Comparison of early transcriptome responses to copper and cadmium in rice roots

Plant Molecular Biology

Volumn 81, Issue 4-5, 2013, Pages 507-522

  Lin, Chung Yi ^a   Trinh, Ngoc Nam ^a   Fu, Shih Feng ^b   Hsiung, Yu Chyuan ^a   Chia, Li Chiao ^a   Lin, Chung Wen ^a   Huang, Hao Jen ^a  

^a NATIONAL CHENG KUNG UNIVERSITY   (Taiwan)

^b NATIONAL CHANGHUA UNIVERSITY OF EDUCATION   (Taiwan)

Author keywords

Cadmium; Copper; Oryza sativa; Transcriptome; Vesicle trafficking transport; VIGS

Indexed keywords

ORYZA SATIVA;

EID: 84874314419     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11103-013-0020-9     Document Type: Article

References (69)

1. Ahsan N, Lee DG, Alam I, Kim PJ, Lee JJ, Ahn YO, Kwak SS, Lee IJ, Bahk JD, Kang KY, Renaut J, Komatsu S, Lee BH (2008) Comparative proteomic study of arsenic-induced differentially expressed proteins in rice roots reveals glutathione plays a central role during As stress. Proteomics 8: 3561-3576.
2. Ahsan N, Renaut J, Komatsu S (2009) Recent developments in the application of proteomics to the analysis of plant responses to heavy metals. Proteomics 9: 2602-2621.
3. Bae H, Herman E, Bailey B, Bae H-J, Sicher R (2005) Exogenous trehalose alters Arabidopsis transcripts involved in cell wall modification, abiotic stress, nitrogen metabolism, and plant defense. Physiol Plant 125: 114-126.
4. Béraud-Dufour S, Balch W (2002) A journey through the exocytic pathway. J Cell Sci 115: 1779-1780.
5. Boominathan R, Doran PM (2003) Cadmium tolerance and antioxidative defenses in hairy roots of the cadmium hyperaccumulator, Thlaspi caerulescens. Biotechnol Bioeng 83: 158-167.
6. Cervantes C, Gutierrez-Corona F (1994) Copper resistance mechanisms in bacteria and fungi. FEMS Microbiol Rev 14: 121-137.
7. Chong YT, Gidda SK, Sanford C, Parkinson J, Mullen RT, Goring DR (2010) Characterization of the Arabidopsis thaliana exocyst complex gene families by phylogenetic, expression profiling, and subcellular localization studies. New Phytol 185: 401-419.
8. Cobbett CS (2000a) Phytochelatin biosynthesis and function in heavy-metal detoxification. Curr Opin Plant Biol 3: 211-216.
9. Cobbett CS (2000b) Phytochelatins and their roles in heavy metal detoxification. Plant Physiol 123: 825-832.
10. Cobbett C (2003) Heavy metals and plants-model systems and hyperaccumulators. New Phytol 159: 289-293.
11. Cobbett C, Goldsbrough P (2002) Phytochelatins and metallothioneins: roles in heavy metal detoxification and homeostasis. Annu Rev Plant Biol 53: 159-182.
12. Desikan R, A-H-Mackerness S, Hancock JT, Neill SJ (2001) Regulation of the Arabidopsis transcriptome by oxidative stress. Plant Physiol 127: 159-172.
13. Dra{ogonek}żkiewicz M, Skórzyńska-Polit E, Krupa Z (2004) Copper-induced oxidative stress and antioxidant defence in Arabidopsis thaliana. Biometals 17: 379-387.
14. Elstner EF, Wagner GA, Schutz W (1988) Activated oxygen in green plants in relation to stress situations. Curr Top Plant Biochem Physiol 7: 159-187.
15. Gaxiola RA, Fink GR, Hirschi KD (2002) Genetic manipulation of vacuolar proton pumps and transporters. Plant Physiol 129: 967-973.
16. Guerinot ML (2000) The ZIP family of metal transporters. Biochim Biophys Acta 1465: 190-198.
