Regulation of oleosin expression in developing peanut (Arachis hypogaea L.) embryos through nucleosome loss and histone modifications

Journal of Experimental Botany

Volumn 60, Issue 15, 2009, Pages 4371-4382

  Li, Chenlong ^a   Wu, Keqiang ^b   Fu, Guohua ^a   Li, Yin ^a   Zhong, Yujuan ^a   Lin, Xiaodong ^a   Zhou, Yi ^a   Tian, Lining ^c   Huang, Shangzhi ^a  

^a SUN YAT SEN UNIVERSITY   (China)

^b NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^c AGRICULTURE AND AGRI FOOD CANADA   (Canada)

Author keywords

Histone acetylation; Histone H3K9 dimethylation; Histone loss; Oleosin; Peanut seed

Indexed keywords

HISTONE; VEGETABLE PROTEIN;

ACETYLATION; ARTICLE; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; METHYLATION; NUCLEOSOME; PEANUT; PRENATAL DEVELOPMENT;

ACETYLATION; ARACHIS HYPOGAEA; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENE EXPRESSION REGULATION, PLANT; HISTONES; METHYLATION; NUCLEOSOMES; PLANT PROTEINS;

ARACHIS HYPOGAEA;

EID: 70350671254     PISSN: 00220957     EISSN: 14602431     Source Type: Journal    
DOI: 10.1093/jxb/erp275     Document Type: Article

References (59)

