Estimating root-soil contact from 3D X-ray microtomographs

European Journal of Soil Science

Volumn 63, Issue 6, 2012, Pages 776-786

  Schmidt, S ^a,b   Bengough, A G ^a,c   Gregory, P J ^a,d   Grinev, D V ^b,e   Otten, W ^b  

^a SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

^b UNIVERSITY OF ABERTAY DUNDEE   (United Kingdom)

^c UNIVERSITY OF DUNDEE   (United Kingdom)

^d UNIVERSITY OF READING   (United Kingdom)

^e UNIVERSITY OF SOUTHAMPTON   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY ASSESSMENT; AGGREGATE SIZE; ESTIMATION METHOD; IMAGE ANALYSIS; LEGUME; MACROPORE; MAIZE; MATRIC POTENTIAL; PACKING; ROOT SYSTEM; SIEVING; SOIL-VEGETATION INTERACTION; TOMOGRAPHY; VERMICULITE;

ZEA MAYS;

EID: 84871614035     PISSN: 13510754     EISSN: 13652389     Source Type: Journal    
DOI: 10.1111/j.1365-2389.2012.01487.x     Document Type: Article

References (33)

1. Adamo, P., McHardy, W.J. & Edwards, A.C. 1998. SEM observations in the back-scattered mode of the soil-root zone of Brassica napus (cv. Rafal) plants grown at a range of soil pH values. Geoderma, 85, 357-370
2. Alexander, K.G. & Miller, M.H. 1991. The effect of soil aggregate size on early growth and shoot-root ratio of maize (Zea mays L). Plant & Soil, 138, 189-194
3. Bruand, A., Cousin, I., Nicoullaud, B., Duval, O. & Bégon, J.C. 1996. Backscattered electron scanning images of soil porosity for analysing soil compaction around roots. Soil Science Society of America Journal, 60, 895-901
4. Carminati, A., Kaestner, A., Hassanein, R., Ippisch, O., Vontobel, H.J. & Flühler, H. 2007. Infiltration through series of soil aggregates: neutron radiography and modeling. Advances in Water Resources, 30, 1168-1178
5. Carminati, A., Vetterlein, D., Weller, U., Vogel, H.J. & Oswald, S.E. 2009. When roots loose contact. Vadose Zone Journal, 8, 805-809
6. Gonzalez, R.C. & Woods, R.E. 2002. Smoothing spatial filters. In: Digital Image Processing, 2nd edn (ed. M.J. Horton ), pp. 119-124. Prentice Hall, New Jersey
7. Gregory, P.J., Hutchison, D.J., Read, D.B., Jenneson, P.M., Gilboy, W.B. & Morton, E.J. 2003. Non-invasive imaging of roots with high resolution X-ray micro-tomography. Plant & Soil, 255, 351-359
8. Heeraman, D.A., Hopmans, J.W. & Clausnitzer, V. 1997. Three dimensional imaging of plant roots in situ with X-ray computed tomography. Plant & Soil, 189, 167-179
9. Hewitt, J.S. & Dexter, A.R. 1979. An improved model of root growth in structured soil. Plant & Soil, 52, 325-343
10. Kaestner, A., Schneebeli, M. & Graf, F. 2006. Visualising three-dimensional root networks using computed tomography. Geoderma, 136, 459-469
11. Kaestner, A., Lehmann, E. & Stampanoni, M. 2008. Imaging and image processing in porous media research. Advances in Water Resources, 31, 1174-1187
12. Kooistra, M.J., Schoonderbeek, D., Boone, F.R., Veen, B.W. & van Noordwijk, M. 1992. Root-soil contact of maize, as measured by a thin-section technique .2. Effects of soil compaction. Plant & Soil, 139, 119-129
13. Lontoc-Roy, M., Dutilleul, P., Prasher, S.O., Han, L., Brouillet, T. & Smith, D.L. 2006. Advances in the acquisition and analysis of CT scan data to isolate a crop root system from the soil medium and quantify root system complexity in 3-D space. Geoderma, 137, 231-241
14. Mairhofer, S., Zappala, S., Tracy, S.R., Sturrock, C., Bennett, M., Mooney, S.J. et al. 2012. RooTrak: Automated recovery of three-dimensional plant root architecture in soil from X-ray microcomputed tomography images using visual tracking. Plant Physiology, 158, 561-569
