The histone H3K27 demethylase SlJMJ4 promotes dark- and ABA-induced leaf senescence in tomato

Xiaochun Ding , Dandan Zhang , Dachuan Gu , Zhiwei Li , Hanzhi Liang , Hong Zhu , Yueming Jiang , Xuewu Duan

Horticulture Research ›› 2022, Vol. 9 ›› Issue (1) : uhab077

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Horticulture Research ›› 2022, Vol. 9 ›› Issue (1) :uhab077 DOI: 10.1093/hr/uhab077
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The histone H3K27 demethylase SlJMJ4 promotes dark- and ABA-induced leaf senescence in tomato
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Abstract

Leaf senescence is a highly-programmed developmental process during the plant life cycle. ABA plays an important role in leaf senescence. However, the mechanism underlying ABA-mediated leaf senescence, particularly the upstream epigenetic regulatory network, remains largely unclear. Here, we demonstrated that SlJMJ4, a Jumonji C (jmjC) domain-containing protein in tomato (Solanum lycopersicum), specifically demethylates di- and trimethylations of lysine 27 of histone H3 (H3K27) in vitro and in vivo. Overexpression of SlJMJ4 results in a premature senescence phenotype and promotes dark- and ABA-induced leaf senescence in tomato. Under dark conditions, SlJMJ4-promoted leaf senescence is associated with upregulated expression of transcription factors (SlORE1 and SlNAP2) and senescence-associated genes (SlSAG113 and SlSAG12) via removal of H3K27me3. In response to ABA, overexpression of SlJMJ4 increases its binding at the loci of SlORE1, SlNAP2, SlSAG113, SlSAG12, SlABI5,and SlNCED3 and decreases their H3K27me3 levels,thereby activating their expression and mediating ABA-induced leaf senescence in tomato. Taken together, these results demonstrate that SlJMJ4 plays a positive role in leaf senescence in tomato and functions in ABA-induced leaf senescence by binding to many key genes related to ABA synthesis and signaling, transcription regulation, and senescence, thus promoting their H3K27me3 demethylation.

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Xiaochun Ding, Dandan Zhang, Dachuan Gu, Zhiwei Li, Hanzhi Liang, Hong Zhu, Yueming Jiang, Xuewu Duan. The histone H3K27 demethylase SlJMJ4 promotes dark- and ABA-induced leaf senescence in tomato. Horticulture Research, 2022, 9 (1) : uhab077 DOI:10.1093/hr/uhab077

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References

[1]

Fischer AM . The complex regulation of senescence. Crit Rev Plant Sci. 2012; 31: 124-47.

[2]

Penfold CA, Buchanan-Wollaston V . Modelling transcriptional networks in leaf senescence. J Exp Bot. 2014; 65: 3859-73.

[3]

Kim H, Kim HJ, Vu QT et al. Circadian control of ORE1 by PRR9 positively regulates leaf senescence in Arabidopsis . PNAS. 2018; 115: 8448-53.

[4]

Guo YF, Gan SS . AtNAP, a NAC family transcription factor, has an important role in leaf senescence. Plant J. 2006; 46: 601-12.

[5]

Besseau S, Li J, Palva ET . WRKY54 and WRKY70 co-operate as negative regulators of leaf senescence in Arabidopsis thaliana . J Exp Bot. 2012; 63: 2667-79.

[6]

Jaradat MR, Feurtado JA, Huang DQ et al. Multiple roles of the transcription factor AtMYBR1/AtMYB44 in ABA signaling, stress responses, and leaf senescence. BMC Plant Biol. 2013; 13: 192.

[7]

Wang TL, Wang S, Wang Y et al. Jasmonic acid-induced inhibition of root growth and leaf senescence is reduced by GmbHLH3, a soybean bHLH transcription factor. Can J Plant Sci. 2020; 100: 477-87.

[8]

Smykowski A, Fischer SM, Zentgraf U . Phosphorylation affects DNA-binding of the senescence-regulating bZIP transcription factor GBF1. Plants-Basel. 2016; 5: 691-709.

[9]

Licausi F, Ohme-Takagi M, Perata P . APETALA/ethylene responsive factor (AP2/ERF) transcription factors: mediators of stress responses and developmental programs. New Phytol. 2013; 199: 639-49.

[10]

Woo HR, Kim HJ, Lim PO, Nam HG . Leaf senescence: systems and dynamics aspects. Annu Rev Plant Biol. 2019; 70: 347-76.

[11]

Yuan L, Wang D, Cao L et al. Regulation of leaf longevity by DML3-mediated DNA demethylation. Mol Plant. 2020; 13: 1149-61.

[12]

Chen XS, Lu L, Mayer KS et al. Powerdress interacts with histone deacetylase 9 to promote aging in Arabidopsis. elife. 2016; 5: e17214.

[13]

Cho EJ, Choi SH, Kim JH et al. A mutation in plant-specific SWI2/SNF2-like chromatin-remodeling proteins, DRD1 and DDM1, delays leaf senescence in Arabidopsis thaliana . PLoS One. 2016; 11: e0146826.

