Global transcription profiling reveals multiple sugar signal transduction mechanisms in Arabidopsis W inside box sign

Plant Cell

Volumn 16, Issue 8, 2004, Pages 2128-2150

  Price, John ^a   Laxmi, Ashverya ^a   St Martin, Steven K ^a   Jang, Jyan Chyun ^a  

^a OHIO STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; ENVIRONMENTAL IMPACT; GROWTH KINETICS; METABOLISM; METABOLITES; MICROANALYSIS; NITROGEN; PLANT CELL CULTURE;

GLOBAL TRANSCRIPTION PROFILING; GLUCOSE REPRESSION;

SUGAR (SUCROSE);

CELLS; METABOLISM; MICROANALYSIS; NITROGEN; NUCLEIC ACIDS; SUCROSE;

ARABIDOPSIS; ARABIDOPSIS THALIANA; EMBRYOPHYTA; EUKARYOTA;

EID: 4043060783     PISSN: 10404651     EISSN: None     Source Type: Journal    
DOI: 10.1105/tpc.104.022616     Document Type: Article

References (132)

1. Arenas-Huertero, F., Arroyo, A., Zhou, L., Sheen, J., and Leon, P. (2000). Analysis of Arabidopsis glucose insensitive mutants, gin5 and gin6, reveals a central role of the plant hormone ABA in the regulation of plant vegetative development by sugar. Genes Dev. 14, 2085-2096.
2. Arroyo, A., Bossi, F., Finkelstein, R.R., and Leon, P. (2003). Three genes that affect sugar sensing (abscisic acid insensitive 4, abscisic acid insensitive 5, and constitutive triple response 1) are differentially regulated by glucose in Arabidopsis. Plant Physiol. 133, 231-242.
3. Baker, E.J., and Liggit, P. (1993). Accelerated poly(A) loss and mRNA stabilization are independent effects of protein synthesis inhibition on alpha-tubulin mRNA in Chlamydomonas. Nucleic Acids Res. 21, 2237-2246.
4. Bard, J.B., and Rhee, S.Y. (2004). Ontologies in biology: Design, applications and future challenges. Nat. Rev Genet 5, 213-222.
5. Barker, L., Kuhn, C., Weise, A., Schulz, A., Gebhardt, C., Hirner, B., Hellmann, H., Schulze, W., Ward, J.M., and Frommer, W.B. (2000). SUT2, a putative sucrose sensor in sieve elements. Plant Cell 12, 1153-1164.
6. Beaudoin, N., Serizet, C., Gosti, F., and Giraudat, J. (2000). Interactions between abscisic acid and ethylene signaling cascades. Plant Cell 12, 1103-1115.
7. Boer, V.M., de Winde, J.H., Pronk, J.T., and Piper, M.D. (2003). The genome-wide transcriptional responses of Saccharomyces cerevisiae grown on glucose in aerobic chemostat cultures limited for carbon, nitrogen, phosphorus, or sulfur. J. Biol. Chem. 278, 3265-3274.
8. Bolstad, B.M., Irizarry, R.A., Astrand, M., and Speed, T.P. (2003). A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 19, 185-193.
9. Borisjuk, L., Walenta, S., Rolletschek, H., Mueller-Klieser, W., Wobus, U., and Weber, H. (2002). Spatial analysis of plant metabolism: Sucrose imaging within Vicia faba cotyledons reveals specific developmental patterns. Plant J. 29, 521-530.
10. Brocard, I.M., Lynch, T.J., and Finkelstein, R.R. (2002). Regulation and role of the Arabidopsis abscisic acid-insensitive 5 gene in abscisic acid, sugar, and stress response. Plant Physiol. 129, 1533-1543.
11. Brocard-Gifford, I., Lynch, T.J., Garcia, M.E., Malhotra, B., and Finkelstein, R.R. (2004). The Arabidopsis thaliana abscisic acid-insensitive8 locus encodes a novel protein mediating abscisic acid and sugar responses essential for growth. Plant Cell 16, 406-421.
12. Brocard-Gifford, I.M., Lynch, T.J., and Finkelstein, R.R. (2003). Regulatory networks in seeds integrating developmental, abscisic acid, sugar, and light signaling. Plant Physiol. 131, 78-92.
13. Buckhout, T.J., and Thimm, O. (2003). Insights into metabolism obtained from microarray analysis. Curr. Opin. Plant Biol. 6, 288-296.
