Agroecology Lab

 

Publications


2012
  • Culman, S.W., S.S. Snapp, M.E. Schipanski, M.A. Freeman, J. Beniston, L.E. Drinkwater, A.J. Franzluebbers, J.D. Glover, A.S. Grandy, R. Lal, J. Lee, J.E. Maul, S.B. Mirksy, J. Six, J.T. Spargo, and M.M. Wander. 2012. Permanganate oxidizable carbon reflects a processed soil fraction that is sensitive to management. Soil Sci. Soc. Am. J., 76:494-504.
  • Six, J. Fungal friends against drought. 2012. Nature Climate Change, 2:234-235.
  • Krupa, M.S., R.G.M. Spencer, K.W. Tate, J. Six, C. van Kessel, and B. Linquist. 2012. Controls on Dissolved Organic Carbon Composition and Export from Rice-dominated Systems. Biogeochem., 108:447-466.
  • Yan, Y., T. Jing, F. Mingsheng, F. Zhang, L. Xiaolin, P. Christie, H. Chen, J. Lee, Y. Kuzyakov, and J. Six. 2012. Soil organic carbon and total nitrogen in intensively managed arable soils. Agr. Ecosys. Environ., 150:102-110.
  • Decock, C., and J. Six. 2012. Effects of elevated CO2 and O3 on N-cycling and N2O emissions: A short-term laboratory assessment. Plant Soil, 351: 277-292.
  • Carrington,, E.M., P.J. Hernes, R.Y. Dyda, A.F. Plante, and J. Six. 2012. Biochemical changes across a carbon saturation gradient: lignin, cutin, and suberin decomposition and stabilization in fractionated carbon pools. Soil Biol. Biochem., 47:179-190.
  • Bach, E.M., S.G. Baer, and J. Six. 2012. Plant and soil responses to high and low diversity grassland restoration practices. Environ. Management, 42:412-424.
  • Six, J., E. Gregorich, and I. Kögel-Knabner. 2012. Landmark Papers: No. 1. Tisdall, J. M. & Oades, J. M. 1982. Organic matter and water-stable aggregates in soils. Journal of Soil Science, 33, 141-163 Commentary on the impact of the impact of Tisdall & Oades (1982). Eur. J. Soil Sci., 63:3–7.
  • Bouillon, S., A. Yambélé, R.G.M. Spencer, D.P. Gillikin, P.J. Hernes, J. Six, R. Merckx, and A.V. Borges. 2012. Organic matter sources, fluxes and greenhouse gas exchange in the Oubangui River (Congo River basin). Biogeosciences, 9:2045-2062.
  • Doetterl, S., J. Six, B. Van Wesemael, K. Van Oost. 2012. Carbon cycling in eroding landscapes: Geomorphic controls on soil organic C pool composition and C stabilization. Global Change Biol.
  • Doetterl, S., K. Van Oost, and J. Six. 2012. Towards constraining the magnitude of global agricultural sediment and soil organic carbon fluxes. Earth Surf. Process. Landforms, 37:642-655.
  • Kong, A.Y.Y., and J. Six. 2012. Microbial community assimilation of cover crop rhizodeposition within soil microenvironments in alternative and conventional cropping systems. Plant Soil, 356:315-330.
  • Lee, J., G. Pedroso, B.A. Linquist, D. Putnam, C. van Kessel, and J. Six. 2012. Simulating switchgrass biomass production across ecoregions using the DAYCENT model. Global Change Biol. Bioen., 4:521-533.
  • Kearney, S., S.J. Fonte, A. Salomon, J. Six, and K.M. Scow. Forty percent revenue increase by combining organic and mineral nutrient amendments in Ugandan smallholder market vegetable production.  Agron. Sustain. Dev., 32:831-839.
  • Garland, G.M., E. Suddick, M. Burger, W.R. Horwath, and J. Six. Direct N2O emissions following transition from conventional till to no-till in a cover cropped Mediterranean vineyard (Vitis vinifera). Agr. Ecosyst. Environ.
  • Ayuke. F.O., L. Brussaard, B. Vanlauwe, J. Six, D.K. Lelei, and M.M. Pulleman. Soil fertility management: impacts on soil macrofauna, soil aggregation and soil organic matter allocation. Appl. Soil Ecol.
  • Pena-Barragan, J.M., M. Ngugi, J. Six, and R.E. Plant. Object-based crop identification using multiple vegetation indices, textural features and crop phenology. Remote Sensing Environ.
  • Chivenge, P., B. Vanlauwe, R. Gentile, and J. Six. Comparison of organic versus mineral resource effects on short-term aggregate carbon and nitrogen dynamics in a sandy soil versus a fine textured soil. Agr. Ecosys. Environ.
  • Briar, S.S., S.J. Fonte, I. Park, J. Six, K.M. Scow, and H. Ferris. The distribution of nematodes and soil microbial communities across soil aggregate fractions and farm management systems. Soil Biol. Biochem.
  • Lee, J., C. van Kessel, and J. Six. Dinitrogen fixation by winter-grown chickpea after waterlogging across scales in a Mediterranean climate. J. Agron. Crop Sci.
  • Chivenge, P., B. Vanlauwe, and J. Six. Does the combined application of organic and mineral nutrient sources 1 influence resource use efficiency? A meta-analysis. Plant Soil
  • Gentile, R., B. Vanlauwe, and J. Six. Litter quality impacts short- but not long-term soil carbon dynamics. Ecol. Appl.
  • Pedroso, G., C. De Ben, R. Hutmacher, S. Orloff, D. Putnam, J. Six, C. van Kessel, S. Wright, and B. Linquist. Establishment and Productivity of Irrigated Switchgrass across Ecozones in California. Cal. Ag.
  • Spencer, R.G.M., P.J. Hernes, A.K. Aufdenkampe, A. Baker, P. Gulliver, A. Stubbins, G.R. Aiken, R.Y. Dyda, K.D. Butler, V.L. Mwamba, A.M. Mangangu, J.N. Wabakanghanzi, and J. Six. 2012. An Initial Investigation into the Organic Matter Biogeochemistry of the Congo River and Estuary. Geochim. Cosmochim. Acta, 84:614-627.
  • Decock, C., H. Chung, R. Venterea, S.B. Gray, A. Leakey, and J. Six. 2012. Elevated CO2 and O3 modify N turnover rates, but not N2O emissions in a soybean agroecosystem. Soil Biol. Biochem., 51:104-114.

