Submergence-responsive microRNAs are potentially involved in the regulation of morphological and metabolic adaptations in maize root cells

Annals of Botany

Volumn 102, Issue 4, 2008, Pages 509-519

  Zhang, Zuxin ^a,c   Wei, Liya ^a   Zou, Xilin ^b   Tao, Yongsheng ^a   Liu, Zhijie ^b   Zheng, Yonglian ^b  

^a AGRICULTURAL UNIVERSITY OF HEBEI   (China)

^b HUAZHONG AGRICULTURAL UNIVERSITY   (China)

^c YANGTZE UNIVERSITY   (China)

Author keywords

Anaerobic metabolism; Flooding stress; Gene expression; microRNA; Transcription factor; Zea mays

Indexed keywords

MICRORNA; PLANT RNA; WATER;

ANOXIC CONDITIONS; CYTOLOGY; FLOODING; GENE EXPRESSION; MAIZE; METABOLISM; RNA; ROOT; SUBMERGENCE; WATER STRESS;

ADAPTATION; ARTICLE; DNA MICROARRAY; GENE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; GENETICS; MAIZE; METABOLISM; MICROFLUIDICS; PLANT ROOT; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS;

ADAPTATION, PHYSIOLOGICAL; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; MICROFLUIDICS; MICRORNAS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PLANT ROOTS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, PLANT; SEQUENCE ANALYSIS, RNA; TRANSCRIPTION, GENETIC; WATER; ZEA MAYS;

OSA; ZEA MAYS;

EID: 52449125294     PISSN: 03057364     EISSN: 10958290     Source Type: Journal    
DOI: 10.1093/aob/mcn129     Document Type: Article

References (60)