14. Camon, E., Magrane, M., Barrell, D., Lee, V., Dimmer, E., Maslen, J., Binns, D., Harte, N., Lopez, R., and Apweiler, R. (2004). The gene ontology annotation (GOA) database: Sharing knowledge in Uniprot with gene ontology. Nucleic Acids Res. 32, D262-D266.
15. Chan, M.T., and Yu, S.M. (1998a). The 3′ untranslated region of a rice alpha-amylase gene functions as a sugar-dependent mRNA stability determinant. Proc. Natl. Acad. Sci. USA 95, 6543-6547.
16. Chan, M.T., and Yu, S.W. (1998b). The 3′ untranslated region of a rice alpha-amylase gene mediates sugar-dependent abundance of mRNA. Plant J. 15, 685-695.
17. Cheng, C.L., Acedo, G.N., Cristinsin, M., and Conkling, M.A. (1992). Sucrose mimics the light induction of Arabidopsis nitrate reductase gene transcription. Proc. Natl. Acad. Sci. USA 89, 1861-1864.
18. Cheng, W.H., Endo, A., Zhou, L., Penney, J., Chen, H.C., Arroyo, A., Leon, P., Nambara, E., Asami, T., Seo, M., Koshiba, T., and Sheen, J. (2002). A unique short-chain dehydrogenase/reductase in Arabidopsis glucose signaling and abscisic acid biosynthesis and functions. Plant Cell 14, 2723-2743.
19. Cheng, W.H., Taliercio, E.W., and Chourey, P.S. (1999). Sugars modulate an unusual mode of control of the cell-wall invertase gene (lncw1) through its 3′ untranslated region in a cell suspension culture of maize. Proc. Natl. Acad. Sci. USA 96, 10512-10517.
20. Choiu, T.J., and Bush, D.R. (1998). Sucrose is a signal molecule in assimilate partitioning. Proc. Natl. Acad. Sci. USA 95, 4784-4788.
21. Cortes, S., Gromova, M., Evrard, A., Roby, C., Heyraud, A., Rolin, D.B., Raymond, P., and Brouquisse, R.M. (2003). In plants, 3-O-methylglucose is phosphorylated by hexokinase but not perceived as a sugar. Plant Physiol. 131, 824-837.
22. Coruzzi, G., and Bush, D.R. (2001). Nitrogen and carbon nutrient and metabolite signaling in plants. Plant Physiol. 125, 61-64.
23. Coruzzi, G.M., and Zhou, L. (2001). Carbon and nitrogen sensing and signaling in plants: Emerging 'matrix effects'. Curr. Opin. Plant Biol. 4, 247-253.
24. Cotelle, V., Meek, S.E., Provan, F., Milne, F.C., Morrice, N., and MacKintosh, C. (2000). 14-3-3s regulate global cleavage of their diverse binding partners in sugar-starved Arabidopsis cells. EMBO J. 19, 2869-2876.
25. DeRisi, J.L., Iyer, V.R., and Brown, P.O. (1997). Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278, 680-686.
26. Eastmond, P.J., and Graham, I.A. (2003). Trehalose metabolism: A regulatory role for trehalose-6-phosphate? Curr. Opin. Plant Biol. 6, 231-235.
27. Eastmond, P.J., van Dijken, A.J., Spielman, M., Kerr, A., Tissier, A.F., Dickinson, H.G., Jones, J.D., Smeekens, S.C., and Graham, I.A. (2002). Trehalose-6-phosphate synthase 1, which catalyses the first step in trehalose synthesis, is essential for Arabidopsis embryo maturation. Plant J. 29, 225-235.
28. Eisen, M.B., Spellman, P.T., Brown, P.O., and Botstein, D. (1998). Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 95, 14863-14868.
29. Elbein, A.D., Pan, Y.T., Pastuszak, I., and Carroll, D. (2003). New insights on trehalose: A multifunctional molecule. Glycobiology 13, 17-27.
30. Epstein, C.B., and Butow, R.A. (2000). Microarray technology - Enhanced versatility, persistent challenge. Curr. Opin. Biotechnol. 11, 36-41.
31. Fernie, A.R., Willmitzer, L., and Trethewey, R.N. (2002). Sucrose to starch: A transition in molecular plant physiology. Trends Plant Sci. 7, 35-41.
