茶树DNA去甲基化酶基因的全基因组鉴定及表达分析

doi:10.13305/j.cnki.jts.2021.01.004

Abstract

Abstract: DNA demethylase (dMTase) is a bifunctional enzyme with activities of glycosylase and apyrimidic lysase during active demethylation. Based on the available genome data of tea plant, bioinformatics analysis was used to comprehensively identify DNA demethylases (CsdMTase) in tea plant. The genome-wide identification results show that the tea cultivar Shuchazao contains 4 CsdMTases. These CsdMTases could be divided into two branches (DME and ROS) with differences in gene length and intron number by phylogenetic and gene structure analysis. Further analysis shows that the physical and chemical properties of different CsdMTase proteins are similar, which contain the typical conserved domains of ENCO3c and RRM_DME and are located in the nucleus. The promoter regions of CsdMTases contain a large number of cis-acting components related to light response, plant hormone response, stress response and growth and development. The CsdMTase genes are expressed in all detected tissues with certain tissue specificity. The expressions of CsdMTases were significantly up-regulated under biotic stresses, including Colletotrichum camelliae, Pseudopestalotiopsis camelliae-sinensis and Ectropis oblique treatments. During winter dormancy, different expression patterns of CsdMTases were detected in mature leaves and overwintering buds of different cultivars. The expressions of CsDMEa and CsDMEb at different stages of flower bud development and seed germination were significantly induced. The results show that active DNA demethylation process mediated by CsdMTases plays a crucial role in regulating the stress responses, growth and development of tea plant, providing a theoretical basis for discovering the epigenetic regulation mechanism in tea plant.

Key words: tea plant, DNA demethylase, stress response, growth and development, expression analysis

CLC Number:

S571.1
Q523

CHEN Yao, ZHANG Weifu, REN Hengze, XIONG Fei, ZHANG Haojie, YAO Lina, LIU ying, WANG Lu, WANG Xinchao, YANG Yajun, HAO Xinyuan. Genome-wide Investigation and Expression Analysis of DNA Demethylase Genes in Tea Plant (Camellia Sinensis)[J]. Journal of Tea Science, 2021, 41(1): 28-39.

