Transcriptomic analysis of multiple Enviornmental stresses in plants

Molecular Techniques in Crop Improvement: 2nd Edition

Volumn , Issue , 2009, Pages 511-524

  Jambunathan, Niranjani ^a   Puckette, Michael ^a   Mahalingam, Ramamurthy ^a  

^a OKLAHOMA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84900239661     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-90-481-2967-6_21     Document Type: Chapter

References (95)

1. Ahlfors R, Macioszek V, Rudd J, Brosche M, Schlichting R, Scheel D, Kangasjarvi J (2004) Stress hormone-independent activation and nuclear translocation of mitogen-activated protein kinases in Arabidopsis thaliana during ozone exposure. Plant J 40:512-522
2. Ainsworth EA, Rogers A, Leakey ADB (2008) Targets for crop biotechnology in a future high- CO2 and high-O-3 world. Plant Physiol 147:13-19
3. Araus JL, Slafer GA, Reynolds MP, Royo C (2002) Plant breeding and drought in C-3 cereals: What should we breed for? Ann Bot 89:925-940
4. Ashmore MR (2005) Assessing the future global impacts of ozone on vegetation. Plant Cell Environ 28:949-964
5. Beator J, Kloppstech K (1992) Heat-induced photomorphogenesis and circadian rhythmicity in messenger-RNA Levels and greening capacity in barley. Photosynth Res 34:182-182
6. Bengtsson M, Shen Y, Oki T (2006) A SRES-based gridded global population dataset for 1990- 2100. Popul Environ 28:113-131
7. Bilgin DD, Aldea M, O'Neill BF, Benitez M, Li M, Clough SJ, DeLucia EH (2008) Elevated ozone alters soybean-virus interaction. Mol Plant Microbe Interact 21:1297-1308
8. Bohnert HJ, Gong QQ, Li PH, Ma SS (2006) Unraveling abiotic stress tolerance mechanisms - getting genomics going. Curr Opin Plant Biol 9:180-188
9. Boyer JS (1982) Plant Productivity and Environment. Science 218:443-448
10. Brown PO, Botstein D (1999) Exploring the new world of the genome with DNA microarrays. Nat Genet 21:33-37
11. Cassman KG (1999) Ecological intensification of cereal production systems: yield potential, soil quality, and precision agriculture. Proc Natl Acad Sci USA 96:5952-5959
12. Casteel CL, O'Neill BF, Zavala JA, Bilgin DD, Berenbaum MR, DeLucia EH (2008) Transcriptional profiling reveals elevated CO2 and elevated O-3 alter resistance of soybean (Glycine max) to Japanese beetles (Popillia japonica). Plant Cell Environ 31:419-434
13. Cheikh N, Jones RJ (1994) Disruption of maize kernel growth and development by heat-Stress - Role of cytokinin abscisic-acid balance. Plant Physiol 106:45-51
14. Craufurd PQ, Flower DJ, Peacock JM (1993) Effect of heat and drought stress on sorghum (Sorghum bicolor).1. Panicle development and leaf appearance. Aust J Exp Agric 29:61-76
15. Dhalmini Z, Spillane C, Moss JP, Ruane J, Urquia N, Sonnino A (2005) Status of research and application of crop biotechnologies in developing countries. Food and Agricultural Organization, Rome, pp 1-62
16. Dinneny JR, Long TA, Wang JY, Jung JW, Mace D, Pointer S, Barron C, Brady SM, Schiefelbein J, Benfey PN (2008) Cell identity mediates the response of Arabidopsis roots to abiotic stress. Science 320:942-945
17. Evans LT (1998) Feeding the ten billion: plant and population growth. Cambridge University Press, Cambridge
18. Fedoroff N, Brown NM (2004) Mendel in the Kitchen. Joseph Henry, Washington, DC
19. Ferris R, Sabatti M, Miglietta F, Mills RF, Taylor G (2001) Leaf area is stimulated in Populus by free air CO2 enrichment (POPFACE), through increased cell expansion and production. Plant Cell Environ 24:305-315