2011
  • Ayuke. F.O., B. Vanlauwe, M.M. Pulleman, R.G.M. de Goede, J. Six, C. Csaba, and L. Brussaard. Agricultural management affects earthworm and termite diversity across sub-humid to semi-arid tropical zones. Agr. Ecosys. Environ., 140:148-154.
  • Chivenge, P., B. Vanlauwe, R. Gentile, and J. Six. Organic resource quality influences short-term aggregate dynamics and soil organic carbon and nitrogen accumulation. Soil Biol. Biochem., 43:657-666.
  • Six, J. 2011. Plant nutrition for sustainable development and global health. Plant Soil, 339:1-2.
  • Vanlauwe, B., J. Kihara, P. Chivenge, P. Pypers, R. Coe, and J. Six. 2011. Agronomic use efficiency of N fertilizer in maize-based systems in Sub-Saharan Africa within the context of Integrated Soil Fertility Management. Plant Soil, 339:35-50.
  • Lee, J., S. De Gryze, J. Six. 2011. Effect of climate change on field crop production in California's Central Valley. Climatic Change., 109 (Suppl 1): S335-S353.
  • Luo, Y., J.M. Melillo, S. Niu, C. Beier, J.S. Clark, A.T. Classen E. Davidson, J. S. Dukes, R.D. Evans, C. B. Field, C. I. Czimczik, M. Keller, B.A. Kimball, L.M. Kueppers, R.J. Norby, S.L. Pelini, E. Pendall, E. Rastetter, J. Six, M. Smith, M.G. Tjoelker, M.S. Torn. 2011. Coordinated Approaches to Quantify Long-Term Ecosystem Dynamics in Response to Global Change. Global Change Biol., 17:843-854.
  • Haddix, M.L., A.F. Plante, R.T. Conant, J. Six, J.M. Steinweg, K. Magrini-Bair, R.A. Drijber, S.J. Morris, and E.A. Paul. 2011. The role of soil characteristics on temperature sensitivity of soil organic matter. Soil Sci. Soc. Am. J., 75:56-68.
  • Pereira, E.I.P., H. Chung, K.M. Scow, M.J. Sadowsky, C. van Kessel, and J. Six. 2011. Soil nitrogen transformations under elevated atmospheric CO2 and O3 during the soybean growing season. Environmental Pollution. 159:401-407.
  • Gentile, R., B. Vanlauwe, P. Chivenge, and J. Six. 2011. Trade-offs between the short- and long-term effects of residue quality on soil C and N dynamics. Plant Soil 338:159-169.
  • Kong, A.Y.Y., K.M. Scow, A.L. Córdova-Kreylos, W.E. Holmes, and J. Six. 2011. Microbial community composition and carbon cycling within soil microenvironments of conventional, low-input, and organic cropping systems. Soil Biol. Biochem. 43:20-30.