References

[1] Law J A, Jacobsen S E.Establishing, maintaining and modifying DNA methylation patterns in plants and animals[J]. Nat Rev Genet, 2010, 11(3): 204-220.
[2] Cao X, Jacobsen S E.Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes[J]. PNAS 2002, 99(s4): 16491-16498.
[3] Duan C G, Zhu J K, Cao X.Retrospective and perspective of plant epigenetics in China[J]. J Genet Genomics, 2018, 45(11): 621-638.
[4] Rocha P S, Sheikh M, Melchiorre R, et al.The Arabidopsis homology-dependent gene Silencing1 gene codes for an S-adenosyl-L-homocysteine hydrolase required for DNA methylation-dependent gene silencing[J]. Plant Cell, 2005, 17(2): 404-417.
[5] Jon P, Huh J H, Tracy Ballinger, et al.DNA demethylation in the Arabidopsis genome[J]. PNAS 2007, 104(16): 6752-6757.
[6] Zhang H, Lang Z, Zhu J K.Dynamics and function of DNA methylation in plants[J]. Nat Rev Mol Cell Bio, 2018, 19(8): 489-506.
[7] Yeonhee Choi M G. Demeter, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in Arabidopsis [J]. Cell Press, 2002, 110(1): 33-42.
[8] Gong Z Z, Teresa M R, Rafael R A, et al.ROS1, a repressor of transcriptional gene silencing in Arabidopsis, encodes a DNA glycosylase/lyase [J]. Cell Press, 2002, 111(6): 803-814.
[9] Cao D, Ju Z, Gao C, et al.Genome-wide identification of cytosine-5 DNA methyltransferases and demethylases in Solanum lycopersicum[J]. Gene, 2014, 550(2): 230-237.
[10] Zemach A, Kim M Y, Silya P, et al.Local DNA hypomethylation activates genes in rice endosperm[J]. PNAS 2010, 107(43): 18729-18734.
[11] Conde D, Moreno C A, Dervinis C, et al.Overexpression of Demeter, a DNA demethylase, promotes early apical bud maturation in poplar[J]. Plant Cell and Environment Plant Cell Environ, 2017, 40(11): 2806-2819.
[12] 周艳华, 曹红利, 岳川, 等. 冷驯化不同阶段茶树DNA甲基化模式的变化[J]. 作物学报, 2015, 41(7): 1047-1055.
Zhou Y H, Cao H L, Yue C, et al.Changes of DNA methylation levels and patterns in tea plant (Camellia sinensis) during cold acclimation[J]. Acta Agronomica Sinica, 2015, 41(7): 1047-1055.
[13] Zhu C, Zhang S, Zhou C, et al.Genome-wide investigation and transcriptional analysis of cytosine-5 DNA methyltransferase and DNA demethylase gene families in tea plant (Camellia sinensis) under abiotic stress and withering processing[J]. Peer J, 2020, 8: e8432. doi: 10.3389/fpls.2016.00007.
[14] 熊飞, 卢秦华, 房婉萍, 等. 基于全基因组的茶树PAL家族基因鉴定及其在生物与非生物胁迫下的表达分析[J]. 园艺学报, 2020, 47(3): 517-528.
Xiong F, Lu Q H, Fang W P, et al.Genome-wide identification and expression analyses of PAL genes under biotic and abiotic stress in Camellia sinensis[J]. J Hortic, 2020, 47(3): 517-528.
[15] Xia E, Tong W, Hou Y, et al.The reference genome of tea plant and resequencing of 81 diverse accessions provide insights into genome evolution and adaptation of tea plants[J]. Mol Plant, 2020, 13(7): 1013-1026.
[16] Wei C, Yang H, Wang S, et al.Draft genome sequence of Camellia sinensis var. sinensis provides insights into the evolution of the tea genome and tea quality[J]. PNAS 2018, 115(18): E4151-E4158.
[17] Xia E H, Li F D, Tong W, et al.Tea plant information archive: a comprehensive genomics and bioinformatics platform for tea plant[J]. Plant Biotechnol J, 2019, 17(10): 1938-1953.
[18] Hao X, Horvath D P, Chao W S, et al.Identification and evaluation of reliable reference genes for quantitative real-time PCR analysis in tea plant (Camellia sinensis (L.) O. Kuntze)[J]. Int J Mol Sci, 2014, 15(12): 22155-22172.
[19] Thomas D.Analyzing real-time PCR data by the comparative C_T method[J]. Protocol, 2008, 3(6): 1101. doi: 10.1038/nprot.2008.73.
[20] Mok Y G, Uzawa R, Lee J, et al.Domain structure of the DEMETER 5-methylcytosine DNA glycosylase[J]. PNAS 2010, 107(45): 19225-19230.
[21] Ogneva Z V, Dubrovina A S, Kiselev K V .Age-associated alterations in DNA methylation and expression of methyltransferase and demethylase genes in Arabidopsis thaliana[J]. Biol Plantarum, 2016, 60(4): 628-634.
[22] Victoria D, Aliki K, Venetia K, et al.Spatial and temporal expression of cytosine-5 DNA methyltransferase and DNA demethylase gene families of the Ricinus communis during seed development and drought stress[J]. Plant Growth Regul, 2017, 84(1): 81-94.
[23] Gu T T, Ren S A, Wang Y H, et al.Characterization of DNA methyltransferase and demethylase genes in Fragaria vesca[J]. Mol Genet Genomics, 2016, 291(3): 1333-1345.
[24] Wang P F, Chao G, Bai X T, et al.Genome-wide identification and comparative analysis of cytosine-5 DNA methyltransferases and demethylase families in wild and cultivated peanut[J]. Front Plant Sci, 2016, 7: 7. doi: 10.3389/fpls.2016.00007.
[25] Yang X M, Chen X G, Wang D L.Genome-wide identification and expression analysis of DNA demethylase family in cotton[J]. J Cotton Res, 2019, 2(2): 142-150.
[26] Ulrike S, Joanne L, Kemal K, et al.DNA-demethylase regulated genes show methylation-independent spatiotemporal expression patterns[J]. Front Plant Sci, 2017, 8: 1449. doi: 10.3389/fpls.2017.01449.
[27] Fan S, Liu H, Liu J, et al.Systematic analysis of the DNA methylase and demethylase gene families in rapeseed (Brassica napus L.) and their expression variations after salt and heat stresses[J]. Int J Mol Sci, 2020, 21(3): 953. doi: 10.3390/ijms21030953.
[28] Conde D, Le G A, Perales M, et al.Chilling-responsive Demeter-Like DNA demethylase mediates in poplar bud break[J]. Plant Cell Environ, 2017, 40(10): 2236-2249.

