328 A.K. Tyagi, S. Vij <strong>and</strong> N. Saini in cold-responsive gene expression in Arabidopsis. Plant Cell, 10, 1151-1161. Ishitani, M., Xiong, L., Stevenson, B. <strong>and</strong> Zhu, J.K. (1997). Genetic analysis <strong>of</strong> osmotic <strong>and</strong> cold stress signal transduction in Arabidopsis: interactions <strong>and</strong> convergence <strong>of</strong> abscisic acid-dependent <strong>and</strong> abscisic acid-independent pathways. Plant Cell, 9, 1935-1949. Izaguirre, M.M., Scopel, A.L., Baldwin, I.T. <strong>and</strong> Ballare, C.L. (2003). Convergent responses to stress. Solar ultraviolet-B radiation <strong>and</strong> M<strong>and</strong>uca sexta herbivory elicit overlapping transcriptional responses in field-grown plants <strong>of</strong> Nicotiana longiflora. Plant Physiol., 132, 1755-1767. J<strong>and</strong>er, G., Norris, S.R., Rounsley, S.D., Bush, D.F., Levin, I.M. <strong>and</strong> Last, R.L. (2002). Arabidopsis map-based cloning in the post-genome era. Plant Physiol., 129, 440-450. Jeon, J. <strong>and</strong> An, G. (2001). Gene tagging in rice: a high throughput system for functional genomics. Plant Sci., 161, 211-219. Jeon, J.S., Chen, D., Yi, G.H., Wang, G.L. <strong>and</strong> Ronald, P.C. (2003). Genetic <strong>and</strong> physical mapping <strong>of</strong> Pi5(t), a locus associated with broad-spectrum resistance to rice blast. Mol. Genet. Genomics, 269, 280-289. Jeon, J.S., Lee, S., Jung, K.H., Jun, S.H., Jeong, D.H., Lee, J., et al. (2000). T-DNA insertional mutagenesis for functional genomics in rice. Plant J., 22, 561-570. Jeong, D.H., An, S., Kang, H.G., Moon, S., Han, J.J., Park, S., et al. (2002). T-DNA insertional mutagenesis for activation tagging in rice. Plant Physiol., 30, 1636-1644. Jiao, Y., Yang, H., Ma, L., Sun, N., Yu, H., Liu, T., et al. (2003). A genome-wide analysis <strong>of</strong> blue-light regulation <strong>of</strong> Arabidopsis transcription factor gene expression during seedling development. Plant Physiol., 133, 1480-1493. Jung, S.H., Lee, J.Y. <strong>and</strong> Lee, D.H. (2003). Use <strong>of</strong> SAGE technology to reveal changes in gene expression in Arabidopsis leaves undergoing cold stress. Plant Mol. Biol., 52, 553-567. Kan, Z., Rouchka, E.C., Gish, W.R. <strong>and</strong> States, D.J. (2001). Gene structure prediction <strong>and</strong> alternative splicing analysis using genomically aligned ESTs. Genome Res., 11, 889-900. Kane, M.D., Jatkoe, T.A., Stumpf, C.R., Lu, J., Thomas, J.D. <strong>and</strong> Madore, S.J. (2000). Assessment <strong>of</strong> the sensitivity <strong>and</strong> specificity <strong>of</strong> oligonucleotide (50mer) microarrays. Nucleic Acids Res., 28, 4552-4557. Kang, D.C., LaFrance, R., Su, Z.Z. <strong>and</strong> Fisher, P.B. (1998). Reciprocal subtraction differential RNA display: an efficient <strong>and</strong> rapid procedure for isolating differentially expressed gene sequences. Proc. Natl. Acad. Sci. U S A, 95, 13788-13793. Kawasaki, S., Borchert, C., Deyholos, M., Wang, H., Brazille, S., et al. (2001). Gene expression pr<strong>of</strong>iles during the initial phase <strong>of</strong> salt stress in rice. Plant Cell, 13, 889-905. Kawasaki, S., Miyake, C., Kohchi, T., Fujii, S., Uchida, M. <strong>and</strong> Yokota, A. (2000). Responses <strong>of</strong> wild watermelon to drought stress: accumulation <strong>of</strong> an ArgE homologue <strong>and</strong> citrulline in leaves during water deficits. Plant Cell Physiol., 41, 864-873. Kehoe, D.M., Vill<strong>and</strong>, P. <strong>and</strong> Somerville, S. (1999). DNA microarrays for studies <strong>of</strong> higher plants <strong>and</strong> other photosynthetic organisms. Trends Plant Sci., 4, 38-41. Kikuchi, S., Satoh, K., Nagata, T., Kawagashira, N., Doi, K., Kishimoto, N., et al. (2003). Collection, mapping, <strong>and</strong> annotation <strong>of</strong> over 28,000 cDNA clones from japonica rice. Science, 301, 376- 379. Kikuchi, S., Yazaki, J., Kishimoto, N., Ishikawa, M., Kojima, K., Namiki, T., et al. (2002). Rice functional genomics via cDNA microarray analysis <strong>and</strong> the expression pr<strong>of</strong>iles <strong>of</strong> stress responsible gene expression. JIRCAS Working Report, 93-98. Kim, K.N., Cheong, Y.H., Grant, J.J., P<strong>and</strong>ey, G.K. <strong>and</strong> Luan, S. (2003). CIPK3, a calcium sensorassociated protein kinase that regulates abscisic acid <strong>and</strong> cold signal transduction in Arabidopsis. Plant Cell, 15, 411-423. Kimura, M., Yamamoto, Y.Y., Seki, M., Sakurai, T., Sato, M., Abe, T., et al. (2003). Identification <strong>of</strong> Arabidopsis genes regulated by high light-stress using cDNA microarray. Photochem. Photobiol., 77, 226-233. Klok, E.J., Wilson, I.W., Wilson, D., Chapman, S.C., Ewing, R.M., Somerville, S.C., et al. (2002). Expression pr<strong>of</strong>ile analysis <strong>of</strong> the low-oxygen response in Arabidopsis root cultures. Plant Cell, 14, 2481-2494.
Functional Genomics <strong>of</strong> <strong>Stress</strong> Tolerance 329 Koiwa, H., Barb, A.W., Xiong, L., Li, F., McCully, M.G., Lee, B.H., et al. (2002). C-terminal domain phosphatase-like family members (AtCPLs) differentially regulate Arabidopsis thaliana abiotic stress signaling, growth, <strong>and</strong> development. Proc. Natl. Acad. Sci. U S A, 99, 10893-10898. Koiwa, H., Li, F., McCully, M.G., Mendoza, I., Koizumi, N., Manabe, Y., et al. (2003). The STT3a subunit is<strong>of</strong>orm <strong>of</strong> the Arabidopsis oligosaccharyltransferase controls adaptive responses to salt/osmotic stress. Plant Cell, 15, 2273-2284. Koncz, C., Martini, N., Mayerh<strong>of</strong>er, R., Koncz-Kalman, Z., Korber, H., Redei, G.P. <strong>and</strong> Schell, J. (1989). High-frequency T-DNA-mediated gene tagging in plants. Proc. Natl. Acad. Sci. U S A, 86, 8467-8471. Kreps, J.A., Wu, Y., Chang, H.S., Zhu, T., Wang, X. <strong>and</strong> Harper, J.F. (2002). Transcriptome changes for Arabidopsis in response to salt, osmotic, <strong>and</strong> cold stress. Plant Physiol., 130, 2129-2141. Krysan, P.J., Young, J.C. <strong>and</strong> Sussman, M.R. (1999). T-DNA as an insertional mutagen in Arabidopsis. Plant Cell, 11, 2283-2290. Kurata, N., Umehara, Y., Tanoue, H. <strong>and</strong> Sasaki, T. (1997). Physical mapping <strong>of</strong> the rice genome with YAC clones. Plant Mol. Biol., 35, 101-113. Kuster, B., Krogh, T.N., Mortz, E. <strong>and</strong> Harvey, D.J. (2001). Glycosylation analysis <strong>of</strong> gel-separated proteins. Proteomics, 1, 350-361. Lee, B.H., Lee, H., Xiong, L. <strong>and</strong> Zhu, J.K. (2002). A mitochondrial complex I defect impairs coldregulated nuclear gene expression. Plant Cell, 14, 1235-1251. Lee, H., Xiong, L., Gong, Z., Ishitani, M., Stevenson, B. <strong>and</strong> Zhu, J.K. (2001). The Arabidopsis HOS1 gene negatively regulates cold signal transduction <strong>and</strong> encodes a RING finger protein that displays cold-regulated nucleo-cytoplasmic partitioning. Genes Dev., 15, 912-924. Lee, J.Y. <strong>and</strong> Lee, D.H. (2003). Use <strong>of</strong> serial analysis <strong>of</strong> gene expression technology to reveal changes in gene expression in Arabidopsis pollen undergoing cold stress. Plant Physiol., 132, 517-529. Lee, S., Kim, S.-H., Kim, S.