Know more

‌

About cookies

What is a "cookie"?

A "cookie" is a piece of information, usually small and identified by a name, which may be sent to your browser by a website you are visiting. Your web browser will store it for a period of time, and send it back to the web server each time you log on again.

Different types of cookies are placed on the sites:

  • Cookies strictly necessary for the proper functioning of the site
  • Cookies deposited by third party sites to improve the interactivity of the site, to collect statistics

Learn more about cookies and how they work

The different types of cookies used on this site

Cookies strictly necessary for the site to function

These cookies allow the main services of the site to function optimally. You can technically block them using your browser settings but your experience on the site may be degraded.

Furthermore, you have the possibility of opposing the use of audience measurement tracers strictly necessary for the functioning and current administration of the website in the cookie management window accessible via the link located in the footer of the site.

Technical cookies

Name of the cookie

Purpose

Shelf life

CAS and PHP session cookies

Login credentials, session security

Session

Tarteaucitron

Saving your cookie consent choices

12 months

Audience measurement cookies (AT Internet)

Name of the cookie

Purpose

Shelf life

atid

Trace the visitor's route in order to establish visit statistics.

13 months

atuserid

Store the anonymous ID of the visitor who starts the first time he visits the site

13 months

atidvisitor

Identify the numbers (unique identifiers of a site) seen by the visitor and store the visitor's identifiers.

13 months

About the AT Internet audience measurement tool :

AT Internet's audience measurement tool Analytics is deployed on this site in order to obtain information on visitors' navigation and to improve its use.

The French data protection authority (CNIL) has granted an exemption to AT Internet's Web Analytics cookie. This tool is thus exempt from the collection of the Internet user's consent with regard to the deposit of analytics cookies. However, you can refuse the deposit of these cookies via the cookie management panel.

Good to know:

  • The data collected are not cross-checked with other processing operations
  • The deposited cookie is only used to produce anonymous statistics
  • The cookie does not allow the user's navigation on other sites to be tracked.

Third party cookies to improve the interactivity of the site

This site relies on certain services provided by third parties which allow :

  • to offer interactive content;
  • improve usability and facilitate the sharing of content on social networks;
  • view videos and animated presentations directly on our website;
  • protect form entries from robots;
  • monitor the performance of the site.

These third parties will collect and use your browsing data for their own purposes.

How to accept or reject cookies

When you start browsing an eZpublish site, the appearance of the "cookies" banner allows you to accept or refuse all the cookies we use. This banner will be displayed as long as you have not made a choice, even if you are browsing on another page of the site.

You can change your choices at any time by clicking on the "Cookie Management" link.

You can manage these cookies in your browser. Here are the procedures to follow: Firefox; Chrome; Explorer; Safari; Opera

For more information about the cookies we use, you can contact INRAE's Data Protection Officer by email at cil-dpo@inrae.fr or by post at :

INRAE

24, chemin de Borde Rouge -Auzeville - CS52627 31326 Castanet Tolosan cedex - France

Last update: May 2021

Menu Logo Principal agroParistech cnrs ird ANR

Soilµ3D

Home page Bibliography

Bibliography

Babey, T., de Dreuzy,J.-R., Casenave, C. 2014, Advances in Water Resources, 76, 146-156.

Baveye, P. 2010. Advances In Water Rersources, 33, 123-124.   

Baveye P.C.,  Laba M. 2015. Ecological Modelling.  298, 24–38

Ben Hadj Hassine et al., 2014, 23rd International Conference DSFD, July 28th- August 1st- Paris.

Benson, D. A., and M. M. Meerschaert (2008), Water Resources Research, 44(12), 7.

Berkowitz, B., and I. Balberg (1993), , Water Resources Research, 29(4), 775-794.

Berkowitz, B., et al. (2006), Modeling non-Fickian transport in geological formations as a continuous time random walk, Reviews of Geophysics, 44(2).

Blagodatsky, S. & Smith, P. 2012. Soil Biology & Biochemistry, 47, 78-92.

Blunt, MJ, Bijeljic, B, Dong, H, Gharbi, O, Iglauer, S, Mostaghimi, P, Paluszny, A, Pentland, C. 2013. Advances in Water Resources, 51 : 197-216.   