20. Fry SC, Miller JG, Dumville JC (2002) A proposed role for copper ions in cell wall loosening. Plant Soil 247:57-67
21. Grulke NE, Johnson R, Monschein S, Nikolova P, Tausz M (2003) Variation in morphological and biochemical O-3 injury attributes of mature Jeffrey pine within canopies and between microsites. Tree Physiol 23:923-929
22. Grulke NE, Dobrowolski W, Mingus P, Fenn ME (2005) California black oak response to nitrogen amendment at a high O-3, nitrogen-saturated site. Environ Pollut 137:536-545
23. Grunehage L, Jager H-J (2003) From critical levels to critical loads of ozone: a discussion of a new experimental and modeling approach for establishing flux-response relationships for agricultural crops and native plant species. Environ Pollut 125:99-110
24. Guidi L, Tonini M, Soldatini GF (2000) Effects of high light and ozone fumigation on photosynthesis in Phaseolus vulgaris. Plant Physiol Biochem 38:717-725
25. Gupta P, Duplessis S, White H, Karnosky DF, Martin F, Podila GK (2005) Gene expression patterns of trembling aspen trees following long-term exposure to interacting elevated CO2 and tropospheric O-3. New Phytol 167:129-142
26. Havaux M, Greppin H, Strasser RJ (1991) Functioning of Photosystem-I and Photosystem-II in Pea leaves exposed to heat stress in the presence or absence of light - Analysis using in vivo fluorescence, absorbency, oxygen and photoacoustic measurements. Planta 186:88-98
27. Heagle AS (1989) Ozone and crop yield. Annu Rev Phytopathol 27:397-412
28. Hewezi T, Leger M, Gentzbittel L (2008) A comprehensive analysis of the combined effects of high light and high temperature stresses on gene expression in sunflower. Ann Bot 102:127-140
29. Heyne EG, Brunson AM (1940) Genetic studies of heat and drought tolerance in maize. J Am Soc Agro 32:803-814
30. IPCC (2007) Climate change 2007: the physical science basis. In: Solomon S, Qin D, Manning M, Chen Z, Marquis M, Averyt KB, Tignor M, Miller HL (eds) Contribution of Working Group I to the Fourth Annual Assessment Report of the Intergovernmental Panel on Climate Change. Cambridge University Press, Cambridge, p 996
31. Jagtap V, Bhargava S, Streb P, Feierabend J (1998) Comparative effect of water, heat and light stresses on photosynthetic reactions in Sorghum bicolor (L.) Moench. J Exp Bot 49:1715-1721
32. Jambunathan N, Tang Y, Mahalingam R (2008) Analysis of combined chronic ozone and water deprivation stress in Medicago truncatula. Gordon Conference: Salt and water stress in plants. Big Sky, MT, USA
33. Jiang Y, Huang B (2001) Drought and heat stress injury to two cool season turfgrasses in relation to antioxidant metabolism and lipid peroxidation. Crop Sci 41:436-442
34. Kangasjarvi J, Jaspers P, Kollist H (2005) Signalling and cell death in ozone-exposed plants. Plant Cell Environ 28:1021-1036
35. Kant P, Gordon M, Kant S, Zolla G, Davydov O, Heimer YM, Chalifa-Caspi V, Shaked R, Barak S (2008) Functional genomics based identification of genes that regulate Arabidopsis responses to multiple abiotic stresses. Plant Cell Environ 31:697-714
36. Karlsson PE, Medin EL, Wallin G, Sellden G, Skarby L (1997) Effects of ozone and drought stress on the physiology and growth of two clones of Norway spruce (Picea abies). New Phytol 136:265-275