32. Forde, B.G. (2002). Local and long-range signaling pathways regulating plant responses to nitrate. Annu. Rev. Plant Biol. 53, 203-224.
33. Fritzius, T., Aeschbacher, R., Wiemken, A., and Wingler, A. (2001). Induction of ApL3 expression by trehalose complements the starch-deficient Arabidopsis mutant adg2-1 lacking ApL1, the large subunit of ADP-glucose pyrophosphorylase. Plant Physiol. 126, 883-889.
34. Gansel, X., Munos, S., Tillard, P., and Gojon, A. (2001). Differential regulation of the NO3- and NH4+ transporter genes AtNrt2.1 and AtAmt1.1 in Arabidopsis: Relation with long-distance and local controls by N status of the plant. Plant J. 26, 143-155.
35. Gazzarrini, S., and McCourt, P. (2001). Genetic interactions between ABA, ethylene and sugar signaling pathways. Curr. Opin. Plant Biol. 4, 387-391.
36. Ghassemian, M., Nambara, E., Cutler, S., Kawaide, H., Kamiya, Y., and McCourt, P. (2000). Regulation of abscisic acid signaling by the ethylene response pathway in Arabidopsis. Plant Cell 12, 1117-1126.
37. Gibson, S.I. (2000). Plant sugar-response pathways. Part of a complex regulatory web. Plant Physiol. 124, 1532-1539.
38. Gibson, S.I. (2004). Sugar and phytohormone response pathways: Navigating a signalling network. J. Exp. Bot. 55, 253-264.
39. Gibson, S.I., Laby, R.J., and Kim, D. (2001). The sugar-insensitive1 (sis1) mutant of Arabidopsis is allelic to ctr1. Biochem. Biophys. Res. Commun. 280, 196-203.
40. Glass, A.D., Britto, D.T., Kaiser, B.N., Kinghorn, J.R., Kronzucker, H.J., Kumar, A., Okamoto, M., Rawat, S., Siddiqi, M.Y., Unkles, S.E., and Vidmar, J.J. (2002). The regulation of nitrate and ammonium transport systems in plants. J. Exp. Bot. 53, 855-864.
41. Goda, H., Shimada, Y., Asami, T., Fujioka, S., and Yoshida, S. (2002). Microarray analysis of brassinosteroid-regulated genes in Arabidopsis. Plant Physiol. 130, 1319-1334.
42. Goddijn, O.J., and van Dun, K. (1999). Trehalose metabolism in plants. Trends Plant Sci. 4, 315-319.
43. Golub, T.R., Slonim, D.K., Tamayo, P., Huard, C., Gaasenbeek, M., Mesirov, J.P., Coller, H., Loh, M.L., Downing, J.R., Caligiuri, M.A., Bloomfield, C.D., and Lander, E.S. (1999). Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring. Science 286, 531-537.
44. Guo, H., and Ecker, J.R. (2003). Plant responses to ethylene gas are mediated by SCF(EBF1/EBF2)-dependent proteoiysis of EIN3 transcription factor. Cell 115, 667-677.
45. Guo, H., and Ecker, J.R. (2004). The ethylene signaling pathway: New insights. Curr. Opin. Plant Biol. 7, 40-49.
46. Harmer, S.L., Hogenesch, J.B., Straume, M., Chang, H.S., Han, B., Zhu, T., Wang, X., Kreps, J.A., and Kay, S.A. (2000). Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. Science 290, 2110-2113.
47. Harrís, M.A., et al. (2004). The gene ontology (GO) database and informatics resource. Nucleic Acids Res. 32, D258-D261.
48. Ho, S.-L., Chao, Y.-C., Tong, W.-F., and Yu, S.-M. (2001). Sugar coordinately and differentially regulates growth- and stress-related gene expression via a complex signal transduction network and multiple control mechanisms. Plant Physiol. 125, 877-890.
49. Horak, C.E., and Snyder, M. (2002). ChlP-chip: A genomic approach for identifying transcription factor binding sites. Methods Enzymol. 350, 469-483.
50. Huber, S.C., Huber, J.L., and Pharr, D.M. (1993). Assimilate partioning and utilization in source and sink tissues. In International Crop Science I, D.R. Buxton, R. Shibles, R.A. Forsbert, B.L. Blad, K.H. Asay, G.M. Paulsen, and R.F. Wilson, eds (Madison, WI: Crop Science Society of America), pp. 789-797.
