The low-oxygen-induced NAC domain transcription factor ANAC102 affects viability of Arabidopsis seeds following low-oxygen treatment1[W][OA]

Plant Physiology

Volumn 149, Issue 4, 2009, Pages 1724-1738

  Christianson, Jed A ^a   Wilson, Iain W ^a   Llewellyn, Danny J ^a   Dennis, Elizabeth S ^a  

^a CSIRO   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; ARABIDOPSIS THALIANA;

EID: 65249102713     PISSN: 00320889     EISSN: 15322548     Source Type: Journal    
DOI: 10.1104/pp.108.131912     Document Type: Article

References (79)

1. Aerts S, Thijs G, Coessens B, Staes M, Moreau Y, Moor BD (2003) Toucan: deciphering the cis-regulatory logic of coregulated genes. Nucleic Acids Res 31: 1753-1764
2. Aerts S, Van Loo P, Thijs G, Mayer H, de Martin R, Moreau Y, De Moor B (2005) TOUCAN 2: the all-inclusive open source workbench for regulatory sequence analysis. Nucleic Acids Res 33: W393-W396
3. Aida M, Ishida T, Fukaki H, Fujisawa H, Tasaka M (1997) Genes involved in organ separation in Arabidopsis: an analysis of the cup-shaped cotyledon mutant. Plant Cell 9: 841-857
4. Al-Ani A, Bruzau F, Raymond P, Saint-Ges V, Leblanc JM, Pradet A (1985) Germination, respiration, and adenylate energy charge of seeds at various oxygen partial pressures. Plant Physiol 79: 885-890
5. Alonso JM (2003) Genome-wide insertional mutagenesis of Arabidopsis thaliana. Science 301: 1849
6. Bailey-Serres J, Dawe RK (1996) Both 5' and 3' sequences of maize adh1 mRNA are required for enhanced translation under low-oxygen conditions. Plant Physiol 112: 685-695
7. Baxter-Burrell A, Yang ZB, Springer PS, Bailey-Serres J (2002) RopGAP4- dependent Rop GTPase rheostat control of Arabidopsis oxygen deprivation tolerance. Science 296: 2026-2028
8. Benech-Arnold RL, Gualano N, Leymarie J, Come D, Corbineau F (2006) Hypoxia interferes with ABA metabolism and increases ABA sensitivity in embryos of dormant barley grains. J Exp Bot 57: 1423-1430
9. Bieniawska Z, Barratt DHP, Garlick AP, Thole V, Kruger NJ, Martin C, Zrenner R, Smith AM (2007) Analysis of the sucrose synthase gene family in Arabidopsis. Plant J 49: 810-828
10. Bolstad BM, Irizarry RA, Astrand M, Speed TP (2003) A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 19: 185-193
11. Branco-Price C, Kawaguchi R, Ferreira RB, Bailey-Serres J (2005) Genome-wide analysis of transcript abundance and translation in Arabidopsis seedlings subjected to oxygen deprivation. Ann Bot (Lond) 96: 647-660
12. Cadman CSC, Toorop PE, Hilhorst HWM, Finch-Savage WE (2006) Gene expression profiles of Arabidopsis Cvi seeds during dormancy cycling indicate a common underlying dormancy control mechanism. Plant J 46: 805-822
13. Cannell RQ, Belford RK (1980) Effects of waterlogging at different stages of development on the growth and yield of winter oilseed rape (Brassica napus L). J Sci Food Agric 31: 963-965
14. Choi H, Hong J, Ha J, Kang J, Kim S (2000) ABFs, a family of ABA- responsive element binding factors. J Biol Chem 275: 1723-1730
15. Collaku A, Harrison SA (2002) Losses in wheat due to waterlogging. Crop Sci 42: 444-450
16. Cottrell HJ (1947) Tetrazolium salt as a seed germination indicator. Nature 159: 748
17. Czechowski T, Stitt M, Altmann T, Udvardi MK, Scheible WR (2005) Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol 139: 5-17
18. iDelessert C, Kazan K, Wilson IW, Van Der Straeten D, Manners J, Dennis ES, Dolferus R (2005) The transcription factor ATAF2 represses the expression of pathogenesis-related genes in Arabidopsis. Plant J 43: 745-757
19. Dennis ES, Dolferus R, Ellis M, Rahman M, Wu Y, Hoeren FU, Grover A, Ismond KP, Good AG, Peacock WJ (2000) Molecular strategies for improving waterlogging tolerance in plants. J Exp Bot 51: 89-97
