Research Progress on Epigenetic Regulation in Rice/Arabidopsis Against Attack of Pathogenic Bacteria

doi:10.13560/j.cnki.biotech.bull.1985.2017-0793

Abstract

Abstract: Epigenetic modification,which refers to regulate the gene expression by reversible covalent modifications of DNA and histone without altering the DNA sequences,plays very important roles in plant responses to biological or abiotic stresses as well as the adaptation to changing environment. Recently,emerging evidences have shown that epigenetic controlling is involved in the immune response of rice and Arabidopsis to pathogenic bacterial infection（including effect recognition,signal transduction,and rapid defense response）. In this review,we summarized the functions and molecular regulatory mechanisms of epigenetic modifications in defense responses against pathogenic bacteria in rice and Arabidopsis,such as genomic DNA methylation,histone modifications（methylation/demethylation,histone acetylation/deacetylation and ubiquitination）and small RNA. It helps to better understand epigenetic regulation in defense,and to provide theoretical support and gene resources for the crop breeding of disease resistance.

Key words: epigenetics, rice /Arabidopsis, pathogenic bacteria, disease-resistance

XU Yi-hua, LI Qi-qin, LIU Lian-meng, WANG Ling, DING Xin-hua, HOU Yu-xuan, HUANG Shi-wen. Research Progress on Epigenetic Regulation in Rice/Arabidopsis Against Attack of Pathogenic Bacteria[J]. Biotechnology Bulletin, 2018, 34(2): 87-95.