-J., Lee, K. <strong>and</strong> Han, S.-K. (2004). Trapping <strong>and</strong> characterization <strong>of</strong> coldresponsive genes from T-DNA tagging lines in rice. Plant Sci., 166, 69-79. Lemieux, B., Aharoni, A. <strong>and</strong> Schena, M. (1998). Overview <strong>of</strong> DNA chip technology. <strong>Molecular</strong> Breeding, 4, 277-289. Leung, H., Wu, C., Baraoidan, M., Bordeos, A., Ramos, M., Madamba, S., et al. (2001). Deletion mutants for functional genomics: progress in phenotyping, sequence assignment, <strong>and</strong> database development. In: Rice Genetics IV: Proceedings <strong>of</strong> the Fourth International Rice Genetics Symposium, 22-27 October 2000. Eds Khush, G.S., Brar, D. S. <strong>and</strong> Hardy, B. Science Publishers, Inc. (India) <strong>and</strong> Los Banos (Philippines) IRRI pp 239-252. Li, M. (2000). Applications <strong>of</strong> display technology in protein analysis. Nat. Biotechnol., 18, 1251- 1256. Liang, P. <strong>and</strong> Pardee, A.B. (1992). Differential display <strong>of</strong> eukaryotic messenger RNA by means <strong>of</strong> the polymerase chain reaction. Science, 257, 967-971. Liu, J., Ishitani, M., Halfter, U., Kim, C.S. <strong>and</strong> Zhu, J.K. (2000). The Arabidopsis thaliana SOS2 gene encodes a protein kinase that is required for salt tolerance. Proc. Natl. Acad. Sci. U S A, 97, 3730-3734. Liu, J. <strong>and</strong> Zhu, J.K. (1998). A calcium sensor homolog required for plant salt tolerance. Science, 280, 1943-1945. Lueking, A., Horn, M., Eickh<strong>of</strong>f, H., Bussow, K., Lehrach, H. <strong>and</strong> Walter, G. (1999). Protein microarrays for gene expression <strong>and</strong> antibody screening. Anal. Biochem., 270, 103-111. Lukowitz, W., Gillmor, C.S. <strong>and</strong> Scheible, W.R. (2000). Positional cloning in Arabidopsis. Why it feels good to have a genome initiative working for you. Plant Physiol., 123, 795-805. Maathuis, F.J., Filatov, V., Herzyk, P., Chen, S., Green, B.J., Li, Y., et al. (2003). Transcriptome analysis <strong>of</strong> root transporters reveals participation <strong>of</strong> multiple gene families in the response to cation stress. Plant J., 35, 675-692. Mahalingam, R. <strong>and</strong> Fedor<strong>of</strong>f, N. (2001). Screening insertion libraries for mutations in many genes simultaneously using DNA microarrays. Proc. Natl. Acad. Sci. U S A, 98, 7420-7425. Majoul, T., Bancel, E., Triboi, E., Ben Hamida, J. <strong>and</strong> Branlard, G. (2003). Proteomic analysis <strong>of</strong> the
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PHYSIOLOGY AND MOLECULAR BIOLOGY OF
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A C.I.P. Catalogue record for this
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About the Editors K.V. Madhava Rao
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LIST OF CONTRIBUTORS K. AKASHI Grad
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List of Contributors xiii NAVINDER
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PREFACE Increasing agricultural pro
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2 K.V. Madhava Rao Abiotic stresses
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4 K.V. Madhava Rao SOME O THE PROMI
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6 K.V. Madhava Rao 2. WATER STRESS
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8 K.V. Madhava Rao 5. FREEZING STRE
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10 K.V. Madhava Rao of these pathwa
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12 K.V. Madhava Rao Bray, E.A. (199
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14 K.V. Madhava Rao Rao, K.V. Madha