2010
  • Bach, E.M., S.G. Baer, C.K. Meyer, and J. Six. 2010. Soil texture affects soil microbial and structural recovery during grassland restoration. Soil Biol. Biochem. 42:2182-2191.
  • De Gryze, S., A. Wolf, S.R. Kaffka, J.P. Mitchell, D.E. Rolston, S.R. Temple, J. Lee, and J. Six. 2010. Simulating greenhouse gas budgets of four California cropping systems under conventional and alternative management. Ecol. Appl. 20: 1805-1819.
  • Gillabel, J., B. Cebrian-Lopez, J. Six, R. Merckx. 2010. Experimental evidence for the attenuating effect of SOM protection on temperature sensitivity of SOM decomposition. Glob. Change Biol. 16:2789-2798.
  • Gentile, R., B. Vanlauwe, A. Kavoo, P. Chivenge and J. Six. 2010. Residue quality and N fertilizer do not influence aggregate stabilization of C and N in two tropical soils with contrasting texture. Nutr. Cycl. Agroecosys. 88:121-131.
  • Baer, S.G., C.K. Meyer, E.M. Bach, R.P. Klopf, and J. Six. 2010. Contrasting ecosystem recovery on two soil textures during grassland restoration: implications for conservation and mitigation. Ecosphere, 1: article5 p 1-22.
  • Spencer, R.G.M., P.J. Hernes, R. Ruf, A. Baker, R.Y. Dyda, A. Stubbins, and J. Six. 2010. Temporal controls on dissolved organic matter and lignin biogeochemistry in a pristine tropical river, Democratic Republic of Congo. J. Geophys. Res. 115: G03013, doi:10.1029/2009JG001180
  • Kong, A.Y.Y., K. Hristova, K.M. Scow, and J. Six. 2010. Impacts of different N management regimes on nitrifier and denitrifier communities and N cycling in soil microenvironments. Soil Biol. Biochem. 42: 1523-1533.
  • Suddick, E.C., K.M. Scow, W.R. Horwath, L.E. Jackson, D.R. Smart, J.P. Mitchell, and J. Six. 2010. The Potential for California Agricultural Crop Soils to Reduce Greenhouse Gas Emissions: a Holistic Evaluation. Adv. Agr. 107:123-162.
  • Fonte, S.J., E. Barrios, and J. Six. 2010. Earthworm impacts on soil organic matter and fertilizer dynamics in tropical hillside agroecosystems of Honduras. Pedobiologia 53:327-335.
  • Kong, A.Y.Y., and J. Six. 2010. Tracing cover crop root versus residue carbon into soils from conventional, low-Input, and organic cropping systems. Soil Sci. Soc. Am. J. 74:1201-1210.
  • Lei, B., M. Fan, Q. Chen, J. Six, and F. Zhang. 2010. Changes in soil organic matter characteristics following the conversion of wheat-maize to vegetable cropping systems. Soil Sci. Soc. Am. J. 74:1320-1326.
  • Fonte, S.J., and J. Six. 2010. Earthworms and litter management contributions to ecosystem services in a tropical agroforestry system. Ecol. Appl. 20: 1061–1073.
  • Stubbins, A., R.G. M. Spencer, H. Chen, P.G. Hatcher, K. Mopper, P.J. Hernes, V.L. Mwamba, A.M. Mangangu, J.N. Wabakanghanzi, and J. Six. 2010. Illuminated darkness: molecular signatures of Congo River dissolved organic matter and its photochemical alteration as revealed by ultrahigh precision mass spectrometry. Limnol. Oceanogr. 55: 1467–1477.
  • Fonte, S.J., E. Barrios, and J. Six. 2010. Earthworms, soil fertility and aggregate-associated soil organic matter dynamics in the Quesungual agroforestry system. Geoderma 155:320-328.
  • Lee, J., J. Six. 2010. Reply to: Comment on ''Determining soil carbon stock changes: Simple bulk density corrections fail''. Agric. Ecosyst. Environ. 136: 187.
  • Chung, H., K.J. Ngo, A.F. Plante, and J. Six. 2010. Evidence for soil C saturation in organic matter-rich soils. Soil Sci. Soc. Am. J. 74:130-138.
  • Ruark, M.D., B.A. Linquist, J. Six, C. van Kessel, C.A. Greer, R.G. Mutters, and J.E. Hill. 2010. Seasonal losses of dissolved organic carbon and total dissolved solids from rice production systems in northern California. J. Environ. Qual. 39:304-313.