1. Achard P, Herr A, Baulcombe DC, Harberd NP. 2004. Modulation of floral development by a gibberellin-regulated microRNA. Development 131: 3357-3365.
2. 2 stress response in plant. Critical Reviews in Plant Sciences 25: 1-21.
3. Andrews DL, Drew MC, Johnson JR, Cobb BG. 1994. The response of maize seedlings of different ages to hypoxic and anoxic stress. Plant Physiology 105: 53-60.
4. Armstrong W. 1971. Radial oxygen losses from intact rice roots as affected by distance from the apex, respiration and waterlogging. Physiologia Plantarum 25: 192-197.
5. Aukerman M, Sakai H. 2003. Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes. The Plant Cell 15: 2730-2741.
6. Bailey-Serres J, Chang R. 2005. Sensing and signalling in response to oxygen deprivation in plants and other organisms. Annals of Botany 96: 507-518.
7. Bartel DP. 2004. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116: 281-297.
8. Bonnet E, Wuyts J, Rouze P, Van de Peer Y. 2004. Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identify important target genes. Proceedings of the National Academy of Sciences of the USA 101: 11511-11516.
9. Chang WWP, Huang L, Shen M, Webster C, Burlingame AL, Roberts JKM. 2000. Patterns of protein synthesis and tolerance of anoxia in root tips of maize seedlings acclimated to a low-oxygen environment and identification of proteins by mass spectrometry. Plant Physiology 122: 295-317.
10. Chen X. 2004. A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development. Science 303: 2022-2025.
11. Chiou TJ, Aung K, Lin SI, Wu CC, Chiang SF, Su CL. 2006. Regulation of phosphate homeostasis by microRNA in Arabidopsis. The Plant Cell 18: 412-421.
12. Dennis ES, Dolferus R, Ellis M, Rahman M, Wu Y, Hoeren F, et al. 2000. Molecular strategies for improving waterlogging tolerance in plants. Journal of Experimental Botany 51: 89-97.
13. Dolferus R, Peacock WJ, Dennis ES. 1994. Differential interactions of promoter elements in stress responses of the Arabidopsis ADH gene. Plant Physiology 105: 1075-1078.
14. Dolferus R, Klok EJ, Delessert C, Wilson S, Ismond KP, Good AG, et al. 2003. Enhancing the anaerobic response. Annals of Botany 91: 111-117.
15. Drew MC. 1997. Oxygen deficiency and root metabolism: injury and acclimation under hypoxia and anoxia. Annual Review of Plant Physiology and Plant Molecular Biology 48: 223-250.
16. Emery JF, Floyd SK, Alvarez J, Eshed Y, Hawker NP, Izhaki A, et al. 2003. Radial patterning of Arabidopsis shoots by class III HD-ZIP and KANADI genes. Current Biology 13: 1768-1774.
17. Eshed Y, Baum S, Perea J, Bowman J. 2001. Establishment of polarity in lateral organs of plants. Current Biology 11: 1251-1260.
18. Fennoy SL, Bailey-Serres J. 1995. Post-transcriptional regulation of gene expression in oxygen-deprived roots of maize. The Plant Journal 7: 287-295.
19. Fennoy SL, Nong T, Bailey-Serres J. 1998. Transcriptional and posttranscriptional processes regulate gene expression in oxygen-deprived roots of maize. The Plant Journal 15: 727-735.
20. Fu Y, Emrich SJ, Guo L, Wen TJ, Ashlock DA, Aluru S, et al. 2005. Quality assessment of maize assembled genomic islands (MAGIs) and large-scale experimental verification of predicted genes. Proceedings of the National Academy of Sciences of the USA 102: 12282-12287.
21. Fujii H, Chiou TJ, Lin SI, Aung K, Zhu JK. 2005. A miRNA involved in phosphate-starvation response in Arabidopsis. Current Biology 15: 2038-2043.
22. Gonzali S, Loreti E, Novi G, Poggi A, Alpi A, Perata P. 2005. The use of microarrays to study the anaerobic response in arabidopsis. Annals of Botany 96: 661-668.
23. Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. 2006. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Research 34: D140-D144.
24. Hoeren FU, Dolferus R, Wu Y, Peacock WJ, Dennis ES. 1998. Evidence for a role of AtMYB2 in the induction of the Arabidopsis alcohol dehydrogenase gene (ADH1) by low oxygen. Genetics 149: 479-490.
25. Jones-Rhoades MW, Bartel DP. 2004. Computational identification of plant microRNAs and their targets, including a stress-induced miRNA. Molecular Cell 14: 787-799.
26. Juarez MT, Kui JS, Thomas J, Heller BA, Timmermans MCP. 2004. microRNA-mediated repression of rolled leaf1 specifies maize leaf polarity. Nature 428: 84-88.
27. Kawase M. 1981. Anatomical and morphological adaptation of plants to waterlogging. HortScience 16: 30-34.
28. Kidner CA, Martienssen RA. 2004. Spatially restricted microRNA directs leaf polarity through ARGONAUTE1. Nature 428: 81-84.
29. Kim J, Jung JH, Reyes JL, Kim YS, Kim SY, Chung KS, et al. 2005. microRNA directed cleavage of ATHB15 mRNA regulates vascular development in Arabidopsis inflorescence stems. The Plant Journal 42: 84-94.
30. Klok EJ, Wilson IW, Wilson D, Chapman SC, Ewing RB, Somerville SC, et al. 2002. Expression profile analysis of the low-oxygen response in Arabidopsis root cultures. The Plant Cell 14: 2481-2494.