20. Despres C, DeLong C, Glaze S, Liu E, Fobert PR (2000) The Arabidopsis NPR1/NIM1 protein enhances the DNA binding activity of a subgroup of the TGA family of bZIP transcription factors. Plant Cell 12: 279-290
21. Dolferus R, Klok EJ, Delessert C, Wilson S, Ismond KP, Good AG, Peacock WJ, Dennis ES (2003) Enhancing the anaerobic response. Ann Bot (Lond) 91: 111-117
22. Dolferus R, Wolansky M, Carroll R, Miyashita Y, Ismond K, Good A (2008) Functional analysis of lactate dehydrogenase during hypoxic stress in Arabidopsis. Funct Plant Biol 35: 131-140
23. Ellis MH, Dennis ES, Peacock WJ (1999) Arabidopsis roots and shoots have different mechanisms for hypoxic stress tolerance. Plant Physiol 119: 57-64
24. Ellis MH, Millar AA, Llewellyn DJ, Peacock WJ, Dennis ES (2000) Transgenic cotton (Gossypium hirsutum) over-expressing alcohol dehydrogenase shows increased ethanol fermentation but no increase in tolerance to oxygen deficiency. Aust J Plant Physiol 27: 1041-1050
25. Finch-Savage WE, Come D, Lynn JR, Corbineau F (2005) Sensitivity of Brassica oleracea seed germination to hypoxia: a QTL analysis. Plant Sci 169: 753-759
26. Fukao T, Xu KN, Ronald PC, Bailey-Serres J (2006) A variable cluster of ethylene response factor-like genes regulates metabolic and developmental acclimation responses to submergence in rice. Plant Cell 18: 2021-2034
27. Gautier L, Irizarry R, Cope L, Bolstad B (2005) Description of affy. Bioconductor Vignettes. http://bioconductor.org/packages/2.2/bioc/ vignettes/affy/inst/doc/affy.pdf (April 17, 2008)
28. Gutierrez RA, Ewing RM, Cherry JM, Green PJ (2002) Identification of unstable transcripts in Arabidopsis by cDNA microarray analysis: rapid decay is associated with a group of touch- and specific clock-controlled genes. Proc Natl Acad Sci USA 99: 11513-11518
29. Ha SB, An G (1988) Identification of upstream regulatory elements involved in the developmental expression of the Arabidopsis thaliana cab1 gene. Proc Natl Acad Sci USA 85: 8017-8021
30. Hart CM, Nagy F, Meins F Jr (1993) A 61 bp enhancer element of the tobacco beta -1,3-glucanase N gene interacts with one or more regulated nuclear proteins. Plant Mol Biol 21: 121-131
31. He CJ, Drew MC, Morgan PW (1994) Induction of enzymes associated with lysigenous aerenchyma formation in roots of Zea mays during hypoxia or nitrogen starvation. Plant Physiol 105: 861-865
32. He X, Mu R, Cao W, Zhang Z, Zhang J, Chen S (2005) AtNAC2, a transcription factor downstream of ethylene and auxin signaling pathways, is involved in salt stress response and lateral root development. Plant J 44: 903-916
33. He Y, Gan S (2001) Identical promoter elements are involved in regulation of the OPR1 gene by senescence and jasmonic acid in Arabidopsis. Plant Mol Biol 47: 595-605
34. Hodgson AS, Chan KY (1982) The effect of short-term waterlogging during furrow irrigation of cotton in a cracking grey clay. Aust J Agric Res 33: 109-116
35. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP (2003) Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249-264
36. Ismond KP, Dolferus R, de Pauw M, Dennis ES, Good AG (2003) Enhanced low oxygen survival in Arabidopsis through increased metabolic flux in the fermentative pathway. Plant Physiol 132: 1292-1302
37. Jacobs M, Dolferus R, Vandenbossche D (1988) Isolation and biochemical analysis of ethyl methanesulfonate induced alcohol dehydrogenase null mutants of Arabidopsis thaliana (L) Heynh. Biochem Genet 26: 105-122
38. Jones KH, Senft JA (1985) An improved method to determine cell viability by simultaneous staining with fluorescein diacetate propidium iodide. J Histochem Cytochem 33: 77-79