1. Adkins MW, Howar SR, Tyler JK. 2004. Chromatin disassembly mediated by the histone chaperone Asf1 is essential for transcriptional activation of the yeast PHO5 and PHO8 genes. Molecular Cell 14, 657-666.
2. Alvarez-Venegas R, Avramova Z. 2005. Methylation patterns of histone H3 Lys 4, Lys 9, and Lys 27 in transcriptionally active and inactive Arabidopsis genes and in atx1 mutants. Nucleic Acids Research 33, 5199-5207.
3. Bannister AJ, Zegerman P, Partridge JF, Miska EA, Thomas JO, Allshire RC, Kouzarides T. 2001. Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain. Nature 410, 120-124.
4. Barrera LO, Ren B. 2006. The transcriptional regulatory code of eukaryotic cells: insights from genome-wide analysis of chromatin organization and transcription factor binding. Current Opinion in Cell Biology 18, 291-298.
5. Benhamed M, Bertrand C, Servet C, Zhou DX. 2006. Arabidopsis GCN5, HD1, and TAF1/HAF2 interact to regulate histone acetylation required for light-responsive gene expression. The Plant Cell 18, 2893-2903.
6. Bernatavichute YV, Zhang X, Cokus S, Pellegrini M, Jacobsen SE. 2008. Genome-wide association of histone h3 lysine nine methylation with CHG DNA methylation in Arabidopsis thaliana. PLoS ONE 3, e3156.
7. Bernstein BE, Liu CL, Humphrey EL, Perlstein EO, Schreiber SL. 2004. Global nucleosome occupancy in yeast. Genome Biology 5, R62.
8. Bobb AJ, Chern MS, Bustos MM. 1997. Conserved RY-repeats mediate transactivation of seed-specific promoters by the developmental regulator PvALF. Nucleic Acids Research 25, 641-647.
9. Boeger H, Griesenbeck J, Strattan JS, Kornberg RD. 2003. Nucleosomes unfold completely at a transcriptionally active promoter. Molecular Cell 11, 1587-1598.
10. Boeger H, Griesenbeck J, Strattan JS, Kornberg RD. 2004. Removal of promoter nucleosomes by short article disassembly rather than sliding in vivo. Molecular Cell 14, 667-673.
11. Bowler C, Benvenuto G, Laflamme P, Molino D, Probst AV, Tariq M, Paszkowski J. 2004. Chromatin techniques for plant cells. The Plant Journal 39, 776-789.
12. Chen H, Ke Q, Kluz T, Yan Y, Costa M. 2006. Nickel ions increase histone H3 lysine 9 dimethylation and induce transgene silencing. Molecular and Cellular Biology 10, 3728-3737.
13. Chen X, Wang J, Woltring D, Gerondakis S, Shannon MF. 2005. Histone dynamics on the interleukin-2 gene in response to T-cell activation. Molecular and Cellular Biology 25, 3209-3219.
14. Chen ZJ, Tian L. 2007. Roles of dynamic and reversible histone acetylation in plant development and polyploidy. Biochimica et Biophysica Acta 1769, 295-307.
15. Clough SJ, Bent AF. 1998. Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. The Plant Journal 16, 735-743.
16. Exner V, Hennig L. 2008. Chromatin rearrangements in development. Current Opinion in Plant Biology 11, 64-69.
17. Govind CK, Zhang F, Qiu H, Hofmeyer K, Hinnebusch AG. 2007. Gcn5 promotes acetylation, eviction and methylation of nucleosomes in transcribed coding regions. Molecular Cell 25, 31-42.
18. Hassan AH, Neely KE, Workman JL. 2001. Histone acetyltransferase complexes stabilize swi/snf binding to promoter nucleosomes. Cell 104, 817-827.
19. Huang AHC. 1996. Oleosin and oil bodies in seeds of other organs. Plant Physiology 110, 1055-1061.
20. Ito T, Ikehar T, Nakagawa T, Kraus WL, Muramatsu M. 2000. p300-mediated acetylation facilitates the transfer of histone H2A-H2B dimers from nucleosomes to a histone chaperone. Genes and Development 14, 1899-1907.
21. Jacks TJ, Hensarling TP, Neucere JN, Yatsu LY, Barker RH. 1990. Isolation and physicochemical characterization of the half-unit membranes of oilseeds lipid bodies. Journal of the American Oil Chemists' Society 67, 353-361.
22. Jackson JP, Johnson L, Jasencakova Z, Zhang X, PerezBurgos L, Singh PB, Cheng X, Schubert I, Jenuwein T, Jacobsen SE. 2004. Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana. Chromosoma 112, 308-315.
23. Jefferson RA, Kavanagh TA, Bevan MW. 1987. GUS fusions: beta-glucuronidase as a sensitive and versatile gene fusion marker in higher plants. The EMBO Journal 6, 3901-3907.
24. Jenuwein T, Allis CD. 2001. Translating the histone code. Science 293, 1074-1080.
25. Kim HU, Hsieh K, Ratnayake C, Huang AHC. 2002. A novel group of oleosin is present inside the pollen of Arabidopsis. Journal of Biological Chemistry 277, 677-684.
26. Kristjuhan A, Svejstrup JQ. 2004. Evidence for distinct mechanisms facilitating transcript elongation through chromatin in vivo. The EMBO Journal 23, 4243-4252.
27. Lachner M, Jenuwein T. 2002. The many faces of histone lysine methylation. Current Opinion in Cell Biology 14, 286-298.
28. Längst G, Bonte EJ, Corona DF, Becker PB. 1999. Nucleosome movement by CHRAC and ISWI without disruption or trans-displacement of the histone octamer. Cell 97, 843-852.
29. Lee CK, Shibata Y, Rao B, Strahl BD, Lieb JD. 2004. Evidence for nucleosome depletion at active regulatory regions genome-wide. Nature Genetics 36, 900-905.
30. Lusser A, Kolle D, Loidl P. 2001. Histone acetylation: lessons from the plant kingdom. Trends in Plant Science 6, 59-65.
31. Mellor J. 2006. Dynamic nucleosomes and gene transcription. Trends in Genetics 22, 320-329.
