Transcriptome pathways unique to dehydration tolerant relatives of modern wheat

Functional and Integrative Genomics

Volumn 9, Issue 3, 2009, Pages 377-396

  Ergen, Neslihan Z ^a   Thimmapuram, Jyothi ^b   Bohnert, Hans J ^b   Budak, Hikmet ^a  

^a SABANCI UNIVERSITY   (Turkey)

^b UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

Abiotic stress; Affymetrix Gene Chip wheat genome array; Shock dehydration; Transcriptome comparison; Wild emmer wheat

Indexed keywords

ABSCISIC ACID; ETHYLENE; INOSITOL TRISPHOSPHATE; PROLINE; TRANSCRIPTOME;

ABIOTIC STRESS; ARTICLE; CELLULAR STRESS RESPONSE; COMPARATIVE STUDY; CONTROLLED STUDY; CULTIVAR; DEHYDRATION; DNA MICROARRAY; DROUGHT STRESS; GENE EXPRESSION PROFILING; GENETIC ANALYSIS; GENETIC TRANSCRIPTION; GENOTYPE; HYBRIDIZATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PLANT LEAF; PLANT ROOT; PLANT WATER CONTENT; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SIGNAL TRANSDUCTION; UNINDEXED SEQUENCE; WHEAT;

CLUSTER ANALYSIS; CROPS, AGRICULTURAL; DROUGHTS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENOTYPE; HUMANS; MICROARRAY ANALYSIS; MOLECULAR SEQUENCE DATA; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PHENOTYPE; PROLINE; STRESS, PHYSIOLOGICAL; TRITICUM;

TRITICUM AESTIVUM; TRITICUM TURGIDUM SUBSP. DICOCCOIDES;

EID: 67649933648     PISSN: 1438793X     EISSN: 14387948     Source Type: Journal    
DOI: 10.1007/s10142-009-0123-1     Document Type: Article

References (50)