39. Kankainen M, Holm L (2004) POBO, transcription factor binding site verification with bootstrapping. Nucleic Acids Res 32: W222-W229
40. Kato-Noguchi H (2001) The importance of ethanolic fermentation for Plant Physiol. Vol. 149, 2009 primary root growth of germinating rice under anoxia. Plant Growth Regul 35: 181-185
41. Kelley PM, Freeling M (1984a) Anaerobic expression of maize glucose phosphate isomerase-I. J Biol Chem 259: 673-677
42. Kelley PM, Freeling M (1984b) Anaerobic expression of maize fructose-1,6- diphosphate aldolase. J Biol Chem 259: 4180-4183
43. Kim SG, Kim SY, Park CM (2007) A membrane-associated NAC transcription factor regulates salt-responsive flowering via FLOWERING LOCUS T in rabidopsis. Planta 226: 647-654
44. Klok EJ, Wilson IW, Wilson D, Chapman SC, Ewing RM, Somerville SC, Peacock WJ, Dolferus R, Dennis ES (2002) Expression profile analysis of the low-oxygen response in Arabidopsis root cultures. Plant Cell 14: 2481-2494
45. Koornneef M, Vanderveen JH (1980) Induction and analysis of gibberellin sensitive mutants in Arabidopsis thaliana (L) Heynh. Theor Appl Genet 58: 257-263
46. Kursteiner O, Dupuis I, Kuhlemeier C (2003) The Pyruvate decarboxylase1 gene of Arabidopsis is required during anoxia, but not other environmental stresses. Plant Physiol 132: 968-978
47. Li WX, Oono Y, Zhu JH, He XJ, Wu JM, Iida K, Lu XY, Cui XP, Jin HL, Zhu JK (2008) The Arabidopsis NFYA5 transcription factor is regulated transcriptionally and posttranscriptionally to promote drought resistance. Plant Cell 20: 2238-2251
48. Liu FL, Vantoai T, Moy LP, Bock G, Linford LD, Quackenbush J (2005) Global transcription profiling reveals comprehensive insights into hypoxic response in Arabidopsis. Plant Physiol 137: 1115-1129
49. Loreti E, Poggi A, Novi G, Alpi A, Perata P (2005) A genome-wide analysis of the effects of sucrose on gene expression in Arabidopsis seedlings under anoxia. Plant Physiol 137: 1130-1138
50. Lu PL, Chen NZ, An R, Su Z, Qi BS, Ren F, Chen J, Wang XC (2007) A novel drought-inducible gene, ATAF1, encodes a NAC family protein that negatively regulates the expression of stress-responsive genes in Arabidopsis. Plant Mol Biol 63: 289-305
51. Maruyama K, Sakuma Y, Kasuga M, Ito Y, Seki M, Goda H, Shimada Y, Yoshida S, Shinozaki K, Yamaguchi-Shinozaki K (2004) Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems. Plant J 38: 982-993
52. Mason WK, Pritchard KE, Small DR (1987) Effects of early season waterlogging on maize growth and yield. Aust J Agric Res 38: 27-35
53. Mattana M, Vannini C, Espen L, Bracale M, Genga A, Marsoni M, Iriti M, Bonazza V, Romagnoli F, Baldoni E, et al (2007) The rice Mybleu transcription factor increases tolerance to oxygen deprivation in Arabidopsis plants. Physiol Plant 131: 106-121
54. Menkens AE, Schindler U, Cashmore AR (1995) The G-box: a ubiquitous regulatory DNA element in plants bound by the GBF family of bZIP proteins. Trends Biochem Sci 20: 506-510
55. Millar AH, Trend AE, Heazlewood JL (2004) Changes in the mitochondrial proteome during the anoxia to air transition in rice focus around cytochrome-containing respiratory complexes. J Biol Chem 279: 39471-39478
56. Miyashita Y, Dolferus R, Ismond KP, Good AG (2007) Alanine aminotransferase catalyses the breakdown of alanine after hypoxia in Arabidopsis thaliana. Plant J 49: 1108-1121
57. Muehlenbock P, Plaszczyca M, Plaszczyca M, Mellerowicz E, Karpinski S (2007) Lysigenous aerenchyma formation in bArabidopsis is controlled by LESION SIMULATING DISEASE1. Plant Cell 19: 3819-3830
58. Nambara E, Akazawa T, McCourt P (1991) Effects of the gibberellin biosynthetic inhibitor uniconazol on mutants of Arabidopsis. Plant Physiol 97: 736-738