51. Huijser, C., Kortstee, A., Pego, J., Weisbeek, P., Wisman, E., and Smeekens, S. (2000). The Arabidopsis SUCROSE UNCOUPLED-6 gene is identical to ABSCISIC ACID INSENSITIVE-4: Involvement of abscisic acid in sugar responses. Plant J. 23, 577-585.
52. Jang, J.C., Leon, P., Zhou, L., and Sheen, J. (1997). Hexokinase as a sugar sensor in higher plants. Plant Cell 9, 5-19.
53. Jang, J.C., and Sheen, J. (1994). Sugar sensing in higher plants. Plant Cell 6, 1665-1679.
54. Jiao, Y., et al. (2003). A genome-wide analysis of blue-light regulation of Arabidopsis transcription factor gene expression during seedling development. Plant Physiol. 133, 1480-1493.
55. Johnston, M. (1999). Feasting, fasting and fermenting. Glucose sensing in yeast and other cells. Trends Genet. 15, 29-33.
56. Jones, P., and Vogt, T. (2001). Glycosyltransferases in secondary plant metabolism: Tranquilizers and stimulant controllers. Planta 213, 164-174.
57. King, I.F., and Kingston, R.E. (2001). Specifying transcription. Nature 414, 858-861.
58. Klein, D., Morcuende, R., Stitt, M., and Krapp, A. (2000). Regulation of nitrate reductase expression in leaves by nitrate and nitrogen metabolism is completely overridden when sugars fall below a critical level. Plant Cell Environ. 23, 863-871.
59. Knight, H., and Knight, M.R. (2001). Abiotic stress signalling pathways: Specificity and cross-talk. Trends Plant Sci. 6, 262-267.
60. Kobayashi, M., Izui, H., Nagasawa, T., and Yamada, H. (1993). Nitrilase in biosynthesis of the plant hormone indole-3-acetic acid from indole-3-acetonitrile: Cloning of the Alcaligenes gene and site-directed mutagenesis of cysteine residues. Proc. Natl. Acad. Sci. USA 90, 247-251.
61. Koch, K.E. (1996). Carbohydrate-modulated gene expression in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 509-540.
62. Laby, R.J., Kincaid, M.S., Kim, D., and Gibson, S.I. (2000). The Arabidopsis sugar-insensitive mutants sis4 and sis5 are defective in abscisic acid synthesis and response. Plant J. 23, 587-596.
63. Lalonde, S., Boles, E., Hellmann, H., Barker, L., Patrick, J.W., Frommer, W.B., and Ward, J.M. (1999). The dual function of sugar carriers. Transport and sugar sensing. Plant Cell 11, 707-726.
64. Lam, H.M., Hsieh, M.H., and Coruzzi, G. (1998). Reciprocal regulation of distinct asparagine synthetase genes by light and metabolites in Arabidopsis thaliana. Plant J. 16, 345-353.
65. Larkindale, J., and Knight, M.R. (2002). Protection against heat stress-induced oxidative damage in Arabidopsis involves calcium, abscisic acid, ethylene, and salicylic acid. Plant Physiol. 128, 682-695.
66. Lee, T.I., et al. (2002). Transcriptional regulatory networks in Saccharomyces cerevisiae. Science 298, 799-804.
67. Lejay, L., Tillard, P., Lepetit, M., Olive, F., Filleur, S., Daniel-Vedele, F., and Gojon, A. (1999). Molecular and functional regulation of two NO3- uptake systems by N- and C-status of Arabidopsis plants. Plant J. 18, 509-519.
68. León, P., and Sheen, J. (2003). Sugar and hormone connections. Trends Plant Sci. 8, 110-116.
69. Lim, E.K., Doucet, C.J., Li, Y., Elias, L., Worrall, D., Spencer, S.P., Ross, J., and Bowles, D.J. (2002). The activity of Arabidopsis glycosyltransferases toward salicylic acid, 4-hydroxybenzoic acid, and other benzoates. J. Biol. Chem. 277, 586-592.
70. Lin, S.J., Kaeberleín, M., Andalis, A.A., Sturtz, L.A., Defossez, P.A., Culotta, V.C., Fink, G.R., and Guarente, L. (2002). Calorie restriction extends Saccharomyces cerevisiae lifespan by increasing respiration. Nature 418, 344-348.