2009
  • Gomes, J., C. Bayer, F. Costa , M. Piccolo, J.A. Zanatta, F.C.B. Vieira, and J. Six. 2009. Soil nitrous oxide emissions in long-term cover crops-based rotations under subtropical climate. Soil Till. Res. 106:36-44.
  • Lee, J., E.A. Laca, C. van Kessel, J. Hopmans, D.E. Rolston, and J. Six. 2009. Tillage Effects on Spatiotemporal Variability of Particulate Organic Matter . Appl. Environ. Soil Sci. doi:10.1155/2009/219379.
  • Fierer, N., A. S. Grandy, J. Six, E.A. Paul. 2009. Searching for unifying principles in soil ecology. Soil Biol. Biochem. 41: 2249-2256.
  • Lee, J., J.W. Hopmans, D.E. Rolston, S.G. Baer, and J. Six. 2009. Determining soil carbon stock changes: Simple bulk density corrections fail. Agr. Ecosys. Environ. 134: 251-256.
  • Chivenge, P., B. Vanlauwe, R. Gentile, H. Wangechi, D. Mugendi, C. van Kessel, and J. Six. 2009. Organic and mineral input management to enhance crop productivity in Central Kenya. Agron. J. 101: 1266-1275.
  • Spencer, R.G.M., A. Stubbins, P.J. Hernes, A. Baker, K. Mopper, A.K. Aufdenkampe, R.Y. Dyda, V.L. Mwamba, A.M. Mazedi, J.N. Wabakanghanzi, and J. Six. 2009. Photochemical degradation of dissolved organic matter and dissolved lignin phenols from the Congo River. J. Geophys. Res. 114: G03010.
  • Vieira, F.C.B., C. Bayer, J.A. Zanatta, J. Mielniczuk, and J. Six. 2009. Organic matter in no-till subtropical soil subjected to legume cover crop-based maize systems. Soil Sci. Soc. Am. J. 73: 1699–1706.
  • Hungate, B.A., K.J. van Groenigen, J.Six, J.D. Jastrow, Y.Luo, M.A. de Graaff, C. van Kessel, C. W. Osenberg. 2009. Assessing the effect of elevated carbon dioxide on soil carbon: a comparison of four meta-analyses. Global Change Biol. 15:2020-2034.
  • Kong, A.Y.Y, S. J. Fonte, C. van Kessel, and J. Six. 2009. Transitioning from standard to minimum tillage: trade-offs between soil organic matter stabilization, nitrous oxide emissions, and N availability in irrigated cropping systems. Soil Till. Res. 104: 256-262.
  • Plante, A.F, J. Six, E.A. Paul, and R.T. Conant. 2009. Does physical protection of soil organic matter attenuate temperature sensitivity? Soil Sci. Soc. Am. J. 73:1168-1172.
  • De Graaff, M.A., C. van Kessel, J. Six. 2009. Rhizodeposition-induced decomposition increases N availability to wild and cultivated wheat genotypes under elevated CO2. Soil Biol. Biochem. 41:1094-1103.
  • King, A.P., J.K. Evatt, J. Six, R.M. Poch, D.E. Rolston, and J.W. Hopmans. 2009. Annual C and N loadings for a furrow-irrigated field. Ag Water Management 96: 925-930.
  • Fonte, S.J., E. Yeboah, P. Ofori, G.W. Quansah, B. Vanlauwe, and J. Six. 2009. Fertilizer and residue quality effects on organic matter stabilization in soil aggregates. Soil Sci. Soc. Am. J. 73:961-966
  • Howitt, R.E., R. Catala-Luque, S. De Gryze, S. Wicks, and J. Six. 2009. Realistic payments could encourage farmers to adopt practices that sequester carbon. Cal. Ag. 63:91-95.
  • De Gryze, S., M.V. Albarracin, R. Catala-Luque, R.E. Howitt, and J. Six. 2009. Modeling shows that alternative soil management can decrease greenhouse gases. Cal. Ag. 63:84-90.
  • Gentile, R., B. Vanlauwe, C. van Kessel, and J. Six. 2009. Managing N availability and losses by combining fertilizer-N with different quality residues in Kenya. Ag. Ecosys. Envir. 131:308-314.
  • Decock, C., K. Denef, S. Bode, J. Six, and P. Boeckx. 2009. Critical assessment of the applicability of gas chromatography-combustion-IRMS to determine amino sugar dynamics in soil. Rapid Comm. Mass Spec. 23:1201-1211.
  • Stewart, C.E., K. Paustian, R.T. Conant, A.F. Plante, and J. Six. 2009. Soil carbon saturation: implications for measurable carbon pool dynamics in long-term incubations. Soil Biol. Biochem. 41:357-366.
  • Fonte, S.J., T. Winsome, and J. Six. 2009. Earthworm populations in relation to soil organic matter dynamics and management in California tomato cropping systems. Appl. Soil Ecol. 41:206-214.
  • Lee, J., J.W. Hopmans, C. van Kessel, A.P. King, K. J. Evatt, D. Louie, D.E. Rolston, and J. Six. 2009. Tillage and seasonal emissions of CO2, N2O and NO across a seed bed and landscape in a Mediterranean climate. Agr. Ecosys. Environ. 129:378-390.

2008
  • Buchner, J.S., J. Simunek, J. Lee, D.R. Rolston, J.W. Hopmans, A.P. King and J. Six. 2008. Evaluation of CO2 fluxes from an agricultural field using a process-based numerical model. J. Hydr. 361:131-143.
  • Conant, R.T., J. M. Steinweg, M.L. Haddix, E.A. Paul, A.F. Plante, and J. Six. Experimental warming shows that decomposition temperature sensitivity increases with soil organic matter recalcitrance. Ecology 89:2384-2391.
  • Gentile, R., B. Vanlauwe, P. Chivenge, and J. Six. 2008. Interactive effects from combining fertilizer and organic residue inputs on nitrogen transformations. Soil Biol. Biochem. 40:2375-2384.
  • Chung, H., J.H. Grove, and J. Six. Indications for soil C saturation in a temperate agroecosystem. Soil Sci. Soc. Am. J. 72:1132-1139.
  • Stewart, C.E., K. Paustian, R.T. Conant, A.F. Plante, J. Six. 2008. Soil carbon saturation: evaluation and corroboration by long-term incubations. Soil Biol. Biochem. 40:1741-1750.
  • Linquist, B.A., E. Byous, G. Jones, J.K. Williams, J. Six, W. Horwath, C. van Kessel. Nitrogen and potassium fertility impacts on aggregate sheath spot disease and yields of rice. Plant Prod. Sci. 11:260-267.
  • Gulde, S., H. Chung, W. Amelung, C. Chang, and J. Six. 2008. Soil carbon saturation controls labile and stable carbon pool dynamics. Soil Sci. Soc. Am. J., 72:605-612.
  • Conant, R., R.A. Drijber, M.L. Haddix, W.J. Parton, E.A. Paul, A.F. Plante, J. Six, and J.M. Steinweg. 2008. Sensitivity of organic matter decomposition to warming varies with its quality. Global Change Biol., 14:868-877.
  • Lichter, K., B. Govaerts, J. Six, K.D. Sayre, J. Deckers, L. Dendooven. 2008. Aggregation and C and N contents of soil organic matter fractions in a permanent raised-bed planting system in the Highlands of Central Mexico. Plant and Soil, 305:237-252.
  • De Gryze, S., H. Bossuyt, J. Six, K. Van Oost, and R. Merckx. 2008. The relationship between landform and the distribution of soil C, N and P under conventional and minimum tillage. Geoderma, 144:180-188.
  • Van Oost, K., J. Six, G. Govers, T. Quine, and S. De Gryze. 2008. Soil Erosion: A carbon sink or source? Science, 319:1040-1041.
  • De Graaff, M.A., C. van Kessel, and J. Six. 2008. The impact of long-term elevated CO2 on C and N retention in stable SOM pools. Plant Soil, 303:311-321.
  • Olchin, G.P., S. Ogle, S.D. Frey, T.R. Filley, K. Paustian, and J. Six. 2008. Residue Carbon Incorporation into Soil Aggregates of No-Tillage and Tillage Dryland Cropping Systems. Soil Sci. Soc. Am. J., 72:507-513.
  • Stewart, C.E., K. Paustian, A.F. Plante, R.T. Conant, and J. Six. 2008. Soil carbon saturation: linking concept and measurable carbon pools. Soil Sci. Soc. Am. J., 72:379-392.