37. Karnosky DF, Pregitzer KS, Zak DR, Kubiske ME, Hendrey GR, Weinstein D, Nosal M, Percy KE (2005) Scaling ozone responses of forest trees to the ecosystem level in a changing climate. Plant Cell Environ 28:965-981
38. Kim K, Portis AR (2005) Temperature dependence of photosynthesis in Arabidopsis plants with modifications in Rubisco activase and membrane fluidity. Plant Cell Physiol 46:522-530
39. King DA (1988) Modeling the impact of Ozone X Drought interactions on regional crop yields. Environ Pollut 53:351-364
40. Kreps JA, Wu Y, Chang HS, Zhu T, Wang X, Harper JF (2002) Transcriptome changes for Arabidopsis in response to salt, osmotic, and cold stress. Plant Physiol 130:2129-2141
41. Lafta AM, Lorenzen JH (1995) Effect of high temperature on plant growth and carbohydrate metabolism in Potato. Plant Physiol 109:637-643
42. Larkindale J, Hall JD, Knight MR, Vierling E (2005) Heat stress phenotypes of arabidopsis mutants implicate multiple signaling pathways in the acquisition of thermotolerance. Plant Physiol 138:882-897
43. Li PH, Mane SP, Sioson AA, Robinet CV, Heath LS, Bohnert HJ, Grene R (2006) Effects of chronic ozone exposure on gene expression in Arabidopsis thaliana ecotypes and in Thellungielia halophila. Plant Cell Environ 29:854-868
44. Liu CG, Calin GA, Volinia S, Croce CM (2008) MicroRNA expression profiling using microarrays. Nat Protoc 3:563-578
45. Lorenzini G, Nali C, Panicucci A (1994) Surface Ozone in Pisa (Italy) ? a 6-year study. Atmos Environ 28:3155-3164
46. Mahalingam R, Shah N, Scrymgeour A, Fedoroff N (2005) Temporal evolution of the Arabidopsis oxidative stress response. Plant Mol Biol 57:709-730
47. Mahalingam R, Jambunathan N, Gunjan SK, Faustin E, Weng H, Ayoubi P (2006) Analysis of oxidative signalling induced by ozone in Arabidopsis thaliana. Plant Cell Environ 29:1357-1371
48. Malthus TR (1817) An essay on the principle of population. Murray, London McCurdy TR (1994) Tropospheric ozone. In: McKee DJ (ed) Lewis Publishers, Boca Raton, pp 19-37
49. Miller JD, Arteca RN, Pell EJ (1999) Senescence-associated gene expression during ozoneinduced leaf senescence in Arabidopsis. Plant Physiol 120:1015-1023
50. Mittler R (2006) Abiotic stress, the field environment and stress combination. Trends Plant Sci 11:15-19
51. Mittler R, Merquiol E, Hallak-Herr E, Rachmilevitch S, Kaplan A, Cohen M (2001) Living under a 'dormant' canopy: a molecular acclimation mechanism of the desert plant Retama raetam. Plant J 25:407-416
52. Moffat AS (2002) Plant genetics - Finding new ways to protect drought-stricken plants. Science 296:1226-1229
53. Naar AM, Lemon BD, Tjian R (2001) Transcriptional coactivator complexes. Annu Rev Biochem 70:475-501
54. Nishizawa A, Yabuta Y, Yoshida E, Maruta T, Yoshimura K, Shigeoka S (2006) Arabidopsis heat shock transcription factor A2 as a key regulator in response to several types of environmental stress. Plant J 48:535-547
55. Niyogi KK (1999) Photoprotection revisited: Genetic and molecular approaches. Annu Rev Plant Physiol and Plant Mol Biol 50:333-359
56. Noormets A, McDonald EP, Dickson RE, Kruger EL, Sober A, Isebrands JG, Karnosky DF (2001) The effect of elevated carbon dioxide and ozone on leaf- and branch-level photosynthesis and potential plant-level carbon gain in aspen. Trees Struct Funct 15:262-270
57. Overmyer K, Brosche M, Kangasjarvi J (2003) Reactive oxygen species and hormonal control of cell death. Trends Plant Sci 8:335-342