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16 A. Yokota, K. Takahara and K. Ak
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18 A. Yokota, K. Takahara and K. Ak
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20 A. Yokota, K. Takahara and K. Ak
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22 A. Yokota, K. Takahara and K. Ak
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24 A. Yokota, K. Takahara and K. Ak
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26 A. Yokota, K. Takahara and K. Ak
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28 A. Yokota, K. Takahara and K. Ak
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30 A. Yokota, K. Takahara and K. Ak
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32 A. Yokota, K. Takahara and K. Ak
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34 A. Yokota, K. Takahara and K. Ak
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36 A. Yokota, K. Takahara and K. Ak
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38 A. Yokota, K. Takahara and K. Ak
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41 CHAPTER 3 SALT STRESS ZORA DAJIC
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Salt Stress 43 activities (mainly i
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Salt Stress 45 In summary, mechanis
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Salt Stress 47 tolerance research i
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Salt Stress 49 need to rely on sodi
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Salt Stress 51 (Echeverria, 2000).
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Salt Stress 53 Therefore, the capac
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Salt Stress 55 Reduced plant growth
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Salt Stress 57 Table 3. Salt tolera
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Salt Stress 59 6.2. Nitrogen Fixati
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Salt Stress 61 A significant number
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Salt Stress 63 macromolecules, irre
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Salt Stress 65 8.2. Ion Homeostasis
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Salt Stress 67 1997), is speculated
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Salt Stress 69 together with the At
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Salt Stress 71 important role in si
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Salt Stress 73 Figure 5. Determinan
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Salt Stress 75 9.1.Transgenic Plant
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Salt Stress 77 tolerance from halop
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Salt Stress 79 sponse and yield (Su
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Salt Stress 81 Table 5. Possible ut
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Salt Stress 83 monitored with fluor
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Salt Stress 85 Func. Plant Biol. 29
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Salt Stress 87 Dajic, Z., Stevanovi
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Salt Stress 89 Gouia, H., Ghorbal,
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Salt Stress 91 Larcher, W. (1995).
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Salt Stress 93 Munns, R. and James,
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Salt Stress 95 Rausell, A., Kanhono
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Salt Stress 97 durum wheat crops gr
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Salt Stress 99 Yoshida, K. (2002).
