Chapter 13 References

Textbook

Bloom, A. J. (1997) Nitrogen as a limiting factor: Crop acquisition of ammonium and nitrate. In Ecology in Agriculture, L. E. Jackson, ed., Academic Press, San Diego, CA, pp. 145–172.

Bloom, A. J., Sukrapanna, S. S., and Warner, R. L. (1992) Root respiration associated with ammonium and nitrate absorption and assimilation by barley. Plant Physiol. 99: 1294–1301.

Hell, R. (1997) Molecular physiology of plant sulfur metabolism. Planta 202: 138–148.

Pate, J. S., and Layzell, D. B. (1990) Energetics and biological costs of nitrogen assimilation. In The Biochemistry of Plants, Vol. 16: Intermediary Nitrogen Metabolism, B. J. Miflin and P. J. Lea, eds., Academic Press, San Diego, CA, pp. 1–42.

Vande Broek, A. and Vanderleyden, J. (1995) Review: Genetics of the Azospirillum-plant root association. Crit. Rev. Plant Sci. 14: 445–466.

Nitrogen in the Environment

FAOSTAT. (2013) Food supply: Crops primary equivalent. Retrieved from http://faostat3.fao.org/home/index.html#DOWNLOAD

Schlesinger, W. H. (1997) Biogeochemistry: An Analysis of Global Change, 2nd ed. Academic Press, San Diego, CA.

Nitrate Assimilation

Campbell, W. H. (1999) Nitrate reductase structure, function and regulation: Bridging the gap between biochemistry and physiology. Annu. Rev. Plant Physiol. Plant Mol. Biol. 50: 277–303.

Campbell, W. H. (2001) Structure and function of eukaryotic NAD(P)H: Nitrate reductase. Cell. Mol. Life Sci. 58: 194–204.

Crawford, N. M., and Forde, B. J. (2002) Molecular and developmental biology of inorganic nitrogen nutrition. In: The Arabidopsis Book, C. Somerville and E. Meyerowitz, eds., American Society of Plant Physiologists, Rockville, MD. DOI: [10.1199/tab.0011], http://www.aspb.org/publications/arabidopsis/.

Fischer, K., Barbier, G. G., Hecht, H. J., Mendel, R. R., Campbell, W. H., and Schwarz, G. (2005) Structural basis of eukaryotic nitrate reduction: Crystal structures of the nitrate reductase active site. Plant Cell 17: 1167–1179.

Kaiser, W. M., Weiner, H., and Huber, S. C. (1999) Nitrate reductase in higher plants: A case study for transduction of environmental stimuli into control of catalytic activity. Physiol. Plant. 105: 385–390.

Kleinhofs, A., Warner, R. L., Lawrence, J. M., Melzer, J. M., Jeter, J. M., and Kudrna, D. A. (1989) Molecular genetics of nitrate reductase in barley. In Molecular and Genetic Aspects of Nitrate Assimilation, J. L. Wray and J. R. Kinghorn, eds., Oxford Science, New York, pp. 197–211.

Marschner, H. and Marschner, P. (2012) Marschner's Mineral Nutrition of Higher Plants, 3rd ed. Elsevier/Academic Press, London and Waltham, MA.

Mendel, R. R. (2005) Molybdenum: Biological activity and metabolism. Dalton Trans. 2005: 3404–3409.

Miller, A. J., Fan, X. R., Orsel, M., Smith, S. J., and Wells, D. M. (2007) Nitrate transport and signalling. J. Exp. Bot. 58: 2297–2306.

Oaks, A. (1994) Primary nitrogen assimilation in higher plants and its regulation. Can. J. Bot. 72: 739–750.

Pate, J. S. (1983) Patterns of nitrogen metabolism in higher plants and their ecological significance. In Nitrogen as an Ecological Factor: The 22nd Symposium of the British Ecological Society, Oxford 1981, J. A. Lee, S. McNeill, and I. H. Rorison, eds., Blackwell, Boston, pp. 225–255.

Siegel, L. M., and Wilkerson, J. Q. (1989) Structure and function of spinach ferredoxin-nitrite reductase. In Molecular and Genetic Aspects of Nitrate Assimilation, J. L. Wray and J. R. Kinghorn, eds., Oxford Science, Oxford, pp. 263–283.