1. Araus JL, Ferrio JP, Buxo R, Voltas J (2007) The historical perspective of dryland agriculture: Lessons learned from 10 000 years of wheat cultivation. J Exp Bot 58:131-145
2. Barnabas B, Jager K, Feher A (2008) The effect of drought and heat stress on reproductive processes in cereals. Plant Cell Environ 31:11-38
3. Bartels D, Sunkar R (2005) Drought and salt tolerance in plants. Crit Rev Plant Sci 24:23-58
4. Bohnert HJ, Gong Q, Li P, Ma S (2006) Unraveling abiotic stress tolerance mechanisms-getting genomics going. Curr Opin Plant Biol 9:180-188
5. Bray EA (2004) Genes commonly regulated by water-deficit stress in Arabidopsis thaliana. J Exp Bot 55:2331-2341
6. Cebeci O, Kokturk B, Ergen N, Ozturk L, Cakmak I, Budak H (2008) Differential expression of wheat transcriptomes in response to varying cadmium concentrations. Biol Plant 52:703-708
7. Chao S, Lazo GR, You F, Crossman CC, Hummel DD, Lui N, Laudencia-Chingcuanco D, Anderson JA, Close TJ, Dubcovsky J, Gill BS, Gill KS, Gustafson JP, Kianian SF, Lapitan NLV, Nguyen HT, Sorrells ME, McGuire PE, Qualset CO, Anderson OD (2006) Use of large-scale Triticeae expressed sequence tag resource to reveal gene expression profiles in hexaploid wheat (Triticum aestivum L.). Genome 49:531-544
8. Collins NC, Tardieu F, Tuberosa R (2008) Quantitative trait loci and crop performance under abiotic stress: Where do we stand? Plant Physiol 147:469-486
9. Cramer GR, Ergul A, Grimplet J, Tillett RL, Tattersall EAR, Bohlman MC, Vincent D, Sonderegger J, Evans J, Osborne C, Quilici D, Schlauch KA, Schooley DA, Cushman JC (2007) Water and salinity stress in grapevines: early and late changes in transcript and metabolite profiles. Funct Integr Genomics 7:111-134
10. Cseke L, Dudoreva N, Pichersky E (1998) Structure and evolution of linalool synthase. Mol Biol Evol 15:1491-1498
11. 1 -pyrroline-5-carboxylate dehydrogenase and its potential role in protection from proline toxicity. Plant J 27:345-355
12. Dubcovsky J, Dvorak J (2007) Genome plasticity a key factor in the success of polyploidy wheat under domestication. Science 316:1862-1866
13. Eisen MB, Spellman PT, Brown PO, Botstein D (1998) Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A 95:14863-14868
14. Ergen ZN, Budak H (2009) Sequencing over 13, 000 ESTs from six subtractive cDNA libraries of wild and modern wheats following slow drought stress. Plant Cell Environ 32:220-236
15. Ergen ZN, Dinler G, Shearman RC, Budak H (2007) Identifying cloning and structural analysis of differentially expressed genes upon Puccinia infection of Festuca rubra var. rubra. Gene 393:145-152
16. Eulgem T, Somssich IE (2007) Networks of WRKY transcription factors in defense signaling. Curr Opin Plant Biol 10:366-371
17. Guy C, Porat R, Hurry V (2006) Plant cold and abiotic stress gets hot. Physiol Plant 126:1-4
18. Higuchi K, Suzuki K, Nakanishi H, Yamaguchi H, Nishizawa NK, Mori S (1999) Cloning nicotianamine synthase genes, novel genes involved in the biosynthesis of phytosiderophores. Plant Physiol 119:471-479
19. Higuchi K, Watanabe S, Takahashi M, Kawasaki S, Nakanishi H, Nishizawa NK, Mori S (2001) Nicotianamine synthase gene expression differs in barley and rice under Fe-deficient conditions. Plant J 25:159-167
20. Jones HG (2007) Monitoring plant and soil water statues: Established and novel methods revisited and their relevance to studies of drought tolerance. J Exp Bot 58:199-130
21. Kaldenhoff R, Carbo MR, Sans JF, Lovisolo C, Heckwolf M, Norbert U (2008) Aquaporins and plant water balance. Plant Cell Environ 31:658-666
22. Kaur N, Gupta AK (2005) Signal transduction pathways under abiotic stresses in plants. Curr Sci 88:1771-1780
23. Kishor PBK, Sangam S, Amrutha RN, Laxmi PS, Naidu KR, Rao KRSS, Rao S, Reddy KJ, Theriappan P, Sreenivasulu N (2005) Regulation of proline biosynthesis, degradation, uptake and transport in higher plants: Its implications in plant growth and abiotic stress tolerance. Curr Sci 88:424-438
24. Langridge P, Paltridge N, Fincher G (2006) Functional genomics of abiotic stress tolerance in cereals. Brief Funct Genomic Proteomic 4:343-354
25. Lee YH, Chun JY (1998) A new homeodomain-leucine zipper gene from Arabidopsis thaliana induced by water stress and abscisic acid treatment. Plant Mol Biol 37:377-384