[14]

Li CL, Gu L, Gao L et al. Concerted genomic targeting of H3K27 demethylase REF6 and chromatin-remodeling ATPase BRM in Arabidopsis. Nat Genet. 2016; 48: 687-93.

[15]

Liu CY, Lu FL, Cui X, Cao XF . Histone methylation in higher plants. Annu Rev Plant Biol. 2010; 61: 395-420.

[16]

Li Z, Ou Y, Zhang Z et al. Brassinosteroid signaling recruits histone 3 lysine-27 demethylation activity to FLOWERING LOCUS C chromatin to inhibit the floral transition in Arabidopsis. Mol Plant. 2018; 11: 1135-46.

[17]

Song QX, Huang T-Y, Yu HH et al. Diurnal regulation of SDG2 and JMJ14 by circadian clock oscillators orchestrates histone modification rhythms in Arabidopsis. Genome Biol. 2019; 20: 170.

[18]

Li ZW, Jiang G, Liu X et al. Histone demethylase SlJMJ6 promotes fruit ripening by removing H3K27 methylation of ripening-related genes in tomato. New Phytol. 2020; 227: 1138-56.

[19]

Huang SZ, Zhang A, Jin JB et al. Arabidopsis histone H3K4 demethylase JMJ17 functions in dehydration stress response. New Phytol. 2019; 223: 1372-87.

[20]

Wu JF, Yan M, Zhang D et al. Histone demethylases coordinate the antagonistic interaction between abscisic acid and brassinosteroid signaling in Arabidopsis. Front Plant Sci. 2020; 11: 596835.

[21]

Wang XL, Gao J, Gao S et al. The H3K27me3 demethylase REF6 promotes leaf senescence through directly activating major senescence regulatory and functional genes in Arabidopsis. PLoS Genet. 2019; 15: e1008068.

[22]

Liu P, Zhang S, Zhou B et al. The histone H3K4 demethylase JMJ16 represses leaf senescence in Arabidopsis. Plant Cell. 2019; 31: 430-43.

[23]

P, Yu S, Zhu N et al. Genome encode analyses reveal the basis of convergent evolution of fleshy fruit ripening. Nat Plants. 2018; 4: 784-91.

[24]

Keyzor C, Mermaz B, Trigazis E et al. Histone demethylases ELF6 and JMJ13 antagonistically regulate self-fertility in Arabidopsis. Front Plant Sci. 2021; 12: 640135.

[25]

Sun QW, Zhou DX . Rice jmjC domain-containing gene JMJ706 encodes H3K9 demethylase required for floral organ development. P Natl Acad Sci USA. 2008; 105: 13679-84.

[26]

Liebsch D, Keech O . Dark-induced leaf senescence: new insights into a complex light-dependent regulatory pathway. New Phytol. 2016; 212: 563-70.

[27]

Chen X, Hu Y, Zhou DX . Epigenetic gene regulation by plant Jumonji group of histone demethylase. Biochim Biophys Acta. 2011; 1809: 421-6.

[28]

Zhao Y, Chan Z, Gao J et al. ABA receptor PYL9 promotes drought resistance and leaf senescence. PNAS. 2016; 113: 1949-54.

[29]

Black JC, Van Rechem C, Whetstine JR . Histone lysine methylation dynamics: establishment, regulation, and biological impact. Mol Cell. 2012; 48: 491-507.

[30]

Cui X, Lu F, Qiu Q et al. REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis. Nat Genet. 2016; 48: 694-9.

[31]

Crevillén P, Yang H, Cui X et al. Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state. Nature. 2014; 515: 587-90.

[32]

Gan ES, Xu Y, Wong J-Y et al. Jumonji demethylases moderate precocious flowering at elevated temperature via regulation of FLC in Arabidopsis. Nat Commun. 2014; 5: 16.

[33]

Zheng SZ, Hu H, Ren H et al. The Arabidopsis H3K27me3 demethylase JUMONJI 13 is a temperature and photoperiod dependent flowering repressor. Nat Commun. 2019; 10: 1303.

[34]

Lu FL, Cui X, Zhang SB et al. Arabidopsis REF6 is a histone H3 lysine 27 demethylase. Nat Genet. 2011; 43: 715-9.

[35]

Yang HC, Howard M, Dean C . Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC. P Natl Acad Sci USA. 2016; 113: 9369-74.

[36]

Cheng SF, Tan F, Lu Y et al. WOX11 recruits a histone H3K27me3 demethylase to promote gene expression during shoot development in rice. Nucleic Acids Res. 2018; 46: 2356-69.

[37]

Kim J, Woo HR, Nam HG . Toward systems understanding of leaf senescence: an integrated multi-omics perspective on leaf senescence research. Mol Plant. 2016; 9: 813-25.

[38]

Liang C, Wang Y, Zhu Y et al. OsNAP connects abscisic acid and leaf senescence by fine-tuning abscisic acid biosynthesis and directly targeting senescence-associated genes in rice. PNAS. 2014; 111: 10013-8.

[39]

Guo YF, Gan SS . Convergence and divergence in gene expression profiles induced by leaf senescence and 27 senescence-promoting hormonal, pathological and environmental stress treatments. Plant Cell Environ. 2012; 35: 644-55.