32. Mutskov V, Felsenfeld G. 2004. Silencing of transgene transcription precedes methylation of promoter DNA and histone H3 lysine 9. The EMBO Journal 23, 138-149.
33. Narlikar GJ, Fan HY, Kingston RE. 2002. Cooperation between complexes that regulate chromatin structure and transcription. Cell 108, 475-487.
34. Ng DW, Chandrasekharan MB, Hall TC. 2006. Ordered histone modifications are associated with transcriptional poising and activation of the phaseolin promoter. The Plant Cell 18, 119-132.
35. Ng DW, Hall TC. 2008. PvALF and FUS3 activate expression from the phaseolin promoter by different mechanisms. Plant Molecular Biology 66, 233-244.
36. Offermann S, Danker T, Dreymüller D, Kalamajka R, Tö psch S, Weyand K, Peterhä nsel C. 2006. Illumination is necessary and sufficient to induce histone acetylation independent of transcriptional activity at the C4-specific phosphoenolpyruvate carboxylase promoter in maize. Plant Physiology 141, 1078-1088.
37. Pfluger J, Wagner D. 2007. Histone modifications and dynamic regulation of genome accessibility in plants. Current Opinion in Plant Biology 10, 645-652.
38. Pich U, Schubert I. 1993. Midiprep method for isolation of DNA from plants with a high content of polyphenolics. Nucleic Acids Research 21, 3328.
39. Plant AL, van Rooijen GJ, Anderson CP, Moloney MM. 1994. Regulation of an Arabidopsis oleosin gene promoter in transgenic Brassica napus. Plant Molecular Biology 25, 193-205.
40. Pons L, Chery C, Mrabet N, Schohn H, Lapicque F, Gueant JL. 2005. Purification and cloning of two high molecular mass isoforms of peanut seed oleosin encoded by cDNAs of equal sizes. Plant Physiology and Biochemistry 143, 659-668.
41. Pons L, Chery C, Romano A, Namour F, Artesani MC, Gueant JL. 2002. The 18 kDa peanut oleosin is a candidate allergen for IgE-mediated reactions to peanuts. Allergy 57, 88-93.
42. Reinke H, Horz W. 2003. Histones are first hyperacetylated and then lose contact with the activated PHO5 promoter. Molecular Cell 11, 1599-1607.
43. Rowley DL, Herman EM. 1997. The upstream domain of soybean oleosin genes contains regulatory elements similar to those of legume storage proteins. Biochimica et Biophysica Acta 1345, 1-4.
44. Schwabish MA, Struhl K. 2004. Evidence for eviction and rapid deposition of histones upon transcriptional elongation by RNA polymerase II. Molecular and Cellular Biology 24, 10111-10117.
45. Schwabish MA, Struhl K. 2006. Asf1 mediates histone eviction and deposition during elongation by RNA polymerase II. Molecular Cell 22, 415-422.
46. Siloto RM, Findlay K, Lopez-Villaobos A, Yeung EC, Nykiforuk CL, Moloney MM. 2006. The accumulation of oleosin determines the size of seed oilbodies in Arabidopsis. The Plant Cell 18, 1961-1974.
47. Simkin AJ, Qian TZ, Caillet V, Michoux F, Amor MB, Lin CW, Tanksley S, McCarthy J. 2006. Oleosin gene family of Coffea canephora: quantitative expression analysis of five oleosin genes in developing and germinating coffee grain. Journal of Plant Physiology 163, 691-708.
48. Strahl BD, Allis CD. 2000. The language of covalent histone modifications. Nature 403, 41-45.
49. Tai SS, Chen MC, Peng CC, Tzen JTC. 2002. Gene family of oleosin isoforms and their structural stabilization in sesame seed oil bodies. Bioscience, Biotechnology, and Biochemistry 66, 2146-2153.
50. Tanaka M, Kikuchi A, Kamad H. 2008. The Arabidopsis histone deacetylases HDA6 and HDA19 contribute to the repression of embryonic properties after germination. Plant Physiology 146, 149-161.
51. Tariq M, Paszkowski J. 2004. DNA and histone methylation in plants. Trends in Genetics 20, 244-251.
52. Turner BM. 2000. Histone acetylation and an epigenetic code. Bioessay 22, 836-845.
53. Workman JL. 2006. Nucleosome displacement in transcription. Genes and Development 20, 2009-2017.
54. Wu CY, Washida H, Onodera Y, Harada K, Takaiwa F. 2000. Quantitative nature of the prolamin-box, ACGT and AACA motifs in a rice glutelin gene promoter: minimal cis-element requirements for endosperm-specific gene expression. The Plant Jouranl 23, 415-421.
55. Wu K, Zhang L, Zhou C, Yu C-W, Chaikam V. 2008. HDA6 is required for jasmonate response, senescence and flowering in Arabidopsis. Journal of Experimental Botany 59, 225-234.
56. Xiao H, Sandaltzopoulos R, Wang HM, Hamiche A, Ranallo R, Lee KM, Fu D, Wu C. 2001. Dual functions of largest NURF subunit NURF301 in nucleosome sliding and transcription factor interactions. Molecular Cell 8, 531-543.
57. Yan YS, Lin XD, Zhang YS, Wang L, Wu K, Huang SZ. 2005. Isolation of peanut gene encoding arachins and conglutins by expressed sequence tags. Plant Science 169, 439-445.
58. Zhao J, Herrera-Diaz J, Gross DS. 2005. Domain-wide displacement of histones by activated heat shock factor occurs independently of Swi/Snf and is not correlated with RNA polymerase II density. Molecular and Cellular Biology 25, 8985-8999.
59. Zhou C, Labbe H, Sridha S, Wang L, Tian L, Latoszek-Green M, Yang Z, Brown D, Miki B, Wu K. 2004. Expression and function of HD2-type histone deacetylases in Arabidopsis development. The Plant Jouranl 38, 715-724.