31. Lescot M, Déhais P, Thijs G, Marchal K, Moreau K, Van de Peer Y, et al. 2002. PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic Acids Research 30: 325-327.
32. Liao CT, Lin CH. 2001. Physiological adaptation of crop plants to flooding stress. Proceedings of the National Science Council of ROC, Part B 25: 148-157.
33. Liu F, Van Toai T, Moy LP, Bock G, Linford LD, Quackenbush J. 2005. Global transcription profiling reveals comprehensive insights into hypoxic response in Arabidopsis. Plant Physiology 137: 1115-1129.
34. Llave C, Xie Z, Kasschau KD, Carrington JC. 2002. Cleavage of scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA. Science 297: 2053-2056.
35. Lu S, Sun YH, Shi R, Clark C, Li L, Chiang VL. 2005. Novel and mechanical stress-responsive microRNAs in Populus trichocarpa, that are absent from Arabidopsis. The Plant Cell 17: 2186-2203.
36. McConnell J, Emery J, Eshed Y, Bao N, Bowman J, Barton M. 2001. Role of PHABULOSA and PHAVOLUTA in determining radial patterning in shoots. Nature 411: 709-713.
37. Mallory AC, Bartel DP, Bartel B. 2005. MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes. The Plant Cell 17: 1360-1375.
38. Messing J, Bharti AK, Karlowski WM, Gundlach H, Kim HR, Yu Y, et al. 2004. Sequence composition and genome organization of maize. Proceedings of the National Academy of Sciences of the USA 101: 14349-14354.
39. Olson DC, Oetiker JH, Yang SF. 1995. Analysis of LE-ACS3, a 1-aminocyclopropane-1-carboxylic acid synthase gene expressed during flooding in the roots of tomato plants. Journal of Biological Chemistry 270: 14056-14061.
40. Palatnik J, Allen E, Wu X, Schommer C, Schwab R, Carrington J, et al. 2003. Control of leaf morphogenesis by microRNAs. Nature 425: 257-263.
41. Prigge MJ, Otsuga D, Alonso JM, Ecker JR, Drews GN, Clark SE. 2005. Class III homeodomain-leucine zipper gene family members have overlapping, antagonistic, and distinct roles in Arabidopsis development. The Plant Cell 17: 61-76.
42. Rombauts S, Déhais P, Van montaqu M, Rouzé P. 1999. PlantCARE, a plant cis-acting regulatory element database. Nucleic Acids Research 27: 295-296.
43. Sachs MM, Freeling M, Okimoto R. 1980. The anaerobic proteins of maize. Cell 20: 761-767.
44. Sachs MM, Subbaiah CC, Saab IN. 1996. Anaerobic gene expression and flooding tolerance in maize. Journal of Experimental Botany 47: 1-15.
45. Sorin C, Bussell JD, Camus I, Ljung K, Kowalczyk M, Geiss G, et al. 2005. Auxin and light control of adventitious rooting in Arabidopsis require ARGONAUTE1. The Plant Cell 17: 1343-1359.
46. Sunkar R, Zhu JK. 2004. Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis. The Plant Cell 16: 2001-2019.
47. Sunkar R, Kapoor A, Zhu JK. 2006. Posttranscriptional induction of two Cu/Zn superoxide dismutase genes in Arabidopsis is mediated by downregulation of miR398 and important for oxidative stress tolerance. The Plant Cell 18: 2051-2065.
48. Vartapetian BB, Jackson MB. 1997. Plant adaptations to anaerobic stress. Annals of Botany 79 (Suppl. A): 3-20.
49. Vaucheret H, Vazquez F, Crete P, Bartel DP. 2004. The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development. Genes & Development 18: 1187-1197.
50. Walker JC, Howard EA, Dennis ES, Peacock WJ. 1987. DNA sequences required for anaerobic expression of the maize alcohol dehydrogenase-1 gene. Proceedings of the National Academy of Sciences of the USA 84: 6624-6628.
51. Xie Z, Kasschau K, Carrington J. 2003. Negative feedback regulation of Dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation. Current Biology 13: 784-789.
52. Xu K, Xu X, Fukao T, Canlas P, Maghirang-Rodriguez R, Heuer S, et al. 2006. Sub1A is an ethylene-response-factor-like gene that confers submergence tolerance to rice. Nature 442: 705-708.
53. Zhang BH, Pan XP, Wang QL, Cobb GP, Anderson TA. 2005. Identification and characterization of new plant microRNA using EST analysis. Cell Research 15: 336-360.
54. Zhang BH, Pan XP, Cannon CH, Cobb GP, Anderson TA. 2006a. Conservation and divergence of plant microRNA genes. The Plant Journal 46: 243-259.
55. Zhang BH, Pan XP, Cobb GP, Anderson TA. 2006b. Plant microRNA: a small regulatory molecule with big impact. Developmental Biology 89: 3-16.
56. Zhang Y. 2005. miRU: an automated plant miRNA target prediction server. Nucleic Acids Research 33: W701-W704.
57. Zhang ZX, Tang WH, Tao YS, Zheng YL. 2005. cDNA microarray analysis of early response to submerging stress in Zea mays roots. Russian Journal of Plant Physiology 52: 43-49.
58. Zhang ZX, Zou XL, Tang WH, Zheng YL. 2006. Revelation on early response and molecular mechanism of submergence tolerance in maize roots by microarray and suppression subtractive hybridization. Environmental and Experimental Botany 58: 53-563.
59. Zhao B, Liang R, Ge L, Li W, Xiao H, Lin H, et al. 2007. Identification of drought-induced microRNAs in rice. Biochemical and Biophysical Research Communications 354: 585-90.
60. Zhou X, Wang G, Zhang W. 2007. UV-B responsive microRNA genes in Arabidopsis thaliana. Molecular Systems Biology 3: 103.