26. Li W, Li M, Zhang W, Welti R, Wang X (2004) The plasma membrane-bound phospholipase Do enhances freezing tolerance in Arabidopsis thaliana. Nat Biotechnol 22:427-433
27. Lobell DB, Burke MB, Tebaldi C, Mastrandrea MD, Falcon WP, Naylor RL (2008) Prioritizing climate change adaptation needs for food security in 2030. Science 319:607-610
28. Mahajan S, Tuteja N (2005) Cold, salinity and drought stresses: An overview. Arch Biochem Biophys 444:139-158
29. Mohammadi M, Kav NNV, Deyholos MK (2007) Transcriptional profiling of hexaploid wheat (Triticum aestivum L.) roots identifies novel, dehydration-responsive genes. Plant Cell Environ 30:630-645
30. Muller PY, Janovjak H, Miserez AR, Dobbie Z (2002) Processing of gene expression data generated by quantitative real-time RT-PCR. BioTechniques 32:1372-1379
31. Munns R, James RA, Lauchli A (2006) Approaches to increasing the salt tolerance of wheat and other cereals. J Exp Bot 57:1025-1043
32. Olsen AN, Ernst HA, Lo Leggio L, Skriver K (2005) NAC transcription factors: Structurally distinct, functionally diverse. Trends Plant Sci 10:79-87
33. Ormeno E, Mevy JP, Vila B, Bousquet-Melou A, Greff S, Bonin G, Fernandez C (2007) Water deficit stress induces different monoterpene and sesquiterpene emission changes in Mediterranean species. Relationship between terpene emissions and plant water potential. Chemosphere 67:276-284
34. Ozturk ZN, Talame V, Deyholos M, Michalowski CB, Galbraith DW, Gozukirmizi N, Tuberosa R, Bohnert HJ (2002) Monitoring large-scale changes in transcript abundance in drought- and salt-stressed barley. Plant Mol Biol 48:551-573
35. Poustini K, Siosemardeh A, Ranjbar M (2007) Proline accumulation as a response to salt stress in 30 wheat (Triticum aestivum L.) cultivars differing in salt tolerance. Genet Resour Crop Evol 54:925-934
36. Ramanjulu S, Bartels D (2002) Drought- and desiccation-induced modulation of gene expression in plants. Plant Cell Environ 25:141-151
37. Rampino P, Pataleo S, Gerardi C, Mita G, Perrotta C (2006) Drought stress response in wheat: Physiological and molecular analysis of tolerant and sensitive genotypes. Plant Cell Environ 29:2143-2152
38. Rodriguez-Uribe L, O'Connell MA (2006) A root-specific bZIP transcription factor is responsive to water deficit stress in tepary bean (Phaseolus acutifolius) and common bean (P. vulgaris). J Exp Bot 57:1391-1398
39. Seki M, Umezawa T, Urano K, Shinozaki K (2007) Regulatory metabolic networks in drought stress responses. Curr Opin Plant Biol 10:296-302
40. Shen YG, Zhang WK, He SJ, Zhang JS, Liu Q, Chen SY (2003) An EREBP/ AP2-type protein Triticum aestivum was a DRE-binding transcription factor induced by cold, dehydration and ABA stress. Theor Appl Genet 106:923-930
41. Shinozaki K, Yamaguchi-Shinozaki K (2007) Gene networks involved in drought stress response and tolerance. J Exp Bot 58:221-227
42. Talame V, Ozturk NZ, Bohnert HJ, Tuberosa R (2007) Barley transcript profiles under dehydration shock and drought stress treatments: A comparative analysis. J Exp Bot 58:229-240
43. The Gene Ontology Consortium (2000) Gene ontology: Tool for the unification of biology. Nat Genet 25:25-29
44. Toledo-Ortiz G, Huq E, Quail PH (2003) The Arabidopsis basic/ helix-loop-helix transcription factor family. Plant Cell 15:1749-1770
45. Vasil IK (2007) Molecular genetic improvement of cereals: Transgenic wheat (Triticum aestivum L.). Plant Cell Rep 26:1133-1154
46. Vinocur B, Altman R (2005) Recent advances in engineering plant tolerance to abiotic stress: Achievements and limitations. Curr Opin Biotechnol 16:123-132
47. Wang W, Vinocur B, Altman A (2003) Plant responses to drought, salinity and extreme temperatures: Towards genetic engineering for stress tolerance. Planta 218:1-14
48. Xiong L, Schumaker KS, Zhu J-K (2002) Cell signaling during cold, drought, and salt stress. Plant Cell 14(Suppl):S165-S183
49. Xue GP, McIntyre LC, Glassop D, Shorter R (2008) Use of expression analysis to dissect alterations in carbohydrate metabolism in wheat leaves during drought stres. Plant Mol Biol 67:197-214
50. Zhou J, Wang X, Jiao Y, Qin Y, Liu X, He K, Chen C, Ma L, Wang J, Xiong L, Zhang Q, Fan L, Deng XW (2007) Global genome expression analysis of rice in response to drought and high-salinity stresses in shoot, flag leaf, and panicle. Plant Mol Biol 63:591-608