59. O'Connor TR, Dyreson C, Wyrick JJ (2005) Athena: a resource for rapid visualization and systematic analysis of Arabidopsis promoter sequences. Bioinformatics 21: 4411-4413
60. Ogawa M, Hanada A, Yamauchi Y, Kuwahara A, Kamiya Y, Yamaguchi S (2003) Gibberellin biosynthesis and response during Arabidopsis seed germination. Plant Cell 15: 1591-1604
61. Olsen AN, Ernst HA, Lo Leggio L, Skriver K (2005) DNA-binding specificity and molecular functions of NAC transcription factors. Plant Sci 169: 785-797
62. Ooka H, Satoh K, Doi K, Nagata T, Otomo Y, Murakami K, Matsubara K, Osato N, Kawai J, Carninci P, et al (2003) Comprehensive analysis of NAC family genes in Oryza sativa and Arabidopsis thaliana. DNA Res 10: 239-247
63. Peng HP, Lin TY, Wang NN, Shih MC (2005) Differential expression of genes encoding 1-aminocyclopropane-1-carboxylate synthase in Arabidopsis during hypoxia. Plant Mol Biol 58: 15-25
64. Pfaffl MW, Horgan GW, Dempfle L (2002) Relative Expression Software Tool (REST
65. (c)) for group-wise comparison and statistical analysis of relative expression results in real-time PCR. Nucleic Acids Res 30: e36
66. Rahman M, Grover A, Peacock WJ, Dennis ES, Ellis MH (2001) Effects of manipulation of pyruvate decarboxylase and alcohol dehydrogenase levels on the submergence tolerance of rice. Aust J Plant Physiol 28: 1231-1241
67. Rhoads DM, Subbaiah CC (2007) Mitochondrial retrograde regulation in plants. Mitochondrion 7: 177-194
68. Ricoult C, Cliquet JB, Limami AM (2005) Stimulation of alanine amino transferase (AlaAT) gene expression and alanine accumulation in embryo axis of the model legume Medicago truncatula contribute to anoxia stress tolerance. Physiol Plant 123: 30-39
69. Rzewuski G, Sauter M (2008) Ethylene biosynthesis and signaling in rice. Plant Sci 175: 32-42
70. Sachs MM, Freeling M, Okimoto R (1980) The anaerobic proteins of maize. Cell 20: 761-767
71. Setter TL, Waters I (2003) Review of prospects for germplasm improvement for waterlogging tolerance in wheat, barley and oats. Plant Soil 253: 1-34
72. Shinozaki K, Yamaguchi-Shinozaki K (2000) Molecular responses to dehydration and low temperature: differences and cross-talk between two stress signaling pathways. Curr Opin Plant Biol 3: 217-223
73. Singh HP, Singh BB, Ram PC (2001) Submergence tolerance of rainfed lowland rice: search for physiological marker traits. J Plant Physiol 158: 883-889
74. Souer E, vanHouwelingen A, Kloos D, Mol J, Koes R (1996) The no apical meristem gene of petunia is required for pattern formation in embryos and flowers and is expressed at meristem and primordia boundaries. Cell 85: 159-170
75. Szal B, Jolivet Y, Hasenfratz-Sauder MP, Dizengremel P, Rychter AM (2003) Oxygen concentration regulates alternative oxidase expression in barley roots during hypoxia and post-hypoxia. Physiol Plant 119: 494-502
76. Tran LS, Nakashima K, Sakuma Y, Simpson SD, Fujita Y, Maruyama K, Fujita M, Seki M, Shinozaki K, Yamaguchi-Shinozaki K (2004) Isolation and functional analysis of Arabidopsis stress-inducible NAC transcription factors that bind to a drought-responsive cis-element in the early responsive to dehydration stress 1 promoter. Plant Cell 16: 2481-2498
77. Xu KN, Xu X, Fukao T, Canlas P, Maghirang-Rodriguez R, Heuer S, Ismail AM, Bailey-Serres J, Ronald PC, Mackill DJ (2006) Sub1A is an ethylene-response-factor-like gene that confers submergence tolerance to rice. Nature 442: 705-708
78. Yamaguchi S, Smith MW, Brown RGS, Kamiya Y, Sun TP (1998) Phytochrome regulation and differential expression of gibberellin 3β-hydroxylase genes in germinating Arabidopsis seeds. Plant Cell 10: 2115-2126
79. Zimmermann P, Hirsch-Hoffmann M, Hennig L, Gruissem W (2004) GENEVESTIGATOR: Arabidopsis microarray database and analysis toolbox. Plant Physiol 136: 2621-2632