Sivasankar, S., and Oaks, A. (1996) Nitrate assimilation in higher plants—the effect of metabolites and light. Plant Physiol. Biochem. 34: 609–620.

Smart, D. R., and Bloom, A. J. (2001) Wheat leaves emit nitrous oxide during nitrate assimilation. Proc. Natl. Acad. Sci. USA 98: 7875–7878.

Warner, R. L., and Kleinhofs, A. (1992) Genetics and molecular biology of nitrate metabolism in higher plants. Physiol. Plant. 85: 245–252.

Wray, J. L. (1993) Molecular biology, genetics and regulation of nitrite reduction in higher plants. Physiol. Plant. 89: 607–612.

Ammonium Assimilation

Lam, H.-M., Coschigano, K. T., Oliveira, I. C., Melo-Oliveira, R., and Coruzzi, G. M. (1996) The molecular-genetics of nitrogen assimilation into amino acids in higher plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47: 569–593.

Lea, P. J., Blackwell, R. D., and Joy, K. W. (1992) Ammonia assimilation in higher plants. In Nitrogen Metabolism of Plants (Proceedings of the Phytochemical Society of Europe: 33), K. Mengel and D. J. Pilbeam, eds., Clarendon, Oxford, pp. 153–186.

Sivasankar, S., and Oaks, A. (1996) Nitrate assimilation in higher plants—the effect of metabolites and light. Plant Physiol. Biochem. 34: 609–620.

Amino Acid Biosynthesis

Buchanan, B., Gruissem, W., and Jones, R., eds. (2000) Biochemistry and Molecular Biology of Plants. American Society of Plant Physiologists, Rockville, MD.

Biological Nitrogen Fixation

Buchanan, B., Gruissem, W., and Jones, R., eds. (2000) Biochemistry and Molecular Biology of Plants. American Society of Plant Physiologists, Rockville, MD.

Burris, R. H. (1976) Nitrogen fixation. In Plant Biochemistry, 3rd ed., J. Bonner and J. Varner, eds., Academic Press, New York, pp. 887–908.

Carlson, R. W., Forsberg, L. S., Price, N. P. J., Bhat, U. R., Kelly, T. M., and Raetz, C. R. H. (1995) The structure and biosynthesis of Rhizobium leguminosarum lipid A. In Progress in Clinical and Biological Research, Vol. 392: Bacterial Endotoxins: Lipopolysaccharides from Genes to Therapy: Proceedings of the Third Conference of the International Endotoxin Society, held in Helsinki, Finland, on August 15–18, 1994, J. Levin, C. R. Alving, R. S. Munford, and H. Redl eds., John Wiley and Sons, New York, pp. 25–31.

Denison, R. F., and Harter, B. L. (1995) Nitrate effects on nodule oxygen permeability and leghemoglobin. Plant Physiol. 107: 1355–1364.

Dixon, R. O. D., and Wheeler, C. T. (1986) Nitrogen Fixation in Plants. Chapman and Hall, New York.

Dixon, R., and Kahn, D. (2004) Genetic regulation of biological nitrogen fixation. Nat. Rev. Microbiol. 2: 621–631.

Franche, C., Lindstrom, K., and Elmerich, C. (2009) Nitrogen-fixing bacteria associated with leguminous and non-leguminous plants. Plant Soil 321: 35–59.

Geurts, R., and Bisseling, T. (2002) Rhizobium nod factor perception and signalling. Plant Cell 14: S239–S249.

Geurts, R., Lillo, A., and Bisseling, T. (2012) Exploiting an ancient signalling machinery to enjoy a nitrogen fixing symbiosis. Curr. Opin. Plant Biol. 15: 438–443.

Heidstra, R., and Bisseling, T. (1996) Nod factor-induced host responses and mechanisms of Nod factor perception. New Phytol. 133: 25–43.

Heytler, P. G., Reddy, G. S., and Hardy, R. W. F. (1984) In vivo energetics of symbiotic nitrogen fixation in soybeans. In Nitrogen Fixation and CO₂ Metabolism, P. W. Ludden, and I. E. Burris, eds., Elsevier, New York, pp. 283–292.

Herridge, D. F., Peoples, M. B., and Boddey, R. M. (2008) Global inputs of biological nitrogen fixation in agricultural systems. Plant Soil 311: 1–18.