[40]

Zentgraf U, Laun T, Miao Y . The complex regulation of WRKY53 during leaf senescence of Arabidopsis thaliana . Eur Biophys J Biophy. 2010; 89: 133-7.

[41]

Duan CG, Zhu JK, Cao XF . Retrospective and perspective of plant epigenetics in China. J Genet Genomics. 2018; 45: 621-38.

[42]

Ay N, Irmler K, Fischer A et al. Epigenetic programming via histone methylation at WRKY53 controls leaf senescence in Arabidopsis thaliana . Plant J. 2009; 58: 333-46.

[43]

Zhou Y, Wang Y, Krause K et al. Telobox motifs recruit CLF/SWN-PRC2 for H3K27me3 deposition via TRB factors in Arabidopsis. Nat Genet. 2018; 50: 638-44.

[44]

Chen K, Li GJ, Bressan RA et al. Abscisic acid dynamics, signaling, and functions in plants. J Integr Plant Biol. 2020; 62: 25-54.

[45]

Wang H, Liu C, Cheng J et al. Arabidopsis flower and embryo developmental genes are repressed in seedlings by different combinations of polycomb group proteins in association with distinct sets of cis-regulatory elements. PLoS Genet. 2016; 12: e1005771.

[46]

Song L, Huang S-SC, Wise A et al. A transcription factor hierarchy defines an environmental stress response network. Science. 2016; 354: aag1550.

[47]

Xiao J, Jin R, Yu X et al. Cis and trans determinants of epigenetic silencing by Polycomb repressive complex 2 in Arabidopsis. Nat Genet. 2017; 49: 1546-52.

[48]

Liu C, Cheng J, Zhuang Y et al. Polycomb repressive complex 2 attenuates ABA-induced senescence in Arabidopsis. Plant J. 2019; 97: 368-77.

[49]

Wang TJ, Huang S, Zhang A et al. JMJ17-WRKY40 and HY5-ABI5 modules regulate the expression of ABA-responsive genes in Arabidopsis. New Phytol. 2021; 230: 567-84.

[50]

Sakuraba Y, Jeong J, Kang M-Y et al. Phytochrome-interacting transcription factors PIF4 and PIF5 induce leaf senescence in Arabidopsis. Nat Commun. 2014; 5: 4636.

[51]

Matallana-Ramirez LP, Rauf M, Farage-Barhom S et al. NAC transcription factor ORE1 and senescence-induced BIFUNCTIONAL NUCLEASE1 (BFN1) constitute a regulatory cascade in Arabidopsis. Mol Plant. 2013; 6: 1438-52.

[52]

Ma XM, Zhang Y, Turečková V et al. The NAC transcription factor SlNAP2 regulates leaf senescence and fruit yield in tomato. Plant Physiol. 2018; 177: 1286-302.

[53]

Zhang SB, Zhou B, Kang Y et al. C-terminal domains of histone demethylase JMJ14 interact with a pair of NAC transcription factors to mediate specific chromatin association. Cell Discov. 2015; 1: 15003.

[54]

Morris JH, Wu A, Yamashita RA et al. cddApp: a Cytoscape app for accessing the NCBI conserved domain database. Bioinformatics. 2015; 31: 134-6.

[55]

Letunic I, Copley RR, Schmidt S et al. SMART 4.0: towards genomic data integration. Nucleic Acids Res. 2004; 32: 142-4.

[56]

Prakash A, Jeffryes M, Bateman A, Finn RD . The HMMER web server for protein sequence similarity search. Curr Protoc Bioinformatics. 2017; 60: 200-4.

[57]

Sievers F, Higgins DG . Clustal omega for making accurate alignments of many protein sequences. Protein Sci. 2018; 27: 135-45.

[58]

Stothard P. The sequence manipulation suite: JavaScript programs for analyzing and formatting protein and DNA sequences. BioTechniques. 2000; 28: 1102-4.

[59]

Yoo SD, Cho YH, Sheen J . Arabidopsis mesophyll protoplasts: a versatile cell system for transient gene expression analysis. Nat Protoc. 2007; 2: 1565-72.

[60]

Nelson JD, Denisenko O, Bomsztyk K . Protocol for the fast chromatin immunoprecipitation (ChIP) method. Nat Protoc. 2006; 1: 179-85.

[61]

Tan C-w, Huang W-j, Jin X-l et al. Monitoring the chlorophyll fluorescence parameter Fv/Fm in compact corn based on different hyperspectral vegetation indices . Spectrosc Spect Anal. 2012; 32: 1287-91.

[62]

Forcat S, Bennett MH, Mansfield JW, Grant MR . A rapid and robust method for simultaneously measuring changes in the phytohormones ABA, JA and SA in plants following biotic and abiotic stress. Plant Methods. 2008; 4: 16.

[63]

Yan J, Chen Q, Cui X et al. Ectopic overexpression of a membrane-tethered transcription factor gene NAC60 from oilseed rape positively modulates programmed cell death and age-triggered leaf senescence. Plant J. 2020; 105: 600-18.

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