Extraction of three-dimensional soil pore space from microtomography images using a geometrical approach

Geoderma

Volumn 163, Issue 1-2, 2011, Pages 127-134

  Ngom, Ndeye Fatou ^a   Garnier, Patricia ^b   Monga, Olivier ^a   Peth, Stephan ^c  

^a Sorbonne Universités   (Senegal)

^b CEMAGREF   (France)

^c UNIVERSITY OF KIEL   (Germany)

Author keywords

Delaunay tessellation; Model; Pore space; Soil structure; Synchrotron; Tomography

Indexed keywords

CONNECTED SETS; DELAUNAY TESSELLATIONS; EDGE LENGTH; FREQUENCY DISTRIBUTIONS; GEOMETRIC CHARACTERISTICS; GEOMETRICAL MODELS; GRASSLAND SOILS; MANAGEMENT SYSTEMS; MEDIAL AXIS; MICRO-TOMOGRAPHY; ORGANIC MATTER DECOMPOSITION; PORE CHANNELS; PORE RADIUS; PORE SPACE; QUANTITATIVE ANALYSIS; RETENTION CURVE; SOIL AGGREGATE; SOIL PORES; SOIL STRUCTURE; SYNCHROTRON X-RAY MICROTOMOGRAPHY; THREE-DIMENSIONAL TOMOGRAPHY; TILLED SOILS;

IMAGE RECONSTRUCTION; SOILS; SYNCHROTRONS; TEMPERATURE CONTROL; THREE DIMENSIONAL; TOMOGRAPHY;

GEOLOGIC MODELS;

ALGORITHM; DECOMPOSITION; FREQUENCY ANALYSIS; GEOMETRY; GRASSLAND SOIL; IMAGE ANALYSIS; PORE SPACE; QUANTITATIVE ANALYSIS; SOFTWARE; SOIL AGGREGATE; SOIL ORGANIC MATTER; SOIL STRUCTURE; THREE-DIMENSIONAL MODELING; TOMOGRAPHY; TORTUOSITY;

EID: 79955965563     PISSN: 00167061     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.geoderma.2011.04.013     Document Type: Article

References (27)