Hirsch, S., Kim, J., Munoz, A., Heckmann, A. B., Downie, J. A., and Oldroyd, G. E. D. (2009) GRAS proteins form a DNA binding complex to induce gene expression during nodulation signaling in Medicago truncatula. Plant Cell 21: 545–557.

James, E. K. (2000) Nitrogen fixation in endophytic and associative symbiosis. Field Crops Res. 65: 197–209.

Ludwig, R. A., and de Vries, G. E. (1986) Biochemical physiology of Rhizobium dinitrogen fixation. In Nitrogen Fixation, Vol. 4: Molecular Biology, W. I. Broughton and S. Puhler, eds., Clarendon, Oxford, pp. 50–69.

Maillet, F., Poinsot, V., Andre, O., Puech-Pages, V., Haouy, A., Gueunier, M., Cromer, L., Giraudet, D., Formey, D., Niebel, A., et al. (2011) Fungal lipochitooligosaccharide symbiotic signals in arbuscular mycorrhiza. Nature 469: 58–63.

Marschner, H. and Marschner, P. (2012) Marschner's Mineral Nutrition of Higher Plants, 3rd ed. Elsevier/Academic Press, London and Waltham, MA.

Mylona, P., Pawlowski, K., and Bisseling, T. (1995) Symbiotic nitrogen fixation. Plant Cell 7: 869–885.

Oldroyd, G. E. D., and Downie, J. M. (2008) Coordinating nodule morphogenesis with rhizobial infection in legumes. Annu. Rev. Plant Biol. 59: 519–546.

Oldroyd, G. E., Murray, J. D., Poole, P. S., and Downie, J. A. (2011) The rules of engagement in the legume-rhizobial symbiosis. Annu. Rev. Gen. 45: 119–144.

Ott, T., van Dongen, J. T., Günther, C., Krusell, L., Desbrosses, G., Vigeolas, H., Bock, V., Czechowski, T., Geigenberger, P., and Udvardi, M. K. (2005) Symbiotic leghemoglobins are crucial for nitrogen fixation in legume root nodules but not for general plant growth and development. Curr. Biol. 15: 531–535.

Phillips, D. A., and Kapulnik, Y. (1995) Plant isoflavonoids, pathogens and symbionts. Trends Microbiol. 3: 58–64.

Preisig, O., Zufferey, R., Thony-Meyer, L., Appleby, C. A., and Hennecke, H. (1996) A high-affinity cbb3-type cytochrome oxidase terminates the symbiosis-specific respiratory chain of Bradyrhizobium japonicum. J. Bacteriol. 178: 1532–1538.

Radutoiu, S., Madsen, L. H., Madsen, E. B., Jurkiewicz, A., Fukai, E., Quistgaard, E. M. H., Albrektsen, A. S., James, E. K., Thirup, S., and Stougaard, J. (2007) LysM domains mediate lipochitin-oligosaccharide recognition and Nfr genes extend the symbiotic host range. EMBO J. 26: 3923–3935.

Rainbird, R. M., Hitz, W. D., and Hardy, R. W. (1984) Experimental determination of the respiration associated with soybean/Rhizobium nitrogenase function, nodule maintenance, and total nodule nitrogen fixation. Plant Physiol. 75: 49–53.

Reis, V. M., Baldani, J. I., Baldani, V. L. D., and Dobereiner, J. (2000) Biological dinitrogen fixation in Gramineae and palm trees. Crit. Rev. Plant Sci. 19: 227–247.

Rolfe, B. G., and Gresshoff, P. M. (1988) Genetic analysis of legume nodule initiation. Annu. Rev. Plant Physiol. Plant Mol. Biol. 39: 297–320.

Santi, C., Bogusz, D., and Franche, C. (2013) Biological nitrogen fixation in non-legume plants. Ann. Bot. 111: 743–767.

Seefeldt, L. C., Hoffman, B. M., and Dean, D. R. (2009) Mechanism of Mo-dependent nitrogenase. Annu. Rev. Biochem. 78: 701–722.

Stokkermans, T. J. W., Ikeshita, S., Cohn, J., Carlson, R. W., Stacey, G., Ogawa, T., and Peters, N. K. (1995) Structural requirements of synthetic and natural product lipo-chitin oligosaccharides for induction of nodule primordia on Glycine soja. Plant Physiol. 108: 1587–1595.