References

[1] Jones JDG, Dangl JL.The plant immune system[J]. Nature, 2006, 444(7117):323.
[2] 耿帅锋, 李爱丽, 毛龙. RNA介导的DNA甲基化路径在植物抗病中的研究进展[J]. 中国农业科学, 2015, 48(S):16-22.
[3] Zhu QH, Shan WX, Ayliffe M, et al.Epigenetic mechanisms:an emerging player in plant-microbe interactions[J]. Molecular Plant-Microbe Interactions, 2015, 29(3):187-196.
[4] Espinas NA, Saze H, Saijo Y.Epigenetic control of defense signaling and priming in plants[J]. Frontiers in Plant Science, 2016, 7(1201):1-7.
[5] Ranf S.Sensing of molecular patterns through cell surface immune receptors[J]. Curr Opin Plant Biol, 2017, 38:68-77.
[6] Ding B, Wang GL.Chromatin versus pathogens:the function of epigenetics in plant immunity[J]. Frontiers in Plant Science, 2015, 6(675):675.
[7] 李智强, 王国梁, 刘文德. 水稻抗病分子机制研究进展[J]. 生物技术通报, 2016, 32(10):97-108.
[8] Gijzen M, Ishmael C, Shrestha SD.Epigenetic control of effectors in plant pathogens[J]. Frontiers in Plant Science, 2014, 5:638.
[9] Alvarez ME, Nota F, Cambiagno DA.Epigenetic control of plant immunity[J]. Mol Plant Pathol, 2010, 11(4):563-576.
[10] 王树昌. 表观遗传学在植物中的研究[J]. 安徽农业科学, 2011, 39(5):2562-2564.
[11] Gao S, Jin H.Host small RNAs and plant innate immunity[J]. Non Coding Rnas in Plants, 2011:21-34.
[12] Bari R, Jones JD.Role of plant hormones in plant defence responses[J]. Plant Mol Biol, 2009, 69(4):473-488.
[13] Koornneef A, Pieterse CM.Cross talk in defense signaling[J]. Plant Physiology, 2008, 146(3):839-844.
[14] Vlot AC, Dempsey DA, Klessig DF.Salicylic acid, a multifaceted hormone to combat disease[J]. Annu Rev Phytopathol, 2009, 47(1):177-206.
[15] 李新玲, 徐香玲. 植物DNA甲基化与表观遗传[J]. 中国农学通报, 2008, 24(1):123-126.
[16] Guseinov VA, Vanyushin BF.Content and localisation of 5-methylcytosine in DNA of healthy and wilt-infected cotton plants[J]. Biochim Biophys Acta, 1975, 395(3):229-238.
[17] Pavet V, Quintero C, Cecchini NM, et al.Arabidopsis displays centromeric DNA hypomethylation and cytological alterations of heterochromatin upon attack by Pseudomonas syringae[J]. Molecular Plant-Microbe Interactions, 2006, 19(6):577-587.
[18] Dowen RH, Pelizzola M, Schmitz RJ, et al.Widespread dynamic DNA methylation in response to biotic stress[J]. Proc Natl Acad Sci USA, 2012, 109(32):2183-2191.
[19] Wang Y, An C, Zhang X, et al.The Arabidopsis elongator complex subunit2 epigenetically regulates plant immune responses[J]. Plant Cell, 2013, 25(2):762-776.
[20] López A, Ramírez V, García-Andrade J, et al.The RNA silencing enzyme RNA polymerase v is required for plant immunity[J]. PLoS Genetics, 2011, 7(12):e1002434.
[21] Penterman J, Zilberman D, Jin HH, et al.DNA demethylation in the Arabidopsis genome[J]. Proc Natl Acad Sci USA, 2007, 104(16):6752-6757.
[22] Zhu JK.Active DNA Demethylation mediated by DNA glycosylases[J]. Annu Rev Genet, 2009, 43(1):143-166.
[23] Yu A, Lepère G, Jay F, et al.Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense[J]. Proc Natl Acad Sci USA, 2013, 110(6):2389-2394.
[24] 韦荣昌, 唐其, 马小军, 等. 植物表观遗传学研究进展[J]. 北方园艺, 2013(18):170-173.
[25] Kouzarides T.Chromatin modifications and their function[J]. Cell, 2007, 128(4):693.
[26] Alvarezvenegas R, Abdallat AA, Guo M, et al.Epigenetic control of a transcription factor at the cross section of two antagonistic pathways[J]. Epigenetics, 2007, 2(2):106-113.
[27] Alvarez-Venegas R, Sadder M, Hlavacka A, et al.The Arabidopsis homolog of trithorax, ATX1, binds phosphatidylinositol 5-phosphate, and the two regulate a common set of target genes[J]. Proc Natl Acad Sci USA, 2006, 103(15):6049-6054.
[28] Berr A, Mccallum EJ, Alioua A, et al.Arabidopsis histone methyltransferase SET DOMAIN GROUP8 mediates induction of the jasmonate/ethylene pathway genes in plant defense response to necrotrophic fungi[J]. Plant Physiology, 2010, 154(3):1403-1414.
[29] Li T, Chen X, Zhong X, et al.Jumonji C domain protein JMJ705-mediated removal of histone H3 lysine 27 trimethylation is involved in defense-related gene activation in rice[J]. Plant Cell, 2013, 25(11):4725-4736.