1. Al-Raoush R.I., Willson C.S. Extraction of physically realistic pore network properties from three-dimensional synchrotron X-ray microtomography images of unconsolidated porous media systems. J. Hydrol. 2005, 300:44-64.
2. Al-Raoush R.L., Thompson K., Willson C.S. Comparison of network generation techniques for unconsolidated porous media. Soil Sci. Soc. Am. J. 2003, 67:1687-1700.
3. Delerue J.F., Perrier E., Yu Z.Y., Velde B. New algorithms in 3D image analysis and their application to the measurement of a spatialized distribution in soil. Phys. Chem. Earth Part A 1999, 24:639-644.
4. Eynard A., Schumacher T.E., Lindstrom M.J., Maio D.D. Porosity and pore-size distribution in cultivated ustolls and usterts. Soil Sci. Soc. Am. J. 2004, 68:1927-1934.
5. Falconer R.E., Bown J.L., White N.A., Crawford J.W. Biomass recycling: a key to efficient foraging by fungal colonies. Oikos 2007, 116:1558-1568.
6. George P.L. Tetmesh-GHS3D, Tetrahedral Mesh Generator. INRIA User's Manual 2004, Institut National de Recherche en informatique et Automatique, 78153, le Chesnay Cédex, 13 pp.
7. Hajnos M., Lipiec J., Swieboda R., Sokolowska Z., Witkowska-Walczak B. Complete characterization of pore size distribution of tilled and orchard soil using water retention curve, mercury porosimetry, nitrogen adsorption, and water desorption methods. Geoderma 2006, 135:307-314.
8. Horn R. Aggregate characterization as compared to soil bulk properties. Soil Tillage Res. 1990, 17:265-289.
9. Iassonov P., Gebrenegus T., Tuller M. Segmentation of X-ray computed tomography images of porous materials: a crucial step for characterization and quantitative analysis of pore structures. Water Resour. Res. 2009, 45:W09415.
10. Kemmitt S.J., Lanyon C.V., Waite I.S., Wen Q., Addiscott T.M., Bird N.R.A., O'Donnell A.G., Brookes P.C. Mineralization of native soil organic matter is not regulated by the size, activity or composition of the soil microbial biomass - a new perspective. Soil Biol. Biochem. 2008, 40:61-73.
11. Lindquist W.B. 3DMA General Users Manual 1999, 47 pp.
12. Lindquist W.B., Lee S.M., Coker D.A., Jones K.W., Spanne P. Medial axis analysis of three dimensional tomographic images of drill core samples. J. Geophys. Res. B: Solid Earth 1995, 101:8297-8310.
13. Lindquist W.B., Venkatarangan A., Dunsmuir J., Wong T. Pore and throat size distribution measured from synchrotron X-ray tomographic images of Fontainebleau sandstones. J. Geophys. Res. B: Solid Earth 2000, 105:21,509-21,527.
14. Lugato E., Morari F., Nardi S., Berti A., Giardini L. Relationship between aggregate pore size distribution and organic-humic carbon in contrasting soils. Soil Tillage Res. 2009, 103:153-157.
15. Mattioli J., Schmitt M. Morphologie mathématique 1994, Masson-Paris.
16. Monga O., Ngom N.F., Delerue J.F. Representing geometric structures in 3D tomography soil images: application to pore space modelling. Comput. Geosci. 2007, 33:1140-1161.
17. Monga O., Bousso M., Garnier P., Pot V. 3D geometric structures and biological activity: application to microbial soil organic matter decomposition in pore space. Ecol. Modell. 2008, 216:291-302.
18. Monga O., Bousso M., Garnier P., Pot V. Using pore space 3D geometrical modelling to simulate biological activity: impact of soil structure. Comput. Geosci. 2009, 35:1789-1801.
19. Oh W., Lindquist W.B. Image thresholding by indicator kriging. IEEE Trans. Pattern Anal. Mach. Intell. 1999, 21:590-602.
20. Peth S., Horn R., Beckmann F., Donath T., Fischer J., Smucker A.J.M. Three dimensional quantification of intra aggregate pore space features using synchrotron radiation based microtomography. Soil Sci. Soc. Am. J. 2008, 72:897-907.
21. Strong D.T., De Wever H., Merckx R., Recous S. Spatial location of carbon decomposition in the soil pore system. Eur. J. Soil Sci. 2004, 55:739-750.
22. Tisdall J.M. Formation of soil aggregates and accumulation of soil organic matter. Structure and Organic Matter Storage in Agricultural Soils 1996, CRC Press, Boca Raton, FL. M.R. Carter, B.A. Stewart (Eds.).
23. Udawatta R.P., Anderson S.H. CT-measured pore characteristics of surface and subsurface soils influenced by agroforestry and grass buffers. Geoderma 2008, 145:381-389.
24. Vogel H.J., Roth K. Quantitative morphology and network representation of soil pore structure. Adv. Water Res. 2001, 24:233-242.
25. Vogel H.J., Tolke J., Schulz V.P., Krafcyk M., Roth K. Comparison of a Lattice-Bolzmann model, a full-morphology model, and a pore network model for determining capillary relationships. Conference information. Vadose Zone J. 2005, 4:380-388.
26. Wang J.Y., Zhang X.X., Bengough A.G., Crawford J.W. Domain-decomposition method for parallel lattice Boltzmann simulation of incompressible flow in porous media. Phys. Rev. E 2005, 72(1):016706. (Part 2).
27. Young N.M., Crawford J.W., Rappold C. New methods and models for characterising structural heterogeneity of soil. Soil Tillage Res. 2001, 61:33-45.