17. Haag-Kerwer A, Schäfer HJ, Heiss S, Walter C, Rausch T (1999) Cadmium exposure in Brassica juncea causes a decline in transpiration rate and leaf expansion without effect on photosynthesis. J Exp Bot 50: 1827-1835.
18. Hall JL (2002) Cellular mechanisms for heavy metal detoxification and tolerance. J Exp Bot 53: 1-11.
19. Herbette S, Taconnat L, Hugouvieux V, Piette L, Magniette MLM, Cuine S, Auroy P, Richaud P, Forestier C, Bourguignon J, Renou JP, Vavasseur A, Leonhardt N (2006) Genome-wide transcriptome profiling of the early cadmium response of Arabidopsis roots and shoots. Biochimie 88: 1751-1765.
20. Himelblau E, Amasino RM (2000) Delivering copper within plant cells. Curr Opin Plant Biol 3: 205-210.
21. Jabs T, Dietrich RA, Dangl JL (1996) Initiation of runaway cell death in an Arabidopsis mutant by extracellular superoxide. Science 273: 1853-1856.
22. Jin YH, Clark AB, Slebos RJC, Al-Refai H, Taylor JA, Kunkel TA, Resnick MA, Gordenin DA (2003) Cadmium is a mutagen that acts by inhibiting mismatch repair. Nat Genet 34: 326-329.
23. Kampranis SC, Damianova R, Atallah M, Toby G, Kondi G, Tsichlis PN, Makris AM (2000) A novel plant glutathione S-transferase/peroxidase suppresses Bax lethality in yeast. J Biol Chem 275: 29207-29216.
24. Kee Y, Yoo J-S, Hazuka CD, Peterson KE, Hsu S-C, Scheller RH (1997) Subunit structure of the mammalian exocyst complex. PNAS 94: 14438-14443.
25. Keinänen SI, Hassinen VH, Kärenlampi SO, Tervahauta AI (2007) Isolation of genes up-regulated by copper in a copper-tolerant birch (Betula pendula) clone. Tree Physiol 27: 1243-1252.
26. Kim D, Gustin JL, Lahner B, Persans MW, Baek D, Yun DJ, Salt DE (2004) The plant CDF family member TgMTP1 from the Ni/Zn hyperaccumulator Thlaspi goesingense acts to enhance efflux of Zn at the plasma membrane when expressed in Saccharomyces cerevisiae. Plant J 39: 237-251.
27. 2+ on chlorophyll fluorescence, growth and nutrient content in Brassica napus. J Exp Bot 49: 1031-1039.
28. Lee S, Kim Y-Y, Lee Y, An G (2007) Rice P1B-type heavy-metal ATPase, OsHMA9, is a metal efflux protein. Plant Physiol 145: 831-842.
29. 2-containing vesicles with tonoplast and increased salt tolerance. PNAS 103: 18008-18013.
30. Li B, Lin J, Mi S, Lin J (2010a) Arsenic resistance operon structure in Leptospirillum ferriphilum and proteomic response to arsenic stress. Bioresour Technol 101: 9811-9814.
31. Li S, van Os GMA, Ren S, Yu D, Ketelaar T, Emons AMC, Liu CM (2010b) Expression and functional analyses of EXO70 genes in Arabidopsis implicate their roles in regulating cell type-specific exocytosis. Plant Physiol 154: 1819-1830.
32. Lin YF, Aarts MG (2012) The molecular mechanism of zinc and cadmium stress response in plants. Cell Mol Life Sci 69: 3187-3206.
33. Liu Y, Schiff M, Marathe R, Dinesh-Kumar SP (2002) Tobacco Rar1, EDS1 and NPR1/NIM1 like genes are required for N-mediated resistance to tobacco mosaic virus. Plant J 30: 415-429.
34. Maksymiec W (2007) Signaling responses in plants to heavy metal stress. Acta Physiol Plant 29: 177-187.
35. Maksymiec W, Wianowska D, Dawidowicz AL, Radkiewicz S, Mardarowicz M, Krupa Z (2005) The level of jasmonic acid in Arabidopsis thaliana and Phaseolus coccineus plants under heavy metal stress. J Plant Physiol 162: 1338-1346.