71. Lu, C.A., Ho, T.H., Ho, S.L., and Yu, S.W. (2002). Three novel MYB proteins with one DNA binding repeat mediate sugar and hormone regulation of alpha-amylase gene expression. Plant Cell 14, 1963-1980.
72. Marschner, H. (1995). Mineral Nutrition of Higher Plants, 2nd ed. (London, San Diego: Academic Press).
73. Martin, T., Hellman, H., Schmidt, R., Willmitzer, L., and Frommer, W.B. (1997). Identification of mutants in metabolically regulated gene expression. Plant J. 11, 53-62.
74. Martin, T., Oswald, O., and Graham, I.A. (2002). Arabidopsis seedling growth, storage lipid mobilization, and photosynthetic gene expression are regulated by carbon:nitrogen availability. Plant Physiol. 128, 472-481.
75. Melo-Oliveira, R., Oliveira, I.C., and Coruzzi, G.M. (1996). Arabidopsis mutant analysis and gene regulation define a nonredundant role for glutamate dehydrogenase in nitrogen assimilation. Proc. Natl. Acad. Sci. USA 93, 4718-4723.
76. Mewes, H.W., Frishman, D., Guldener, U., Mannhaupt, G., Mayer, K., Mokrejs, M., Morgenstern, B., Munsterkotter, M., Rudd, S., and Weil, B. (2002). MIPS: A database for genomes and protein sequences. Nucleic Acids Res. 30, 31-34.
77. Moore, B., Zhou, L., Rolland, F., Hall, Q., Cheng, W.H., Liu, Y.X., Hwang, I., Jones, T., and Sheen, J. (2003). Role of the Arabidopsis glucose sensor HXK1 in nutrient, light, and hormonal signaling. Science 300, 332-336.
78. Moseyko, N., and Feldman, L.J. (2002). VIZARD: Analysis of Affymetrix Arabidopsis GeneChip data. Bioinformatics 18, 1264-1265.
79. Mueller, L.A., Zhang, P., and Rhee, S.V. (2003). AraCyc: A biochemical pathway database for Arabidopsis. Plant Physiol. 132, 453-460.
80. Ozcan, S. (2002). Two different signals regulate repression and induction of gene expression by glucose. J. Biol. Chem. 277, 46993-46997.
81. Ozcan, S., Dover, J., and Johnston, M. (1998). Glucose sensing and signaling by two glucose receptors in the yeast Saccharomyces cerevisiae. EMBO 17, 2566-2573.
82. Ozcan, S., Dover, J., Rosenwald, A.G., Wolfl, S., and Johnston, M. (1996). Two glucose transporters in Saccharomyces cerevisiae are glucose sensors that generate a signal for induction of gene expression. Proc. Natl. Acad. Sci. USA 93, 12428-12432.
83. Ozcan, S., and Johnston, M. (1999). Function and regulation of yeast hexokinase transporters. Microbiol. Mol. Biol. Rev. 63, 554-569.
84. Potuschak, T., Lechner, E., Parmentier, Y., Yanagisawa, S., Grava, S., Koncz, C., and Genschik, P. (2003). EIN3-dependent regulation of plant ethylene hormone signaling by two Arabidopsis F box proteins: EBF1 and EBF2. Cell 115, 679-689.
85. Price, J., Li, T., Kang, S., Na, J., and Jang, J.C. (2003). Mechanisms of glucose signaling during germination of Arabidopsis thaliana. Plant Physiol. 132, 1424-1438.
86. Ptashne, M., and Gann, A. (2002). Genes and Signals. (Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press).
87. Queitsch, C., Sangster, T.A., and Lindquist, S. (2002). Hsp90 as a capacitor of phenotypic variation. Nature 417, 618-624.
88. Quick, W. (1996). Sucrose metabolism in sources and sinks. In Photo-assimilate Distribution in Plants, E. Zamski and A. Schaffer, eds (New York: Marcel Dekker), pp. 115-156.
89. Rhee, S.Y., et al. (2003). The Arabidopsis Information Resource (TAIR): A model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Res. 31, 224-228.
90. Riechmann, J.L., et al. (2000). Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes. Science 290, 2105-2110.
91. Riechmann, J.L., and Ratcliffe, O.J. (2000). A genomic perspective on plant transcription factors. Curr. Opin. Plant Biol. 3, 423-434.