2007
  • Van Oost, K., T. A. Quine, G. Govers, S. De Gryze, J. Six, J.W. Harden, J.C. Ritchie, G.W. McCarty, G. Heckrath, K. Cosmas, J.V. Giraldez, J.R. Marques da Silva, R. Merck. 2007. The impact of agricultural soil erosion on the global carbon cycle. Science, 318:626-629.
  • Zotarelli, L., B.J.R. Alves, S. Urquiaga, R.M. Boddey, and J. Six. 2007. Impact of tillage and crop rotation on aggregate-associated soil organic matter in two Oxisols. Soil Till. Res., 95:196-206.
  • Stewart, C.E., K. Paustian, A.F. Plante, R.T. Conant, and J. Six. 2007. Whole-soil carbon saturation: Concept, Evidence and Evaluation. Biogeochem., 86:19-31.
  • De Gryze, S., H. Bossuyt, J. Six, M. Van Meirvenne, G. Govers, and R. Merckx. 2007. Controlling factors of aggregation at the landscape level in minimum and conventional tillage systems. Eur. J. Soil Sci., 58:1017-1026.
  • Kong, A.Y.Y., S.J. Fonte, C. van Kessel, and J. Six. 2007. Soil aggregates control N cycling efficiency in long-term conventional and alternative cropping systems. Nutr. Cycl. Agr. , 79:45-58.
  • Kool, D.M., H. Chung, K.R. Tate, D.J. Ross, P.C.D. Newton, and J. Six. 2007. Hierarchical saturation of soil carbon pools near a natural CO2 spring. Global Change Biol., 13:1282-1293.
  • Van groenigen, K.J., J. Six, D. Harris, and C. van Kessel. 2007. Elevated CO2 does not favor a fungal decomposition pathway. Soil Biol. Biochem., 39:2168-2172.
  • Chivenge, P.P., H. K. Murwira, K. E. Giller, P. Mapfumo and J. Six. 2007. Long-term impact of tillage and residue management on soil carbon stabilization: Implications for conservation agriculture on contrasting soils. Soil Till. Res., 94:328-337.
  • Denef, K., L. Zotarelli, R.M. Boddey, and J. Six. 2007. Microaggregate-associated C as a diagnostic fraction for management-induced changes in soil organic carbon in two Oxisols. Soil Biol. Biochem., 39:1165-1172.
  • Fonte, S.J., A.Y.Y. Kong, C. van Kessel, P. F. Hendrix, and J. Six. 2007. Influence of earthworm activity on aggregate-associated carbon and nitrogen dynamics differs with agroecosystem management. Soil Biol. Biochem., 39:1014-1022.
  • De Graaff, M.A., J. Six, and C. van Kessel. 2007. Elevated CO2 increases N rhizodeposition and microbial immobilization of root-derived N. New Phytologist, 173:778-786.
  • West, T.O., and J. Six. 2007. Considering the influence of sequestration duration and carbon saturation on estimates of soil carbon capacity. Climatic Change, 80:25-41.
  • Brussaard, L., M.M. Pulleman, A. Mando, E. Ouedraogo, and J. Six. 2007. Soil fauna and soil function in the fabric of the food web. Pedobiologia, 50:447-462.