Bouckaert, L., Sleutel, S., Van Loo, D., Brabant, L., Cnudde, V., Van Hoorebeke, L. & De Neve, S. 2013. Soil Research, 51, 14-22.

Bouchaud, J.-P., and A. Georges (1990), Physics Reports, 195(4-5), 127-293.

Carminati, A., Kaestner, A., Lehmann, P. & Fluhler, H. 2008. Advances in water resources, 31, 1221-1232.

Carrera, J., et al. (1998), , Hydrogeology Journal, 6(1).

Cazelles, K.; Otten, W.; Baveye, P. C.; et al.  2013. Ecological Modelling, 248, 165-173.  

Chenu, C. & Plante, A.F. 2006. European Journal of Soil Science, 56, 596-607.

Chenu, C. & Stotzky, G. 2002. Interactions between microorganisms and soil particles : An overview. In: Interactions between soil particles and microorganisms (eds. P.M. Huang, J.M. Bollag & N. Senesi), pp. 3-40. Wiley and Sons, New York.

Chenu, C., Hassink, J. & Bloem, J. 2001. Short term changes in the spatial distribution of microorganisms in soil aggregates as affected by glucose addition. Biology and Fertility of Soils, 34, 349-356.

Cnudde V., B. Masschaele, M. Dierick, J. Vlassenbroeck,L. Van Hoorebeke, P. Jacobs, 2006. Applied Geochemistry, 21:826-832.

Crawford. 2010. Geoderma. 160(1): 1-2

de Dreuzy, J. R., Rapaport, A., Babey, T., Harmand, J. (2013), Water Resources Research, 49(12), 8511-8530.

Del Grosso, S ; Ojima, D ; Parton, W ; Mosier, A ; Peterson, G ; Schimel, D.  2002.  Environmental Pollution.   116: S75-S83.   

De Neve, S. & Hofman, G. 2000. Biology and Fertility of Soils, 30, 544-549.

Dungait, J.A.J., Hopkins, D.W., Gregory, A.S. & Whitmore, A.P. 2012. Global Change Biology, 18, 1781-1796.

Falconer, Ruth E.; Houston, Alasdair N.; Otten, Wilfred; et al. 2012. Soil Science. 177, 111-119.   

Falconer, R.E., Bown, J.L., White, N.A. & Crawford, J.W. 2007. Oikos, 116, 1558 - 1568.

Folse, H.J. & Allison, S.D. 2012. Resources Research, 29(2), 305-319.

Friedlingstein, P., et al. 2006. Journal of Climate, 19, 3337–3353.

Garnier P., C. Néel, C. Aita, S. Recous, F. Lafolie et B. Mary. 2003.. European Journal of Soil Science. 54(3). 555-568.

Garnier P., Cambier C., Bousso M., Masse D., Chenu C., Recous S. 2008. Soil Biology and Biochemistry. 40 : 2754-2761.

Gharasoo, M., Centler, F., Regnier, P., Harms, H. & Thullner, M. 2012. Environmental Modeling & Software, 30, 102-114.

Goovaerts, P. (2001), Geoderma, 103(1-2), 3-26.

Gu J., B. Nicoullaud, P. Rochette, D .J. Pennock, C. Hénault, P. Cellier, G. Richard, 2011. Environmental Pollution, 159:3149-3155.

Gu J.,D.  Loustau.,C.  Hénault, P. Rochette, P. Cellier, B. Nicoullaud, A. Grossel, G. Richard, 2014. Nutr Cycl Agroecosyst, 98:27-40.

Haggerty, R., and S. M. Gorelick (1995), Water Resources Research, 31(10), 2383-2400.

Haidar I., Rapaport A. and Gérard F. (2011a), Mathematical Biosciences and Engineering, 8(4), 953-971.

Haidar I., Rapaport A. and Gérard F. (2011b), Computational Ecology and Software, 14, 224-239.

Heinen, M. 2006. Geoderma 133: 444-463.   

Henault, C; Germon, JC. 2000.   European Journal of Soil Science.  257-270.   

Henneron, L., Bernard, L., Hedde, M., Pélosi, C., Villenave, C., Chenu, C., Bertrand, M., Girardin, C. & Blanchart, E. 2014. Agronomy for Sustainable Development, in press.