[30] Hou Y, Wang L, Ling W, et al.JMJ704 positively regulates rice defense response against Xanthomonas oryzae pv. oryzae, infection via, reducing H3K4me2/3 associated with negative disease resistance regulators[J]. BMC Plant Biology, 2015, 15(1):286.
[31] Wang Z, Zang C, Cui K, et al.Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes[J]. Cell, 2009, 138(5):1019-1031.
[32] Zupkovitz G, Tischler J, Posch M, et al.Negative and positive regulation of gene expression by mouse histone deacetylase 1[J]. Molecular & Cellular Biology, 2006, 26(21):7913-7928.
[33] Winkler GS, Kristjuhan A, Erdjument-Bromage H, et al.Elongator is a histone H3 and H4 acetyltransferase important for normal histone acetylation levels in vivo[J]. Proc Natl Acad Sci USA, 2002, 99(6):3517-3522.
[34] Defraia CT, Wang Y, Yao J, et al.Elongator subunit 3 positively regulates plant immunity through its histone acetyltransferase and radical S-adenosylmethionine domains[J]. BMC Plant Biology, 2013, 13(1):102.
[35] De-La-Peña C, Rangel-Cano A, Alvarez-Venegas R. Regulation of disease-responsive genes mediated by epigenetic factors:interaction of Arabidopsis-Pseudomonas[J]. Mol Plant Pathol, 2012, 13(4):388-398.
[36] Tian L, Fong MP, Wang JJ, et al.Reversible histone acetylation and deacetylation mediate genome-wide, promoter-dependent and locus-specific changes in gene expression during plant development[J]. Genetics, 2005, 169(1):337-345.
[37] Choi SM, Song HR, Han S K, et al.HDA19 is required for the repression of salicylic acid biosynthesis and salicylic acid-mediated defense responses in Arabidopsis[J]. The Plant Journal, 2012, 71(1):135-146.
[38] Kim KC, Lai Z, Fan B, et al.Arabidopsis WRKY38 and WRKY62 transcription factors interact with histone deacetylase 19 in basal defense[J]. Plant Cell, 2008, 20(9):2357-2371.
[39] Wang C, Gao F, Wu J, et al.Arabidopsis putative deacetylase AtSRT2 regulates basal defense by suppressing PAD4, EDS5 and SID2 expression[J]. Plant & Cell Physiology, 2010, 51(8):1291-1299.
[40] Ding B, Bellizzi MR, Ning Y, et al.HDT701, a histone H4 deacetylase, negatively regulates plant innate immunity by modulating histone H4 acetylation of defense-related genes in rice[J]. Plant Cell, 2012, 24(9):3783-3794.
[41] Pérez M, Cañal MJ, Toorop PE.Expression analysis of epigenetic and abscisic acid-related genes during maturation of Quercus suber somatic embryos[J]. Plant Cell Tissue & Organ Culture, 2015, 121(2):353-366.
[42] Cao Y, Dai Y, Cui S, et al.Histone H2B monoubiquitination in the chromatin of FLOWERING LOCUS C regulates flowering time in Arabidopsis[J]. Plant Cell, 2008, 20(10):2586-2602.
[43] Zou B, Hua J.Monoubiquitination of histone 2B at the disease resistance gene locus regulates its expression and impacts immune responses in Arabidopsis[J]. Plant Physiology, 2014, 165(1):309-318.
[44] 潘丽娜, 王振英. 植物表观遗传修饰与病原菌胁迫应答研究进展[J]. 西北植物学报, 2013, 33(1):210-214.
[45] Chow HT, Ng DW.Regulation of miR163 and its targets in defense against Pseudomonas syringae in Arabidopsis thaliana[J]. Sci Rep, 2017, 7:46433.
[46] Navarro L, Jones JDG.A plant miRNA contributes to antibacterial resistance by repressing auxin signaling[J]. Science, 2006, 312(5772):436-439.
[47] Harenberg J, Huhle G, Giese C, et al.Endogenous small RNAs and antibacterial immunity in plants[J]. FEBS Letters, 2008, 582
(18):2679-2684.
[48] Fahlgren N, Howell MD, Kasschau K D, et al.High-throughput sequencing of Arabidopsis microRNAs:evidence for frequent birth and death of MIRNA genes[J]. PLoS One, 2007, 2(2):e219.
[49] Katiyar-Agarwal S, Morgan R, Dahlbeck D, et al.A pathogen-inducible endogenous siRNA in plant immunity[J]. Proc Natl Acad Sci USA, 2006, 103(47):18002-18007.
[50] Saze H, Tsugane K, Kanno T, et al.DNA methylation in plants:relationship to small RNAs and histone modifications, and functions in transposon inactivation[J]. Plant & Cell Physiology, 2012, 53(5):766-784.