2006
  • Denef, K., and J. Six. 2006. Contributions of incorporated residue and living roots to aggregate-associated and microbial carbon in two soils with different clay mineralogy. Eur. J. Soil Sci., 57, 774-786.
  • De Graaff, M.A., K.J. van Groenigen, J. Six, B.A. Hungate, and C. van Kessel. Interactions between plant growth and soil nutrient cycling under elevated CO2: a meta-analysis. Global Change Biol., 12:2077-2091.
  • C. van Kessel, B. Boots, M.A. De Graaff, D. Harris, H. Blum, and J. Six.  Total soil C and N sequestration in a grassland following 10 years of free air CO2 enrichment. Global Change Biol., 12:2187-2199.
  • De Gryze, R., J. Six, and R. Merckx. 2006. Quantifying water-stable soil aggregate turnover and its implication to soil organic matter dynamics in a model study. Eur. J. Soil Sci., 57:693-707.
  • De Gryze, S., L. Jassogne, J. Six, H. Bossuyt, S. Herman, M. Wevers, and R. Merckx. 2006. Pore structure changes during decomposition of fresh residue: X-ray tomography analyses. Geoderma, 134:82-96.
  • Mummey, D.L., Rillig, C.R., and J. Six. 2006. Endogeic earthworm differentially influence bacterial communities associated with different soil aggregate size fractions. Soil Biol. Biochem., 38:1608-1614.
  • Cavagnaro, T.R., L.E. Jackson, J. Six, H. Ferris, S. Goyal, D. Asami, and K.M. Scow. 2006. Arbuscular mycorrhizas, microbial communities, nutrient availability, and soil aggregates in organic tomato production. Plant Soil, 282:209-225.
  • Plante, A.F., R.T. Conant, E.A. Paul, K. Paustian, and J. Six. 2006. Acid hydrolysis of easily dispersed and microaggregate-derived silt- and clay-sized fractions to isolate resistant soil organic matter. Eur. J.  Soil. Sci., 57:456-467.
  • Mummey, D.L., W.E. Holben, J. Six, and P.D. Stahl. 2006. Spatial stratification of soil microbial populations in diverse soils: Rubrobacteria and Gemmatimonads are abundant in water-stable microaggregate interiors while Acidobacteria are primarily associated with macroaggregates. Micr. Ecol., 51:404-411.
  • Van Groenigen, K.J., J. Six, B.A. Hungate, M.A. de Graaff, N. van Breemen, and C. van Kessel. 2006. Element interactions limit soil C storage. Proc. Nat. Acad. Sci., 103:6571-6574.
  • Lee, J., J. Six, A.P. King, C. van Kessel, and D.E. Rolston. 2006. Tillage and field-scale controls on greenhouse gas emissions. J. Environ. Qual., 35: 714-725.
  • De Gryze, S., L. Jassogne, H. Bossuyt, J. Six, and R. Merckx. 2006. Water repellence and soil aggregate dynamics in a loamy grassland soil as affected by texture. Eur. J. Soil Sci., 57:235-246.
  • Thiet, R.K., S.D. Frey, and J. Six. 2006. Do growth yield efficiencies differ between soil microbial communities differing in fungal:bacterial ratios? Reality check and methodological issues. Soil Biol. Biochem. , 38:837-844.
  • Phillips, D.A., T.C. Fox, and J. Six. 2006. Root exudation (net efflux of amino acids) may increase rhizodeposition under elevated CO2. Global Change Biol., 12:561-567.
  • Six, J., S.D. Frey, R.K. Thiet, and K.M. Batten. 2006. Bacterial and fungal contributions to C-sequestration in agroecosystems. Soil Sci. Soc. Am. J. 70:555-569.
  • Plante, A.F., C.E. Stewart, R.T. Conant, K. Paustian, and J. Six. 2006. Soil management effects on organic carbon storage in fractions physically isolated from a Gray Luvisol soil. Can. J. Soil Sci. 86:141-151.
  • Poch, R.M., J.W. Hopmans, J. Six, D.E. Rolston, and J.L. McIntyre. 2006. Considerations of a field scale soil carbon budget for furrow irrigation. Agric. Ecosys. Environ. 113:391-398.
  • Plante, A.F., R.T. Conant, C.E. Stewart, K. Paustian, and J. Six. 2006. Impact of soil texture on the distribution of soil organic matter in physical and chemical fractions. Soil Sci. Soc. Am. J., 70:287-296.
  • Bossuyt, H., J. Six, and P.F. Hendrix. 2006. Interactive effects of functionally different earthworm species on aggregation and incorporation and decomposition of newly added residue carbon. Geoderma, 130:14-25.
  • De Graaff, M.A., J. Six, H. Blum, and C. van Kessel. 2006. Prolonged elevated atmospheric CO2 does not affect decomposition of plant material. Soil Biol. Biochem., 38:187-190.

2005
  • Batten, K.M., J. Six, K.M. Scow, and M.C. Rillig. 2005. Minimal effects of plant invasion on selected physical and biological properties of serpentine grassland soils. Soil Biol. Biochem., 37:2277-2282.
  • Ladha, J.K., H. Pathak, T.J. Krupnik, J. Six, and C. van Kessel. 2005. Efficiency of fertilizer nitrogen in cereal production: Retrospects and prospects. Adv. Agr., 87:85-156.
  • Moran, K.K., J. Six, W.R. Horwath, and C. van Kessel. 2005. Role of mineral-nitrogen in residue decomposition and stable soil organic matter formation. Soil Sci. Soc. Am. J., 69:1730-1736.
  • Denef, K., and J. Six. 2005. Clay mineralogy determines the importance of biological versus abiotic processes for macroaggregate formation and stabilization. Eur. J. Soil Sci., 56: 469-479.
  • Pulleman, M.M., J. Six, N. van Breemen and A.G. Jongmans. 2005. Soil organic matter distribution and microaggregate characteristics as affected by agricultural management and earthworm activity. Eur. J. Soil Sci., 56:453-467.
  • Kong, A.Y., J. Six, D.C. Bryant, R. F. Denison, and C. van Kessel. 2005. The relationship between carbon input, aggregation, and soil organic carbon stabilization in sustainable cropping systems. Soil Sci. Soc. Am. J., 69:1078-1085.
  • Bruun, S., J. Six, L.S. Jensen, and K. Paustian. 2005. Estimating turnover of soil organic carbon fractions based on radiocarbon measurements. Radiocarbon, 47:99-113.
  • Pulleman, M.M, J. Six, A. Uyl, J.C.Y. Marinissen, A.G. Jongmans. 2005. Earthworms and management affect organic matter incorporation and microaggregate formation in agricultural soils. Appl. Soil Ecol., 29:1-15.
  • Zotarelli, L., B.J.R. Alves, S. Urquiaga, E. Torres, H.P. dos Santos, K. Paustian, R.M. Boddey, and J. Six. 2005. Impact of tillage and crop rotation on aggregate-associated C in two Oxisols. Soil Sci. Soc. Am. J., 69:482-491.
  • Van Groenigen, C.J., A. Gorissen, J. Six, D. Harris, P. Kuikman, J.W. van Groenigen, and C. van Kessel. 2005. Decomposition of 14C-labeled roots in a pasture soil exposed to 10 years of elevated CO2. Soil Biol. Biochem., 37:497-506.
  • Bossuyt, H., J. Six, and P.F. Hendrix. 2005. Protection of soil carbon by microaggregates in earthworm casts. Soil Biol. Biochem., 37:251-258.
  • De Gryze, S., J. Six, C. Brits and R. Merckx. 2005. A quantification of short-term macroaggregate dynamics: Influences of wheat residue input and texture. Soil Biol. Biochem., 37: 55-66.