Timmers, A. C. J., Auriac, M.-C., and Truchet, G. (1999) Refined analysis of early symbiotic steps of the Rhizobium-Medicago interaction in relation with microtubular cytoskeleton re-arrangements. Development 126: 3617–3628.

Udvardi, M. and Poole, P. S. (2013) Transport and metabolism in legume-rhizobia symbioses. Annu. Rev. Plant Biol: 64: 781–805.

Urquiaga, S., Xavier, R. P., de Morais, R. F., Batista, R. B., Schultz, N. Leite, J. M., e Sá, J. M., Barbosa, K. P., de Resende, A. S., and Alves, B. J. (2012) Evidence from field nitrogen balance and ¹⁵N natural abundance data for the contribution of biological N₂ fixation to Brazilian sugarcane varieties. Plant Soil 356: 5–21.

Wei, H. and Layzell, D. B. (2006) Adenylate-coupled ion movement: A mechanism for the control of nodule permeability to O₂ diffusion. Plant Physiol. 141: 280–287.

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Sulfur Assimilation

Bergmann, L., and Rennenberg, H. (1993) Glutathione metabolism in plants. In Sulfur Nutrition and Assimilation in Higher Plants: Regulatory Agricultural and Environmental Aspects, L. J. De Kok, I. Stulen, H. Rennenberg, C. Brunold, and W. E. Rauser, eds., SPB Academic Publishing, The Hague, Netherlands, pp. 109–123.

Hell, R. (1997) Molecular physiology of plant sulfur metabolism. Planta 202: 138–148.

Kopriva, S. (2006) Regulation of sulfate assimilation in Arabidopsis and beyond. Ann. Bot. 97: 479–495.

Leustek, T., and Saito, K. (1999) Sulfate transport and assimilation in plants. Plant Physiol. 120: 637–643.

Leustek, T., Martin, M. N., Bick, J.-A., and Davies, J. P. (2000) Pathways and regulation of sulfur metabolism revealed through molecular and genetic studies. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51: 141–165.

Takahashi, H., Kopriva, S., Giordano, M., Saito, K., and Hell, R. (2011) Sulfur assimilation in photosynthetic organisms: Molecular functions and regulations of transporters and assimilatory enzymes. Annu. Rev. Plant Biol. 62: 157–184.

Phosphate Assimilation

Cation Assimilation

Briat, J.-F., Ravet, K., Arnaud, N., Duc, C., Boucherez, J., Touraine, B., Cellier, F., and Gaymard, F. (2010) New insights into ferritin synthesis and function highlight a link between iron homeostasis and oxidative stress in plants. Ann. Bot. 105: 811–822.

Guerinot, M. L., and Yi, Y. (1994) Iron: Nutritious, noxious, and not readily available. Plant Physiol. 104: 815–820.

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Jeong, J., and Guerinot, M. L. (2009) Homing in on iron homeostasis in plants. Trends Plant Sci. 14: 280–285.

Jones, O. T. G. (1983) Ferrochelatase. In Metals and Micronutrients: Uptake and Utilization by Plants, D. A. Robb and W. S. Pierpoint, eds., Academic Press, New York, pp. 125–144.

Kobayashi, T. and Nishizawa, N. K. (2012) Iron uptake, translocation, and regulation in higher plants. Annu. Rev. Plant Biol. 63: 131–152.

Lobreaux, S., Massenet, O., and Briat, J.-F. (1992) Iron induces ferritin synthesis in maize plantlets. Plant Mol. Biol. 19: 563–575.

Marschner, H. and Marschner, P. (2012) Marschner's Mineral Nutrition of Higher Plants, 3^rd Edition. Elsevier/Academic Press, London and Waltham, MA.

Ravet, K., Touraine, B., Boucherez, J., Briat, J. F., Gaymard, F., and Cellier, F. (2009) Ferritins control interaction between iron homeostasis and oxidative stress in Arabidopsis. Plant J. 57: 400–412.

Rees, D. A. (1977) Polysaccharide Shapes. Chapman and Hall, London.

Thomine, S. and Vert, G. (2013) Iron transport in plants: better be safe than sorry. Curr. Opin. Plant Biol. 16: 322–327.