36. Mendoza-Cózatl D, Loza-Tavera H, Hernández-Navarro A, Moreno-Sánchez R (2005) Sulfur assimilation and glutathione metabolism under cadmium stress in yeast, protists and plants. FEMS Microbiol Rev 29: 653-671.
37. Moulis JM (2010) Cellular mechanisms of cadmium toxicity related to the homeostasis of essential metals. Biometals 23: 877-896.
38. Mudgil Y, Shiu SH, Stone SL, Salt JN, Goring DR (2004) A large complement of the predicted Arabidopsis ARM repeat proteins are members of the U-Box E3 ubiquitin ligase family. Plant Physiol 134: 59-66.
39. Nakamoto H, Vígh L (2007) The small heat shock proteins and their clients. Cell Mol Life Sci 64: 294-306.
40. Norton GJ, Lou-Hing DE, Meharg AA, Price AH (2008) Rice-arsenate interactions in hydroponics: whole genome transcriptional analysis. J Exp Bot 59: 2267-2276.
41. Ogawa I, Nakanishi H, Mori S, Nishizawa N (2009) Time course analysis of gene regulation under cadmium stress in rice. Plant Soil 325: 97-108.
42. Ouyang S, Zhu W, Hamilton J, Lin H, Campbell M, Childs K, Thibaud-Nissen F, Malek RL, Lee Y, Zheng L, Orvis J, Haas B, Wortman J, Buell CR (2007) The TIGR rice genome annotation resource: improvements and new features. Nucleic Acids Res 35: D883-D887.
43. Ouyang Y, Huang X, Lu Z, Yao J (2012) Genomic survey, expression profile and co-expression network analysis of OsWD40 family in rice. BMC Genomics 13: 100.
44. Pagani MA, Tomas M, Carrillo J, Bofill R, Capdevila M, Atrian S, Andreo CS (2012) The response of the different soybean metallothionein isoforms to cadmium intoxication. J Inorg Biochem 117: 306-315.
45. Park J, Song WY, Ko D, Eom Y, Hansen TH, Schiller M, Lee TG, Martinoia E (2012) The phytochelatin transporters AtABCC1 and AtABCC2 mediate tolerance to cadmium and mercury. Plant J 69: 278-288.
46. Pompella A, Maellaro E, Casini AF, Comporti M (1987) Histochemical detection of lipid peroxidation in the liver of bromobenzene-poisoned mice. Am J Pathol 129: 295-301.
47. 2 in pea leaves. Plant Cell Environ 27: 1122-1134.
48. Ryu CM, Anand A, Kang L, Mysore KS (2004) Agrodrench: a novel and effective agroinoculation method for virus-induced gene silencing in roots and diverse Solanaceous species. Plant J 40: 322-331.
49. Sasaki-Sekimoto Y, Taki N, Obayashi T, Aono M, Matsumoto F, Sakurai N, Suzuki H, Hirai MY, Noji M, Saito K, Masuda T, Takamiya K-i, Shibata D, Ohta H (2005) Coordinated activation of metabolic pathways for antioxidants and defence compounds by jasmonates and their roles in stress tolerance in Arabidopsis. Plant J 44: 653-668.
50. Skórzyńska-Polit E, Pawlikowska-Pawle{ogonek}ga B, Szczuka E, Dra{ogonek}żkiewicz M, Krupa Z (2006) The Activity and localization of lipoxygenases in Arabidopsis thaliana under cadmium and copper stresses. Plant Growth Regul 48: 29-39.
51. Smertenko AP, Chang HY, Wagner V, Kaloriti D, Fenyk S, Sonobe S, Lloyd C, Hauser MT, Hussey PJ (2004) The Arabidopsis microtubule-associated protein AtMAP65-1: molecular analysis of its microtubule bundling activity. Plant Cell 16: 2035-2047.