2004
  • De Graaff, M.A., J. Six, D. Harris, H. Blum, and C. van Kessel. 2004. Decomposition of soil and plant carbon from pasture systems after nine years of exposure to elevated CO2: Impact on C cycling and modeling. Global Change Biol., 10:1922-1935.
  • Denef, K., J. Six, R. Merckx, and K. Paustian. 2004. Carbon sequestration in microaggregates of no-tillage soils with different clay mineralogy. Soil Sci. Soc. Am. J., 68:1935-1944.
  • Conant, R.T., J. Six, and K. Paustian. 2004. Land use effects on soil carbon fractions in Southeastern United States: II. Changes in soil carbon fractions along a forest to pasture chronosequence. Biol. Fert. Soils, 40:194-200.
  • Six, J., H. Bossuyt, S. De Gryze, and K. Denef. 2004. A history of research on the link between (micro)aggregates, soil biota, and soil organic matter dynamics. Soil Till. Res., 79:7-31.
  • Bruun, S., J. Six, L.S. Jensen. 2004. Estimating vital statistics and age distributions of measurable soil organic carbon fractions based on their pathway of formation and radiocarbon content. J. Theor. Biol., 230:241-250.
  • Simpson, R.T., S.D. Frey, J. Six, and R.K. Thiet. 2004. Preferential accumulation of microbial carbon in aggregate structures of no-tillage soils. Soil. Sci. Soc. Am. J., 68:1249-1255.
  • De Gryze, S., J. Six, K. Paustian, S.J. Morris, E.A. Paul, and R. Merckx. 2004. Soil organic pool changes following land use conversions. Global Change Biol., 10:1120-1132.
  • Bossuyt, H., J. Six, and P.F. Hendrix. 2004. Rapid incorporation of carbon from fresh residues into newly formed stable microaggregates within earthworm casts. Eur. J. Soil Sci., 55:393-399.
  • Six, J., S.M. Ogle, F.J. Breidt, R.T. Conant, A.R. Mosier, and K. Paustian. 2004. The potential to mitigate global warming with no-tillage is only realized when practiced in the long-term. Global Change Biol. 10:155-160.

2003
  • Van Groenigen, K.J., J. Six, D. Harris, H. Blum, and C. van Kessel. 2003. Soil 13C-15N dynamics in a N2-fixing clover system under long-term exposure to elevated atmospheric CO2. Global Change Biol., 9:1751-1762.
  • Conant, R.T., J. Six, and K. Paustian. 2003. Land use effects on soil carbon fractions in Southeastern United States: I. Management intensive grazing versus extensive grazing. Biol. Fert. Soils, 38: 386-392.
  • Paul, E.A., S.J. Morris, J. Six, K. Paustian and E.G. Gregorich. 2003. Determination of the ecosystem controls on C and N dynamics in afforested agricultural soils. Soil Sci. Soc. Am. J., 67:1620-1628.
  • Del Galdo, I., J. Six, A. Peressotti, and M.F. Cotrufo. 2003. Assessing the impact of land-use on C sequestration by means of soil organic matter fractionation and stable C isotopes. Global Change Biol., 9:1204-1213.
  • Frey, S.D., J. Six and E.T. Elliott. 2003. Reciprocal transfer of carbon and nitrogen by decomposer fungi at the soil-litter interface. Soil Biol. Biochem., 35:1001-1004.
  • Salas, A.M., E.T. Elliott, D.G. Westfall, C.V. Cole, and J. Six. 2003. The role of particulate organic matter in phosphorus cycling. Soil Sci. Soc. Am. J., 67:181-189.

2002
  • Six, J., C. Feller, K. Denef, S.M. Ogle, J.C. de Moraes Sa and A. Albrecht. 2002. Organic matter, biota and aggregation in temperate and tropical soils – Effects of no-tillage. Agron. Agricul. Envir., 22:755-775.
  • Six, J., P. Callewaert, S. Lenders, S. Degryze, S.J. Morris, E.G. Gregorich, E.A. Paul and K. Paustian. 2002. Measuring and understanding carbon storage in afforested soils by physical fractionation. Soil Sci. Soc. Am. J., 66:1981-1987.
  • Bossuyt, H., J. Six, and P.F. Hendrix. 2002. Aggregate protected carbon in no-tillage and conventional tillage agroecosystems using 14C labeled plant residue. Soil Sci. Soc. Am. J., 66:1965-1973.
  • Denef, K., J. Six, R. Merckx, and K. Paustian. 2002. Short-term effects of biological and physical forces on aggregate formation in soils with different clay mineralogy. Plant Soil, 246:185-200
  • Six, J., R.T. Conant, E.A. Paul, and K. Paustian. 2002. Stabilization mechanisms of soil organic matter: Implications for C-saturation of soils. Plant Soil, 241:155-176.