15. Mooney, S.J., Pridmore, T.P., Helliwell, J. & Bennett, M. 2012. Developing X-ray computed tomography to non-invasively image 3-D root systems architecture in soil. Plant & Soil, 352, 1-22
16. Nye, P.H. 1994. The effect of root shrinkage on soil-water inflow. Philosophical Transactions of the Royal Society of London Series B: Biological Sciences, 345, 395-402
17. Ohser, J. & Mücklich, F. 2000. Analysis and spatial images. In: Statistical Analysis of Microstructures in Material Science (ed. V. Barnett ), pp. 109-114. John Wiley & Sons, New York
18. Otsu, N. 1979. A threshold selection method from gray-level histograms. IEEE Transactions on Systems Management & Cybernetics, 9, 62-66
19. Perret, J.S., Al-Belushi, M.E. & Deadman, M. 2007. Non-destructive visualization and quantification of roots using computed tomography. Soil Biology & Biochemistry, 39, 391-399
20. Pierret, A., Capowiez, Y., Moran, C.J. & Kretzschmar, A. 1999. X-ray computed tomography to quantify tree rooting spatial distributions. Geoderma, 90, 307-326
21. Schoonderbeek, D. & Schoute, J.F.T. 1994. Root and root-soil contact of winter wheat in relation to soil macro-porosity. Agriculture Ecosystems & Environment, 51, 89-98
22. Stirzaker, R.J., Passioura, J.B. & Wilms, Y. 1996. Soil structure and plant growth: impact of bulk density and biopores. Plant & Soil, 185, 151-162
23. Takahashi, 1997. Hydrotropism: the current state of our knowledge. Journal of Plant Research, 110, 163-169
24. Tinker, P.B. 1976. Transport of water to plant roots in soil. Philosophical Transactions of the Royal Society of London Series B: Biological Sciences, 273, 445-461
25. Tippkötter, R. & Ritz, K. 1996. Evaluation of polyester, epoxy and acrylic resins for suitability in preparation of soil thin sections for in situ biological studies. Geoderma, 69, 31-57
26. Tracy, S.R., Black, C.R., Roberts, J.A., McNeill, A., Davidson, R., Tester, M. et al. 2012. Quantifying the effect of soil compaction on three varieties of wheat (Triticum aestivum L.) using X-ray micro computed tomography (CT). Plant & Soil, 353, 195-208
27. van Noordwijk, M., Kooistra, M.J., Boone, F.R., Veen, B.W. & Schoonderbeek, D. 1992. Root-soil contact of maize, as measured by a thin-section technique .1. Validity of the method. Plant & Soil, 139, 109-118
28. van Noordwijk, M., Schoonderbeek, D. & Kooistra, M.J. 1993. Root-soil contact of field-grown winter wheat. Geoderma, 56, 277-286
29. Veen, B.W., van Noordwijk, M., De Willigen, P., Boone, F.R. & Kooistra, M.J. 1992. Root-soil contact of maize, as measured by a thin-section technique .3. Effects on shoot growth, nitrate and water-uptake efficiency. Plant & Soil, 139, 131-138
30. Vollsnes, A.V., Futsaether, C.M. & Bengough, A.G. 2010. Quantifying rhizosphere particle movement around mutant maize roots using time-lapse imaging and particle image velocimetry. European Journal of Soil Science, 61, 926-939
31. White, R.G. & Kirkegaard, J.A. 2010. The distribution and abundance of wheat roots in a dense, structured subsoil - implications for water uptake. Plant Cell & Environment, 33, 133-148
32. White, N.A., Hallett, P.D., Feeney, D., Palfreyman, J.W. & Ritz, K. 2000. Changes to water repellence of soil caused by the growth of white-rot fungi: studies using a novel microcosm system. FEMS Microbiology Letters, 184, 73-77
33. Zar, J. 1999. Biostatistical Analysis, 4th edn. Prentice Hall, Engelwood Cliffs, NJ