Welch, R. M., and Graham, R. D. (2004) Breeding for micronutrients in staple food crops from a human nutrition perspective. J. Exp. Bot. 55: 353–364.

Oxygen Assimilation

See chapters 7 and 12.

The Energetics of Nutrient Assimilation

Backhausen, J. E., Emmerlich, A., Holtgrefe, S., Horton, P., Nast, G., Rogers, J. J. M., Muller-Rober, B., and Scheibe, R. (1998) Transgenic potato plants with altered expression levels of chloroplast NADP-malate dehydrogenase: Interactions between photosynthetic electron transport and malate metabolism in leaves and in isolated intact chloroplasts. Planta 207: 105–114.

Becker, T. W., Carrayol, E., and Hirel, B. (2000) Glutamine synthetase and glutamate dehydrogenase isoforms in maize leaves: Localization, relative proportion and their role in ammonium assimilation or nitrogen transport. Planta 211: 800–806.

Bloom, A. J. (1997) Nitrogen as a limiting factor: Crop acquisition of ammonium and nitrate. In Ecology in Agriculture, L. E. Jackson, ed., Academic Press, San Diego, CA, pp. 145–172.

Bloom, A. J., Burger, M., Asensio, J. S. R., and Cousins, A. B. (2010) Carbon dioxide enrichment inhibits nitrate assimilation in wheat and Arabidopsis. Science 328: 899–903.

Bloom, A. J., Rubio-Asensio, J. S., Randall, L., Rachmilevitch, S., Cousins, A. B., and Carlisle, E. A. (2012) CO₂ enrichment inhibits shoot nitrate assimilation in C₃ but not C₄ plants and slows growth under nitrate in C₃ plants. Ecology 93: 355–367.

Carlisle, E., Myers, S. S., Raboy, V., and Bloom, A. J. (2012) The effects of inorganic nitrogen form and CO₂ concentration on wheat yield and nutrient accumulation and distribution. Front. Plant Sci. 3: 195.

Foyer, C. H., Bloom, A. J., Queval, G., and Noctor, G. (2009) Photorespiratory metabolism: Genes, mutants, energetics, and redox signaling. Annu. Rev. Plant Biol. 60: 455–484.

Igamberdiev, A. U., Bykova, N. V., Lea, P. J., and Gardestrom, P. (2001) The role of photorespiration in redox and energy balance of photosynthetic plant cells: A study with a barley mutant deficient in glycine decarboxylase. Physiol. Plant. 111: 427–438.

Quesada, A., Gomez-Garcia, I., and Fernandez, E. (2000) Involvement of chloroplast and mitochondria redox valves in nitrate assimilation. Trends Plant Sci. 5: 463–464.

Rachmilevitch, S., Cousins, A. B., and Bloom, A. J. (2004) Nitrate assimilation in plant shoots depends on photorespiration. Proc. Natl. Acad. Sci. USA 101: 11506–11510.

Rathnam, C. K. M. (1978) Malate and dihydroxyacetone phosphate-dependent nitrate reduction in spinach leaf protoplasts. Plant Physiol. 62: 220–223.

Rathnam, C. K. M., and Edwards, G. E. (1976) Distribution of nitrate-assimilating enzymes between mesophyll protoplasts and bundle sheath-cells in leaves of three groups of C₄ plants. Plant Physiol. 57: 881–885.

Robinson, J. M. (1987) Interactions of carbon and nitrogen metabolism in photosynthetic and non-photosynthetic tissues of higher plants: Metabolic pathways and controls. In: Models in Plant Physiology and Biochemistry, D. W. Newman, and K. G. Stuart, eds. Vol. 1, CRC Press, Boca Raton, FL. pp. 25–35.

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Taniguchi, M. and Miyake, H. (2012) Redox-shuttling between chloroplast and cytosol: Integration of intra-chloroplast and extra-chloroplast metabolism. Curr. Opin. Plant Biol. 15: 252–260.

Voss, I., Sunil, B., Scheibe, R., and Raghavendra, A. S. (2013) Emerging concept for the role of photorespiration as an important part of abiotic stress response. Plant Biol. 15: 713–722.

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Lobreaux, S., Massenet, O., and Briat, J. F. (1992) Iron induces ferritin synthesis in maize plantlets. Plant Mol. Biol. 19: 563–575.

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