2001
  • Six, J., G. Guggenberger, K. Paustian, L. Haumaier, E.T. Elliott, and W. Zech. 2001. Sources and composition of physically defined soil organic matter fractions. Eur. J. Soil Sci., 52:607-618.
  • Denef, K., J. Six, R. Merckx, and K. Paustian. 2001. Importance of macroaggregate turnover in controlling carbon sequestration in soils: effect of physical disturbance induced by dry-wet cycles. Soil Biol. Biochem., 33:2145-2153.
  • Denef, K., J. Six, H. Bossuyt, S.D. Frey, E.T. Elliott, R. Merckx, and K. Paustian. 2001. Influence of wet-dry cycles on the interrelationship between aggregate, particulate organic matter, and microbial community dynamics. Soil Biol. Biochem., 33:1599-1611.
  • Six, J., A. Carpentier, C. van Kessel, R. Merckx, D. Harris, W.R. Horwath and A. Lüsher. 2001. Impact of elevated CO2 on soil organic matter and aggregate dynamics as related to changes in aggregate turnover and residue quality. Plant Soil, 234:27-36.
  • Bossuyt, H., K. Denef. J. Six, S.D. Frey, R. Merckx, and K. Paustian. 2001. Influence of microbial populations and residue quality on aggregate stability. Appl. Soil Ecol., 16:195-208.

2000
  • Six, J., E.T. Elliott, and K. Paustian. 2000. Soil macroaggregate turnover and microaggregate formation: A mechanism for C sequestration under no-tillage agriculture. Soil Biol. Biochem., 32:2099-2103
  • Six, J., E.T. Elliott, and K. Paustian. 2000. Soil structure and soil organic matter: II. A normalized stability index and the effect of mineralogy. Soil Sci. Soc. Am. J., 64:1042-1049.
  • Six, J., K. Paustian, E.T. Elliott, and C. Combrink. 2000. Soil structure and soil organic matter: I. Distribution of aggregate size classes and aggregate associated carbon. Soil Sci. Soc. Am. J., 64:681-689.
  • Six, J., R. Merckx, K. Kimpe, E.T. Elliott, and K. Paustian. 2000. A reevaluation of the enriched labile soil organic matter fraction. Eur. J. Soil Sci., 51:283-293.
  • Paustian, K., J. Six, E.T. Elliott, and H.W. Hunt. 2000. Management options for reducing CO2 emissions from agricultural soils. Biogeochem., 48:147-163.

1999
  • Six, J. E.T. Elliott, and K. Paustian. 1999. Aggregate and soil organic matter dynamics under conventional and no-tillage systems. Soil Sci. Soc. Am. J., 63:1350-1358.
  • Guggenberger, G., S.D. Frey, J. Six, E.T. Elliott, and K. Paustian. 1999. Bacterial and fungal cell-wall residues in conventional and no-tillage agroecosystems. Soil Sci. Soc. Am. J., 63:1188-1198.
  • Six, J., P.A. Schultz, J.D. Jastrow, and R. Merckx. 1999. Recycling of sodium polytungstate used in soil organic matter studies. Soil Biol. Biochem., 31:1193-1196.
  • Guggenberger, G., E.T. Elliott, S.D. Frey, J. Six, and K. Paustian. 1999. Microbial contributions to the aggregation of cultivated grassland soil amended with starch. Soil Biol. Biochem., 31:407-419.

1998
  • Six, J., E.T. Elliott, K. Paustian, and J.W. Doran. 1998. Aggregation and soil organic matter storage in cultivated and native grassland soils. Soil Sci. Soc. Am. J., 62:1367-1377.

Invited and Refereed Chapters
  • Denef, K., A.F. Plante, and J. Six. Characterization of soil organic matter: Integrated Methodology on Soil Carbon Flux Measurements. Eds W. Kutsch, M. Bahn, and A. Heinemeyer. Cambridge University Press. In press.
  • Van Groenigen, K.J., M.A. de Graaff, J. Six, D. Harris, P. Kuikman, C. van Kessel. 2006. The Impact of Elevated Atmospheric [CO2] on Soil C and N Dynamics: A Meta-Analysis. In: Ecological Studies, vol. 187, pp. 373-392 "Managed Ecosystems and CO2 Case Studies, Processes, and Perspectives" eds.: J. Nösberger, S.P. Long, R.J. Norby, M. Stitt, G.R. Hendrey, H. Blum. © Springer-Verlag Berlin Heidelberg
  • Krupnik, T.J., J. Six, J.K. Ladha, M.J. Paine and C. van Kessel. 2004. An assessment of fertilizer nitrogen recovery efficiency by grain crops. In A.R. Mosier, J.K. Syers, and J.R. Freney (eds). Agriculture and the Nitrogen Cycle: Assessing the Impacts of Fertilizer Use on Food Production and the Environment. SCOPE 65. Island Press, Washington. pp. 193-207.
  • Six, J. and J.D. Jastrow. 2002. Soil Organic Matter Turnover. In R. Lal (Ed.). Encyclopedia of Soil Science, Marcel Dekker, NY. pp. 936-942.