Iqbal A., P. Garnier, G. Lashermes, S. Recous.  2014. Biology and Fertility of Soils, 50 : 645-655.

Jenkinson, D.S. & Rayner, J.H. 1977. Soil Science, 123, 298-305.

Jivkov, A. P., et al. (2013), Journal of Hydrology, 486, 246-258.

Juarez, S., Nunan, N., Duday, A.C., Pouteau, V. & Chenu, C. 2013. Biology and Fertility of Soils, 49, 939-948.

Juarez, S., Nunan, N., Duday, A.C., Pouteau, V., Schmidt, S., Hapca, S., Falconer, R., Otten, W. & Chenu, C. 2013. European Journal of Soil Biology, 58, 81-90.

Kelly et al. 1997. Geoderma, 81: 75-90   

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. 2008. Soil Biology & Biochemistry, 40, 61-73.

Klute and Dirksen 1986. In Klute (Ed.), Methods f Soil Analysis. Part 1. Agron. Monogr., vol. 9, 2nd ed. ASA and SSSA, Madison,WI, pp. 687–734.

Laville, P., Lehuger, S., Loubet, B., Chaumartin, F. and Cellier, P., 2011. Agric. For. Meteorol., 151(2): 228-240.

Lehuger et al. 2009. Agriculture, Ecosystems and Environment. 133: 208-222   

Lehuger, S., Gabrielle, B., Cellier, P., Loubet, B., Roche, R., Béziat, P., Ceschia, E. and Wattenbach, M., 2010. Agriculture, Ecosystems & Environment, 139(3): 384-395.

Lehmann, J., Solomon, D., Kinyangi, J., Dathe, L., Wirick, S. & Jacobsen, C. 2008.. Nature Geoscience, 1, 238-242.

Li, X., K. Ishikura, C. Wang, J. Yeluripati & R. Hatano (2015) Soil Science and Plant Nutrition, 61:1, 116-132.

Linn, Q. & Brookes, P.C. 1999. Soil Biology & Biochemistry, 31, 1999–2014.

Long, T. & Or, D. 2009.. Microbial Ecology, 58, 262–275.

Loubet, B., et al. 2011. Plant and Soil, 343(1-2): 109-137.

Manzoni, S. & Porporato, A. 2009. Soil Biology & Biochemistry, 41, 1355-1379.

Masse, D., Cambier, C., Brauman, A., Sall, S., Assigbetse, K. & Chotte, J.L. 2007. European Journal of Soil Science, 58, 1127-1135.

Monard, C., Mchergui, C., Nunan, N., Martin-Laurent, F. & Vieuble-Gonod, L. 2012. FEMS Microbiology Ecology, 81, 673-683.

Monga, O., Bousso, M., Garnier, P. & Pot, V. 2008. Ecological Modelling, 216, 291-302.

Monga, O., Bousso, M., Garnier, P. & Pot, V. 2009. Computers & Geosciences, 35, 1789-1801.

Monga, O., Garnier, P., Pot, V., Coucheney, E., Nunan, N., Otten, W., and Chenu, C. 2014. Biogeosciences , 11, 2201–2209.

Moyano, F.E., Manzoni, S. & Chenu, C. 2013. Soil Biology & Biochemistry, 59, 72-85.

Moyano, F.E., et al. 2012. Biogeosciences, 9, 1173-1182.

Ngom N.F., Monga O., Ould Mohamed M.M., Garnier P. 2012. Computers & Geosciences. 39 : 50-63.

Nunan, N., Ritz, K., Rivers, M., Feeney, D.S. & Young, I.M. 2006. Geoderma, 398-407, 398-407  

Nunan, N., Wu, K., Young, I.M., Crawford, J.W. & Ritz, K. 2002. Microbial Ecology, 44, 296.

Nunan, N., Wu, K., Young, I.M., Crawford, J.W. & Ritz, K. 2003. FEMS Microbiology Ecology, 44, 203-215.

Otten, W., Harris, K., Hall, D., Young, I.M., Ritz, K. & Gilligan, C.A. 2002. Bulletin OILB/SROP, 25.

Pallud, C., Dechesne, A., Gaudet, J.P., Debouzie, D. & Grundmann, G.L. 2004. Applied and Environmental Microbiology, 70, 2709-2716.