92. Roitsch, T., Bittner, M., and Godt, D.E. (1995). Induction of apoplastic invertase of Chenopodium rubrum by D-glucose and a glucose analog and tissue-specific expression suggest a role in sink-source regulation. Plant Physiol. 108, 285-294.
93. Rolland, F., Moore, B., and Sheen, J. (2002). Sugar sensing and signaling in plants. Plant Cell 14 (suppl.), S185-S205.
94. Rolland, F., Winderickx, J., and Thevelein, J.M. (2001). Glucose-sensing mechanisms in eukaryotic cells. Trends Biochem. Sci. 26, 310-317.
95. Rolland, F., Winderickx, J., and Thevelein, J.M. (2002). Glucose-sensing and -signalling mechanisms in yeast. FEMS Yeast Res. 2, 183-201.
96. Rook, F., Corke, F., Card, R., Munz, G., Smith, C., and Bevan, M.W. (2001). Impaired sucrose-induction mutants reveal the modulation of sugar-induced starch biosynthetic gene expression by abscisic acid signalling. Plant J. 26, 421-433.
97. Rutherford, S.L. (2003). Between genotype and phenotype: Protein chaperones and evolvability. Nat. Rev. Genet. 4, 263-274.
98. Schaffer, R., Landgraf, J., Perez-Amador, M., and Wisman, E. (2000). Monitoring genome-wide expression in plants. Curr. Opin. Biotechnol. 11, 162-167.
99. Schaller, F., Biesgen, C., Mussig, C., Altmann, T., and Weiler, E.W. (2000). 12-Oxophytodienoate reductase 3 (OPR3) is the isoenzyme involved in jasmonate biosynthesis. Planta 210, 979-984.
100. Scheidig, A., Frohlich, A., Schulze, S., Lloyd, J.R., and Kossmann, J. (2002). Downregulation of a chloroplast-targeted beta-amylase leads to a starch-excess phenotype in leaves. Plant J. 30, 581-591.
101. Schleucher, J., Vanderveer, P.J., and Sharkey, T.D. (1998). Export of carbon from chloroplasts at night. Plant Physiol. 118, 1439-1445.
102. Schuller, H.J. (2003). Transcriptional control of nonfermentative metabolism in the yeast Saccharomyces cerevisiae. Curr. Genet. 43, 139-160.
103. Seo, M., and Koshiba, T. (2002). Complex regulation of ABA biosynthesis in plants. Trends Plant Sci. 7, 41-48.
104. Shalev, A., Pise-Masison, C.A., Radonovich, M., Hoffmann, S.C., Hirshberg, B., Brady, J.N., and Harlan, D.M. (2002). Oligonucleotide microarray analysis of intact human pancreatic islets: Identification of glucose-responsive genes and a highly regulated TGF beta signaling pathway. Endocrinology 143, 3695-3698.
105. Sherson, S.M., Alford, H.L., Forbes, S.M., Wallace, G., and Smith, S.M. (2003). Roles of cell-wall invertases and monosaccharide transporters in the growth and development of Arabidopsis. J. Exp. Bot. 54, 525-531.
106. Shieh, G., and Jan, S.-L. (2004). The effectiveness of randomized complete block design. Stat. Neerl. 58, 111-124.
107. Simpson, T.D., and Gardner, H.W. (1995). Allene oxide synthase and allene oxide cyclase, enzymes of the jasmonic acid pathway, localized in Glycine max tissues. Plant Physiol. 108, 199-202.
108. Smeekens, S. (2000). Sugar-induced signal transduction in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51, 49-81.
109. Stadler, R., Buttner, M., Ache, P., Hedrich, R., Ivashikina, N., Melzer, M., Shearson, S.M., Smith, S.M., and Sauer, N. (2003). Diurnal and light-regulated expression of AtSTP1 in guard cells of Arabidopsis. Plant Physiol. 133, 528-537.
110. Stitt, M., Muller, C., Matt, P., Gibon, Y., Carillo, P., Morcuende, R., Scheible, W.R., and Krapp, A. (2002). Steps towards an integrated view of nitrogen metabolism. J. Exp. Bot. 53, 959-970.
111. Storey, J.D., and Tibshirani, R. (2003). Statistical significance for genomewide studies. Proc. Natl. Acad. Sci. USA 100, 9440-9445.
112. Temple, S., Vance, C., and Gantt, J. (1998). Glutamate synthase and nitrogen assimilation. Trends Plant Sci. 3, 51-56.