Genome-wide Investigation and Expression Analysis of DNA Demethylase Genes in Tea Plant (Camellia Sinensis)

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Metrics

Comments

Recommended 10

[1]	ZHANG Qunfeng, NI Kang, YI Xiaoyun, LIU Meiya, RUAN Jianyun. Advances of Magnesium Nutrition in Tea Plant [J]. Journal of Tea Science, 2021, 41(1): 19-27.
[2]	JIN Ke, HUANG Jian'an, XIONG Ligui, LIU Shuoqian, QIN Xiaohong, PENG Jing, LI Yinhua, LI Juan. Research of Theanine-related Genes Expressed in Etiolated Tea Plant (Camellia Sinensis) [J]. Journal of Tea Science, 2021, 41(1): 40-47.
[3]	WAN Qiwen, YANG Ni, LI Yimin, HAN Miaohua, LIN Shijia, TENG Ruimin, ZHUANG Jing. Effects of Exogenous 24-Epibrassinolide on Photosynthetic Characteristics of Tea Plants [J]. Journal of Tea Science, 2021, 41(1): 58-70.
[4]	HUANG Fangfang, LI Qin, HUANG Jian'an. Research Progress of Tea Rhizosphere Microorganisms [J]. Journal of Tea Science, 2020, 40(6): 715-723.
[5]	FENG Xia, DI Taimei, PENG Jing, LI Nana, YAO Lina, YANG Yajun, WANG Xinchao, WANG Lu. Interaction Identification and Expression Analysis of CsCIPK12 and CsKIN10 in Tea Plant [J]. Journal of Tea Science, 2020, 40(6): 739-750.
[6]	REN Qianqian, ZHUANG Mingzhu, CAI Xiaoming, BIAN Lei, LUO Zongxiu, LI Zhaoqun, YOU Minsheng, CHEN Zongmao, JIN Shan. The Release of Volatiles in Resistant and Susceptible Tea Cultivars under Empoasca Onukii Feeding [J]. Journal of Tea Science, 2020, 40(6): 795-806.
[7]	JIN Yinli, MA Quanchao, ZHANG Shaojie, YIN Jian, SHI Hongzhong, GENG Shubao. Oviposition Behavior and Effect of Temperature on the Overwintering Egg Development of Pochazia Guttifera [J]. Journal of Tea Science, 2020, 40(6): 807-816.
[8]	SU Jingjing, RUAN Li, WANG Liyuan, WEI Kang, WU Liyun, BAI Peixian, CHENG Hao. Early Identification of Nitrogen Absorption Efficiency in Tea Plants [J]. Journal of Tea Science, 2020, 40(5): 576-587.
[9]	YAN Fei, JIANG Wenhua, QU Dong, FU Jing, ZHAO Xuan. Effects of Exogenous 5-aminolevulinic Acid on Photosynthetic and Physiological Characteristics of Tea Plants under Low Temperature Stress [J]. Journal of Tea Science, 2020, 40(5): 597-606.
[10]	JIANG Yan, LI Xinghui, PU Dian, LAN Zengquan, WU Tian. A Preliminary Study on Determining Tea Plant Age Based on Anatomical Structure of Tea’s Stem [J]. Journal of Tea Science, 2020, 40(4): 492-500.
[11]	JIANG Junmei, FANG Yuanpeng, NING Na, CHEN Meiqing, YANG Zaifu, WANG Yong, LI Xiangyang, XIE Xin. Cloning and Expression Analysis of CssHSP18.1 Gene in Camellia Sinensis [J]. Journal of Tea Science, 2020, 40(3): 328-340.
[12]	CHEN Xuejin, WANG Pengjie, LIN Xinying, GU Mengya, ZHENG Yucheng, ZHENG Zhilin, YE Naixing. Identification and Expression Analysis of Terpene Synthesis Related Genes during the Withering of White Tea [J]. Journal of Tea Science, 2020, 40(3): 363-374.
[13]	YU Wenquan, WANG Feng, CHEN Yuzhen, SHANG Riyang, YOU Zhiming, ZANG Chunrong, CHEN Changsong. Study on Soil Selenium Content and Its Influencing Factors in Typical Tea Garden of Fujian Province [J]. Journal of Tea Science, 2020, 40(2): 173-185.
[14]	LIU Zhen, CHENG Yang, YANG Peidi, ZHAO Yang, NING Jing, YANG Yang. Genetic Diversity and Structure of Chengbudong Tea Population Revealed by nSSR and cpDNA Markers [J]. Journal of Tea Science, 2020, 40(2): 250-258.
[15]	FAN Zhanhui, TANG Xiaojun, ZHENG Dan, YANG Qin, CHEN Guangnian, LI Xiaowen, SUN Jiabin. Study and Prospect of Soil Acidification Causes and Improvement Measures in Tea Plantation [J]. Journal of Tea Science, 2020, 40(1): 15-25.