52. Song WY, Park J, Mendoza-Cózatl DG, Suter-Grotemeyer M, Shim D, Hörtensteiner S, Geisler M, Weder B, Rea PA, Rentsch D, Schroeder JI, Lee Y, Martinoia E (2010) Arsenic tolerance in Arabidopsis is mediated by two ABCC-type phytochelatin transporters. PNAS 107: 21187-21192.
53. Sorkin A (2000) The endocytosis machinery. J Cell Sci 113: 4375-4376.
54. Sudo E, Itouga M, Yoshida-Hatanaka K, Ono Y, Sakakibara H (2008) Gene expression and sensitivity in response to copper stress in rice leaves. J Exp Bot 59: 3465-3474.
55. Takehisa H, Sato Y, Igarashi M, Abiko T, Antonio BA, Kamatsuki K, Minami H, Namiki N, Inukai Y, Nakazono M, Nagamura Y (2012) Genome-wide transcriptome dissection of the rice root system: implications for developmental and physiological functions. Plant J 69: 126-140.
56. Tamari G, Borochov A, Atzorn R, Weiss D (1995) Methyl jasmonate induces pigmentation and flavonoid gene expression in petunia corollas: a possible role in wound response. Physiol Plant 94: 45-50.
57. TerBush DR, Maurice T, Roth D, Novick P (1996) The exocyst is a multiprotein complex required for exocytosis in Saccharomyces cerevisiae. EMBO J 15: 6483-6494.
58. Thimm O, Bläsing O, Gibon Y, Nagel A, Meyer S, Krüger P, Selbig J, Müller LA, Rhee SY, 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.
59. Verrier PJ, Bird D, Burla B, Dassa E, Forestier C, Geisler M, Klein M, Kolukisaoglu Ü, Lee Y, Martinoia E, Murphy A, Rea PA, Samuels L, Schulz B, Spalding EP, Yazaki K, Theodoulou FL (2008) Plant ABC proteins-a unified nomenclature and updated inventory. Trends Plant Sci 13: 151-159.
60. Villiers F, Ducruix C, Hugouvieux V, Jarno N, Ezan E, Garin J, Junot C, Bourguignon J (2011) Investigating the plant response to cadmium exposure by proteomic and metabolomic approaches. Proteomics 11: 1650-1663.
61. 2+-hypertolerant facultative metallophyte Arabidopsis halleri. Plant Cell Environ 29: 950-963.
62. Williams LE, Pittman JK, Hall JL (2000) Emerging mechanisms for heavy metal transport in plants. Biochim Biophys Acta 1465: 104-126.
63. Wysocki R, Tamás MJ (2010) How Saccharomyces cerevisiae copes with toxic metals and metalloids. FEMS Microbiol Rev 34: 925-951.
64. Yruela I (2005) Copper in plants. Braz J Plant Physiol 17: 145-156.
65. Yuan M, Li X, Xiao J, Wang S (2011) Molecular and functional analyses of COPT/Ctr-type copper transporter-like gene family in rice. BMC Plant Biol 11: 69.
66. Yuan L, Yang S, Liu B, Zhang M, Wu K (2012) Molecular characterization of a rice metal tolerance protein, OsMTP1. Plant Cell Rep 31: 67-79.
67. Zeng LR, Qu S, Bordeos A, Yang C, Baraoidan M, Yan H, Xie Q, Nahm BH, Leung H, Wang GL (2004) Spotted leaf11, a negative regulator of plant cell death and defense, encodes a U-Box/Armadillo repeat protein endowed with E3 ubiquitin ligase activity. Plant Cell 16: 2795-2808.
68. Zhao C-R, Ikka T, Sawaki Y, Kobayashi Y, Suzuki Y, Hibino T, Sato S, Sakurai N, Shibata D, Koyama H (2009) Comparative transcriptomic characterization of aluminum, sodium chloride, cadmium and copper rhizotoxicities in Arabidopsis thaliana. BMC Plant Biol 9: 32.
69. Zhu YL, Pilon-Smits EAH, Jouanin L, Terry N (1999) Overexpression of glutathione synthetase in Indian mustard enhances cadmium accumulation and tolerance. Plant Physiol 119: 73-80.