58. Panek JA, Goldstein AH (2001) Response of stomatal conductance to drought in ponderosa pine: implications for carbon and ozone uptake. Tree Physiol 21:337-344
59. Panek JA, Kurpius MR, Goldstein AH (2002) An evaluation of ozone exposure metrics for a seasonally drought-stressed ponderosa pine ecosystem. Environ Pollut 117:93-100
60. Park EJ, Jeknic Z, Sakamoto A, DeNoma J, Yuwansiri R, Murata N, Chen THH (2004) Genetic engineering of glycinebetaine synthesis in tomato protects seeds, plants, and flowers from chilling damage. Plant J 40:474-487
61. Pell EJ, Schlagnhaufer CD, Arteca RN (1997) Ozone-induced oxidative stress: Mechanisms of action and reaction. Physiol Plantarum 100:264-273
62. Perdomo P, Murphy JA, Berkowitz GA (1996) Physiological changes associated with performance of Kentucky blue grass cultivars during summer stress. Hortscience 31:1182-1186
63. Pressman E, Peet MM, Pharr DM (2002) The effect of heat stress on tomato pollen characteristics is associated with changes in carbohydrate concentration in the developing anthers. Ann Bot 90:631-636
64. Puckette MC, Weng H, Mahalingam R (2007) Physiological and biochemical responses to acute ozone-induced oxidative stress in Medicago truncatula. Plant Physiol Biochem 45:70-79
65. Puckette MC, Tang YH, Mahalingam R (2008) Transcriptomic changes induced by acute ozone in resistant and sensitive Medicago truncatula accessions. BMC Plant Biol 8:46
66. Rao MV, Davis KR (2001) The physiology of ozone induced cell death. Planta 213:682-690
67. Rao MV, Lee H, Creelman RA, Mullet JE, Davis KR (2000) Jasmonic acid signaling modulates ozone-induced hypersensitive cell death. Plant Cell 12:1633-1646
68. Rao MV, Lee H, Davis KR (2002) Ozone-induced ethylene production is dependent on salicylic acid, and both salicylic acid and ethylene act in concert to regulate ozone-induced cell death. Plant J 32:447-456
69. Reich PB (1987) Quantifying plant response to ozone: a unifying theory. Tree Physiol 3:63-91
70. Rizhsky L, Liang H, Mittler R (2002) The combined effect of drought stress and heat shock on gene expression in tobacco. Plant Physiol 130:1143-1151
71. Rizhsky L, Liang H, Shuman J, Shulaev V, Davletova S, Mittler R (2004) When defense pathways collide. The response of Arabidopsis to a combination of drought and heat stress. Plant Physiol 134:1683-1696
72. Rontein D, Basset G, Hanson AD (2002) Metabolic engineering of osmoprotectant accumulation in plants. Metab Eng 4:49-56
73. Rosegrant MW, Cline SA (2003) Global food security: challenges and policies. Science 302:1917-1919
74. Rossel JB, Wilson IW, Pogson BJ (2002) Global changes in gene expression in response to high light in Arabidopsis. Plant Physiol 130:1109-1120
75. Savage DA, Jacobson LA (1935) The killing effect of heat and drought on buffalo grass and blue gamma grass at Hays, Kansas. J Am Soc Agro 27:566-582
76. Savin R, Nicolas ME (1996) Effects of short periods of drought and high temperature on grain growth and starch accumulation of two malting barley cultivars. Aust J Plant Physiol 23:201-210
77. Seki M, Narusaka M, Abe H, Kasuga M, Yamaguchi-Shinozaki K, Carninci P, Hayashizaki Y, Shinozaki K (2001) Monitoring the expression pattern of 1300 Arabidopsis genes under drought and cold stresses by using a full-length cDNA microarray. Plant Cell 13:61-72
