root and Seed Exudates
published pages: , ISSN: 1539-1663, DOI: 10.2136/vzj2017.04.0083
Vadose Zone Journal 17/1 2019-05-30
2016 Keith R. Daly, Samuel D. Keyes, Shakil Masum, Tiina Roose
Image-based modelling of nutrient movement in and around the rhizosphere
published pages: 1059-1070, ISSN: 0022-0957, DOI: 10.1093/jxb/erv544
Journal of Experimental Botany 67/4 2019-05-30
2018 Andrea Boghi, Tiina Roose, Guy J. D. Kirk
A Model of Uranium Uptake by Plant Roots Allowing for Root-Induced Changes in the soil
published pages: 3536-3545, ISSN: 0013-936X, DOI: 10.1021/acs.est.7b06136
Environmental Science & Technology 52/6 2019-05-30
2018 K. R. Daly, T. Roose
Determination of macro-scale soil properties from pore-scale structures: model derivation
published pages: 20170141, ISSN: 1364-5021, DOI: 10.1098/rspa.2017.0141
Proceedings of the Royal Society A: Mathematical, Physical and Engineering Science 474/2209 2019-05-30
2017 M. Naveed, L. K. Brown, A. C. Raffan, T. S. George, A. G. Bengough, T. Roose, I. Sinclair, N. Koebernick, L. Cooper, C. A. Hackett, P. D. Hallett
Plant exudates may stabilize or weaken soil depending on species, origin and time
published pages: 806-816, ISSN: 1351-0754, DOI: 10.1111/ejss.12487
European Journal of Soil Science 68/6 2019-05-30
2017 K.R. Daly, L.J. Cooper, N. Koebernick, J. Evaristo, S.D. Keyes, A. van Veelen, T. Roose
Modelling water dynamics in the rhizosphere
published pages: 139-151, ISSN: 2452-2198, DOI: 10.1016/j.rhisph.2017.10.004
Rhizosphere 4 2019-05-30
2016 S.D. Keyes, F. Gillard, N. Soper, M.N. Mavrogordato, I Sinclair, T. Roose
Mapping soil deformation around plant roots using in vivo 4D X-ray computed tomography and digital volume correlation
published pages: , ISSN: 0021-9290, DOI: 10.1016/j.jbiomech.2016.04.023
Journal of Biomechanics 2019-05-30
2018 Arjen van Veelen, Monique C. Tourell, Nicolai Koebernick, Giuseppe Pileio, Tiina Roose
Correlative Visualization of Root Mucilage Degradation Using X-ray CT and MRI
published pages: , ISSN: 2296-665X, DOI: 10.3389/fenvs.2018.00032
Frontiers in Environmental Science 6 2019-05-30
2018 S. J. Duncan, K. R. Daly, P. Sweeney, T. Roose
Mathematical modelling of water and solute movement in ridged versus flat planting systems
published pages: , ISSN: 1351-0754, DOI: 10.1111/ejss.12711
European Journal of Soil Science 2019-05-30
2017 Keith R. Daly, Saoirse R. Tracy, Neil M.J. Crout, Stefan Mairhofer, Tony P. Pridmore, Sacha J. Mooney, Tiina Roose
Quantification of root water uptake in soil using X-ray computed tomography and image-based modelling
published pages: , ISSN: 0140-7791, DOI: 10.1111/pce.12983
Plant, Cell & Environment 2019-05-30
2018 K. R. Daly, S. D. Keyes, T. Roose
Determination of macro-scale soil properties from pore scale structures: image-based modelling of poroelastic structures
published pages: 20170745, ISSN: 1364-5021, DOI: 10.1098/rspa.2017.0745
Proceedings of the Royal Society A: Mathematical, Physical and Engineering Science 474/2215 2019-05-30
2018 S. J. Duncan, K. R. Daly, P. Sweeney, T. Roose
Mathematical modelling of water and solute movement in ridge plant systems with dynamic ponding
published pages: 265-278, ISSN: 1351-0754, DOI: 10.1111/ejss.12503
European Journal of Soil Science 69/2 2019-05-30
2017 Samuel D. Keyes, Neil J. Gostling, Jessica H. Cheung, Tiina Roose, Ian Sinclair, Alan Marchant
The Application of Contrast Media for In Vivo Feature Enhancement in X-Ray Computed Tomography of Soil-Grown Plant Roots
published pages: 538-552, ISSN: 1431-9276, DOI: 10.1017/S1431927617000319
Microscopy and Microanalysis 23/03 2019-05-30
2017 Samuel David Keyes, Konstantinos C. Zygalakis, Tiina Roose
An Explicit Structural Model of Root Hair and Soil Interactions Parameterised by Synchrotron X-ray Computed Tomography
published pages: 2785-2813, ISSN: 0092-8240, DOI: 10.1007/s11538-017-0350-x
Bulletin of Mathematical Biology 79/12 2019-05-30
2018 L. J. Cooper, K. R. Daly, P. D. Hallett, N. Koebernick, T. S. George, T. Roose
The effect of root exudates on rhizosphere water dynamics
published pages: 20180149, ISSN: 1364-5021, DOI: 10.1098/rspa.2018.0149
Proceedings of the Royal Society A: Mathematical, Physical and Engineering Science 474/2217 2019-05-30
2018 Andreas Pohlmeier, Sarah Garré, Tiina Roose
Noninvasive Imaging of Processes in Natural Porous Media: From Pore to Field Scale
published pages: , ISSN: 1539-1663, DOI: 10.2136/vzj2018.03.0044
Vadose Zone Journal 17/1 2019-05-30
2017 Nicolai Koebernick, Keith R. Daly, Samuel D. Keyes, Timothy S. George, Lawrie K. Brown, Annette Raffan, Laura J. Cooper, Muhammad Naveed, Anthony G. Bengough, Ian Sinclair, Paul D. Hallett, Tiina Roose
High-resolution synchrotron imaging shows that root hairs influence rhizosphere soil structure formation
published pages: 124-135, ISSN: 0028-646X, DOI: 10.1111/nph.14705
New Phytologist 216/1 2019-05-30

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