113. Thimm, O., Blasing, O., Gibon, Y., Nagel, A., Meyer, S., Kruger, P., Selbig, J., Muller, L.A., Rhee, S.Y., and Stitt, M. (2004). MAPMAN: A user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. Plant J. 37, 914-939.
114. Thum, K.E., Shin, M.J., Palenchar, P.M., Kouranov, A., and Coruzzi, G.M. (2004). Genome-wide investigation of light and carbon signaling interactions in Arabidopsis. Genome Biol. 5, R10.
115. Truernit, E. (2001). Plant physiology: The importance of sucrose transporters. Curr. Biol. 11, R169-R171.
116. Wang, R., Guegler, K., LaBrie, S.T., and Crawford, N.M. (2000). Genomic analysis of a nutrient response in Arabidopsis reveals diverse expression patterns and novel metabolic and potential regulatory genes induced by nitrate. Plant Cell 12, 1491-1509.
117. Wang, R., Okamoto, M., Xing, X., and Crawford, N.M. (2003). Microarray analysis of the nitrate response in Arabidopsis roots and shoots reveals over 1,000 rapidly responding genes and new linkages to glucose, trehalose-6- phosphate, iron, and sulfate metabolism. Plant Physiol. 132, 556-567.
118. Weber, A., and Flugge, U.I. (2002). Interaction of cytosolic and plastidic nitrogen metabolism in plants. J. Exp. Bot. 53, 865-874.
119. Wetzel, A., and Sandermann, H., Jr. (1994). Plant biochemistry of xenobiotics: Isolation and characterization of a soybean O-glucosyltransferase of DDT metabolism. Arch. Biochem. Biophys. 314, 323-328.
120. Williams, L.E., Lemoine, R., and Sauer, N. (2000). Sugar transporters in higher plants - A diversity of roles and complex regulation. Trends Plant Sci. 5, 283-290.
121. Winter, H., and Huber, S.C. (2000). Regulation of sucrose metabolism in higher plants: Localization and regulation of activity of key enzymes. Crit. Rev. Biochem. Mol. Biol. 35, 253-289.
122. Wong, H.K., Chan, H.K., Coruzzi, G.M., and Lam, H.M. (2004). Correlation of ASN2 gene expression with ammonium metabolism in Arabidopsis. Plant Physiol. 134, 332-338.
123. Workman, J.L., and Kingston, R.E. (1998). Alteration of nucleosome structure as a mechanism of transcriptional regulation. Annu. Rev. Biochem. 67, 545-579.
124. Xiao, W., Sheen, J., and Jang, J.C. (2000). The role of hexokinase in plant sugar signal transduction and growth and development. Plant Mol. Biol. 44, 451-461.
125. Yanagisawa, S., Yoo, S.D., and Sheen, J. (2003). Differential regulation of EIN3 stability by glucose and ethylene signalling in plants. Nature 425, 521-525.
126. Yu, S.M. (1999). Cellular and genetic responses of plants to sugar starvation. Plant Physiol. 121, 687-693.
127. Yunus, M., Pathre, U., and Mohanty, P. (2000). Probing Photosynthesis: Mechanisms, Regulation, and Adaptation. (London, New York: Taylor & Francis).
128. Zeeman, S.C., Umemoto, T., Lue, W.L., Au-Yeung, P., Martin, C., Smith, A.M., and Chen, J. (1998). A mutant of Arabidopsis lacking a chloroplastic isoamylase accumulates both starch and phytoglycogen. Plant Cell 10, 1699-1712.
129. Zeevaart, J., and Creelman, R. (1988). Metabolism and physiology of abscisic acid. Annu. Rev. Plant Physiol. Plant Mol. Biol. 39, 439-473.
130. Zhou, L., Jang, J.C., Jones, T.L., and Sheen, J. (1998). Glucose and ethylene signal transduction crosstalk revealed by an Arabidopsis glucose-insensitive mutant. Proc. Natl. Acad. Sci. USA 95, 10294-10299.
131. Zhu, T. (2003). Global analysis of gene expression using GeneChip microarrays. Curr. Opin. Plant Biol. 6, 418-425.
132. Zinke, I., Schutz, C.S., Katzenberger, J.D., Bauer, M., and Pankratz, M.J. (2002). Nutrient control of gene expression in Drosophila: Microarray analysis of starvation and sugar-dependent response. EMBO J. 21, 6162-6173.