78. Seki M, Ishida J, Satou M, Sakurai T, Nakajima M, Enju A, Kamiya A, Akiyama K, Iida K, Narusaka M, Oono Y, Fujita M, Mizukado S, Nanjo T, Umezawa T, Kamei A, To T, Yamaguchi-Shinozaki K, Ecker JR, Davis RW, Theologis A, Carninci P, Kawai J, Hayashizaki Y, Sawasaki T, Kim JM, Hasegawa Y, Endo Y, Yokoyama S, Shinozaki K (2003) Arabidopsis encyclopedia using full-length cDNAs and its application for functional genomics. Plant Cell Physiol 44:S46-S46
79. Shinozaki K, Yamaguchi-Shinozaki K, Seki M (2003) Regulatory network of gene expression in the drought and cold stress responses. Curr Opin Plant Biol 6:410-417
80. Shukla LI, Chinnusamy V, Sunkar R (2008) The role of microRNAs and other endogenous small RNAs in plant stress responses. Biochim Biophys Acta
81. Sunkar R, Chinnusamy V, Zhu J, Zhu JK (2007) Small RNAs as big players in plant abiotic stress responses and nutrient deprivation. Trends Plant Sci 12:301-309
82. Suzuki N, Rizhsky L, Liang HJ, Shuman J, Shulaev V, Mittler R (2005) Enhanced tolerance to environmental stress in transgenic plants expressing the transcriptional coactivator multiprotein bridging factor 1c. Plant Physiol 139:1313-1322
83. Tester M, Bacic A (2005) Abiotic stress tolerance in grasses. From model plants to crop plants. Plant Physiol 137:791-793
84. The World Bank Group (2003) Millennium development goals: about the goals. www.developmentgoals. org/About-the-goals.htm
85. Torsethaugen G, Pell EJ, Assmann SM (1999) Ozone inhibits guard cell K+ channels implicated in stomatal opening. Proc Natl Acad Sci USA 96:13577-13582
86. Tosti N, Pasqualini S, Borgogni A, Ederli L, Falistocco E, Crispi S, Paolocci F (2006) Gene expression profiles of O-3-treated Arabidopsis plants. Plant Cell Environ 29:1686-1702
87. Van Vuuren DP, Meinshausen M, Plattner GK, Joos F, Strassmann KM, Smith SJ, Wigley TM, Raper SC, Riahi K, de la Chesnaye F, den Elzen MG, Fujino J, Jiang K, Nakicenovic N, Paltsev S, Reilly JM (2008) Temperature increase of 21st century mitigation scenarios. Proc Natl Acad Sci USA 105:15258-15262
88. Verslues PE, Agarwal M, Katiyar-Agarwal S, Zhu JH, Zhu JK (2006) Methods and concepts in quantifying resistance to drought, salt and freezing, abiotic stresses that affect plant water status. Plant J 45:523-539
89. Vinocur B, Altman A (2005) Recent advances in engineering plant tolerance to abiotic stress: achievements and limitations. Curr Opin Biotechnol 16:123-132
90. Wallwork MAB, Jenner CF, Logue SJ, Sedgley M (1998) Effect of high temperature during grainfilling on the structure of developing and malted barley grains. Ann Bot 82:587-599
91. Wang WX, Vinocur B, Altman A (2003) Plant responses to drought, salinity and extreme temperatures: towards genetic engineering for stress tolerance. Planta 218:1-14
92. Wang ZL, Huang BR (2004) Physiological recovery of Kentucky bluegrass from simultaneous drought and heat stress. Crop Sci 44:1729-1736
93. Winner WE, Lefohn aS, Cotter IS, Greitner CS, Nellessen J, Mcevoy LR, Olson RL, Atkinson CJ, Moore LD (1989) Plant-responses to elevational gradients of O-3 exposures in Virginia. Proc Natl Acad Sci USA 86:8828-8832
94. Wohlgemuth H, Mittelstrass K, Kschieschan S, Bender J, Weigel HJ, Overmyer K, Kangasjarvi J, Sandermann H, Langebartels C (2002) Activation of an oxidative burst is a general feature of sensitive plants exposed to the air pollutant ozone. Plant Cell Environ 25:717-726
95. Zimmermann P, Hirsch-Hoffmann M, Hennig L, Gruissem W (2004) GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox. Plant Physiol 136:2621-263