Perveen N., Barot S., Alvarez G., Klumpp K., Martin R., Rapaport A. and Fontaine S. 2014. Glob. Change Biol., 20(4), 1174-1190.

Peth, S., Chenu, C., Leblond, N., Anneka Mordhorst, Garnier, P., Nunan, N., Pot, V., Ogurereck, M., Beckmann F. Soil Biology & Biochemistry78, 189-194.

Peth, S.; Horn, R.; Beckmann, F.; et al. 2008.  Soil Science Society Of America Journal, 72, 897-907.   

Pot V., Peth S., Monga O., Vogel L. E., Genty A., Garnier P., Vieuble-Gonod L., Ogurreck M., Beckmann F; Baveye P C. 2015. Three-dimensional distribution of water and air in soil pores: Comparison of two-phase TRT lattice-Boltzmann and morphological model outputs with synchrotron X-ray computed tomography data. Advances in Water Resource, 84: 87-102.

Rabot E., Cousin I., Hénault C. 2015. 122:395-408.

Rabot E., Hénault C., Cousin I. 2015. Am J.Soil Sci. Soc. online

Ranjard, L., Poly, F., Combrisson, J., Richaume, A., Gourbiere, F., Thioulouse, J. & Nazaret, S. 2000. Microbial Ecology, 39, 263-272.

Rao, P. S. C., et al. (1980), Soil Sci. Soc. Am. J., 44(6), 1139-1146.

Rapaport A., Bayen T., Sebbah. M, Donoso A. and Torrico A.  2014. preprint hal.inria.fr/hal-01087946

Raynaud, X. & Nunan, N. 2014. Plos One, 9.

Resat, H., Bailey, V., McCue, L.A. & Konopka, A. 2012. Microbial Ecology, 63, 883-897.

Revsbech, N.P., Pedersen, O., Reichardt, W. & Briones, A. 1999. Biology and Fertility of Soils, 29, 379-385.

Ruamps, L.S., Nunan, N. & Chenu, C. 2011. Soil Biology & Biochemistry, 43, 280-286.

Ruamps, L.S., Nunan, N., Pouteau, V., Leloup, J., Raynaud, X., Roy, V. & Chenu, C. 2013. FEMS Microbiology Ecology, 86,26-35.

Schjonning, P., Thomsen, I.K., Moldrup, P. & Christensen, B.T. 2003. Soil Science Society of America Journal, 67, 156-165.

Schlüter S., Weller U., and Vogel H.J.  2011. Plant Nutr. Soil Sci., 174, 395–403

Skjemstad et al. 2004. Australian Journal of soil Research, 42: 79-88

Sleutel, S., Bouckaert, L., Buchan, D., Van Loo, D., Cornelis, W.M. & Sanga, H.G. 2012. Soil Biology & Biochemistry, 45, 40-48.

Smith, K.A. & Conen, F. 2004. Soil Use and Management, 20, 255-263.

Stauffer, D., and A. Aharony (1992), Introduction to percolation theory, second edition, Taylor and Francis, Bristol

Vieublé Gonod, L., Chadoeuf, J. & Chenu, C. 2006. Soil Science Society of America Journal, 70, 64-71.

Vieublé Gonod, L., Chenu, C. & Soulas, G. 2003. Soil Biology & Biochemistry, 35, 373-382.

Vogel H.J, J. Tölke, V.P. Schulz, M. Krafczyk, K. Roth, 2005. Vadose Zone Journal, 4:380-388.  

Vogel L., Makowski D., Garnier P., Vieublé-Gonod L., Raynaud X., Nunan N., Coquet Y., Chenu C., R. Falconer, Pot V. 2015. Modeling the effect of soil meso- and macropores topology on the biodegradation of a soluble carbon substrate. Advances in Water Resource, 83 : 123-136.

Young, I.M., Crawford, J.W., Nunan, N., Otten, W. & Spiers, A. 2008. Microbial distribution in soils: physics and scaling. Advances in Agronomy, 100, 80-121.

Wang, FG; Mladenoff, DJ; Forrester, JA; Keough, C; Parton, WJ. 2013. Advances in Water Resources. 32: 723

Willmann, M., et al. (2010), Water Resources Research, 46, 15

Zinn, B. A., et al. (2004), Environmental Science and Technology, 38(14), 3916-3926.