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102 T.D. Sharkey and S.M. Schrader
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104 T.D. Sharkey and S.M. Schrader
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106 T.D. Sharkey and S.M. Schrader
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108 T.D. Sharkey and S.M. Schrader
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110 T.D. Sharkey and S.M. Schrader
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112 T.D. Sharkey and S.M. Schrader
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114 T.D. Sharkey and S.M. Schrader
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116 T.D. Sharkey and S.M. Schrader
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118 T.D. Sharkey and S.M. Schrader
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120 T.D. Sharkey and S.M. Schrader
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122 T.D. Sharkey and S.M. Schrader
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124 T.D. Sharkey and S.M. Schrader
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126 T.D. Sharkey and S.M. Schrader
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128 T.D. Sharkey and S.M. Schrader
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131 CHAPTER 5 FREEZING STRESS: SYST
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Freezing Stress 133 Whereas, in the
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Freezing Stress 135 genes at the tr
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Freezing Stress 137 with physiologi
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Freezing Stress 139 (1997). However
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Freezing Stress 141 (Barnett et al.
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Freezing Stress 143 (dehydrin) prot
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Freezing Stress 145 in cytosolic Ca
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Freezing Stress 147 Phospholiphase
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Freezing Stress 149 Accumulation of
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Freezing Stress 151 Ideker, T., Gal
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Freezing Stress 153 ellin acid on f
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Freezing Stress 155 Yoshida, S. and
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158 A.R. Reddy and A.S. Raghavendra
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160 A.R. Reddy and A.S. Raghavendra
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162 A.R. Reddy and A.S. Raghavendra
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164 A.R. Reddy and A.S. Raghavendra
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166 A.R. Reddy and A.S. Raghavendra
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168 A.R. Reddy and A.S. Raghavendra
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170 A.R. Reddy and A.S. Raghavendra
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172 A.R. Reddy and A.S. Raghavendra
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174 A.R. Reddy and A.S. Raghavendra
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176 A.R. Reddy and A.S. Raghavendra
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178 A.R. Reddy and A.S. Raghavendra
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180 A.R. Reddy and A.S. Raghavendra
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182 A.R. Reddy and A.S. Raghavendra
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184 A.R. Reddy and A.S. Raghavendra
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186 A.R. Reddy and A.S. Raghavendra
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188 K. Janardhan Reddy constitution
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190 K. Janardhan Reddy World nitrog
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192 K. Janardhan Reddy nitrogen def
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194 K. Janardhan Reddy endoplasmic
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196 K. Janardhan Reddy drought cond
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198 K. Janardhan Reddy Manganese-de
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200 K. Janardhan Reddy zinc deficie
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202 K. Janardhan Reddy Table 12 . E
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204 K. Janardhan Reddy Table 14. Ef
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206 K. Janardhan Reddy Table 15. Th
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208 K. Janardhan Reddy Table 17. Co
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210 K. Janardhan Reddy 18. MOLECULA
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212 K. Janardhan Reddy Bush, D.S.,
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214 K. Janardhan Reddy and Cobbett,
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216 K. Janardhan Reddy 143, 109-111
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219 CHAPTER 8 HEAVY METAL STRESS KS
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Heavy Metal Stress 221 porter) and
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Heavy Metal Stress 223 Figure 1. Su
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Heavy Metal Stress 225 is enzymatic
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Heavy Metal Stress 227 BjPCS1 was e
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Heavy Metal Stress 229 following: (
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Heavy Metal Stress 231 a precursor
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Heavy Metal Stress 233 notype. Incr
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Table 1. Proposed specificity and l
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Heavy Metal Stress 237 4.2. Chapero
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Heavy Metal Stress 239 of prokaryot
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Heavy Metal Stress 241 5. HYPERACCU
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Table 2. Genes introduced into plan
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Heavy Metal Stress 245 7. CONCLUSIO
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Heavy Metal Stress 247 controlled b
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Heavy Metal Stress 249 Kägi, J.H.R
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Heavy Metal Stress 251 Murphy, A.,
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Heavy Metal Stress 253 through xyle
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255 CHAPTER 9 METABOLIC ENGINEERING
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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Metabolic Engineering for Stress To
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- Page 342 and 343: 336 Index Auxins, 146 Avena sativa
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- Page 346 and 347: 340 Index Magnesium, 195 Mairiena s
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