Transcription factor interaction with COMPASS-like complex regulates histone H3K4 trimethylation for specific gene expression in plants

Proceedings of the National Academy of Sciences of the United States of America

Volumn 112, Issue 9, 2015, Pages 2900-2905

  Song, Ze Ting ^a   Sun, Le ^a   Lu, Sun Jie ^a   Tian, Yongke ^b   Ding, Yong ^b   Liu, Jian Xiang ^a  

^a FUDAN UNIVERSITY   (China)

^b UNIVERSITY OF SCIENCE AND TECHNOLOGY OF CHINA   (China)

Author keywords

COMPASS like; ER stress; H3K4 trimethylation; Transcription factor; Unfolded protein response

Indexed keywords

ASH2 PROTEIN; COMPASS LIKE COMPLEX; HISTONE H3; HISTONE METHYLTRANSFERASE; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; WDR5A PROTEIN; ZIP28 PROTEIN; ZIP60 PROTEIN; ARABIDOPSIS PROTEIN; BASIC LEUCINE ZIPPER TRANSCRIPTION FACTOR; BZIP28 PROTEIN, ARABIDOPSIS; BZIP60 PROTEIN, ARABIDOPSIS; CARRIER PROTEIN; HISTONE; MULTIPROTEIN COMPLEX; WDR5A PROTEIN, ARABIDOPSIS;

ARTICLE; ENDOPLASMIC RETICULUM STRESS; FLUORESCENCE; GENE EXPRESSION; IN VIVO STUDY; LOSS OF FUNCTION MUTATION; PLANT; PRIORITY JOURNAL; PROTEIN FOLDING; PROTEIN HOMEOSTASIS; TRANSCRIPTION ELONGATION; UPREGULATION; ARABIDOPSIS; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; METHYLATION; PHYSIOLOGY; PROMOTER REGION; TRANSCRIPTION INITIATION;

ARABIDOPSIS;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; BASIC-LEUCINE ZIPPER TRANSCRIPTION FACTORS; CARRIER PROTEINS; ENDOPLASMIC RETICULUM STRESS; GENE EXPRESSION REGULATION, PLANT; HISTONES; METHYLATION; MULTIPROTEIN COMPLEXES; PROMOTER REGIONS, GENETIC; TRANSCRIPTION INITIATION, GENETIC;

EID: 84924405435     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1419703112     Document Type: Article

References (44)

1. Bonasio R, Tu S, Reinberg D (2010) Molecular signals of epigenetic states. Science 330(6004):612-616
2. Strahl BD, Allis CD (2000) The language of covalent histone modifications. Nature 403(6765):41-45
3. Liu C, Lu F, Cui X, Cao X (2010) Histone methylation in higher plants. Annu Rev Plant Biol 61:395-420
4. Rea S, et al. (2000) Regulation of chromatin structure by site-specific histone H3 methyltransferases. Nature 406(6796):593-599
5. Williams SK, Truong D, Tyler JK (2008) Acetylation in the globular core of histone H3 on lysine-56 promotes chromatin disassembly during transcriptional activation. Proc Natl Acad Sci USA 105(26):9000-9005
6. Xu F, Zhang K, Grunstein M (2005) Acetylation in histone H3 globular domain regulates gene expression in yeast. Cell 121(3):375-385
7. Miller T, et al. (2001) COMPASS: A complex of proteins associated with a trithoraxrelated SET domain protein. Proc Natl Acad Sci USA 98(23):12902-12907
8. Shilatifard A (2008) Molecular implementation and physiological roles for histone H3 lysine 4 (H3K4) methylation. Curr Opin Cell Biol 20(3):341-348
9. Jiang D, Kong NC, Gu X, Li Z, He Y (2011) Arabidopsis COMPASS-like complexes mediate histone H3 lysine-4 trimethylation to control floral transition and plant development. PLoS Genet 7(3):e1001330
10. Ng HH, Robert F, Young RA, Struhl K (2003) Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity. Mol Cell 11(3):709-719
11. Wang P, et al. (2009) Global analysis of H3K4 methylation defines MLL family member targets and points to a role for MLL1-mediated H3K4 methylation in the regulation of transcriptional initiation by RNA polymerase II. Mol Cell Biol 29(22):6074-6085
12. Barski A, et al. (2007) High-resolution profiling of histone methylations in the human genome. Cell 129(4):823-837
13. Zhang X, Bernatavichute YV, Cokus S, Pellegrini M, Jacobsen SE (2009) Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana. Genome Biol 10(6):R62
14. Li X, et al. (2008) High-resolution mapping of epigenetic modifications of the rice genome uncovers interplay between DNA methylation, histone methylation, and gene expression. Plant Cell 20(2):259-276
15. Henikoff S, Shilatifard A (2011) Histone modification: Cause or cog? Trends Genet 27(10):389-396
16. Fromm M, Avramova Z (2014) ATX1/AtCOMPASS and the H3K4me3 marks: How do they activate Arabidopsis genes? Curr Opin Plant Biol 21:75-82
17. Jiang H, et al. (2011) Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains. Cell 144(4):513-525
18. Shilatifard A (2012) The COMPASS family of histone H3K4 methylases: Mechanisms of regulation in development and disease pathogenesis. Annu Rev Biochem 81:65-95
19. Ding Y, Avramova Z, Fromm M (2011) Two distinct roles of ARABIDOPSIS HOMOLOG OF TRITHORAX1 (ATX1) at promoters and within transcribed regions of ATX1-regulated genes. Plant Cell 23(1):350-363
20. Ding Y, et al. (2012) ATX1-generated H3K4me3 is required for efficient elongation of transcription, not initiation, at ATX1-regulated genes. PLoS Genet 8(12):e1003111
21. Lauberth SM, et al. (2013) H3K4me3 interactions with TAF3 regulate preinitiation complex assembly and selective gene activation. Cell 152(5):1021-1036
22. Vermeulen M, et al. (2007) Selective anchoring of TFIID to nucleosomes by trimethylation of histone H3 lysine 4. Cell 131(1):58-69
23. Tang Z, et al. (2013) SET1 and p300 act synergistically, through coupled histone modifications, in transcriptional activation by p53. Cell 154(2):297-310
24. Walter P, Ron D (2011) The unfolded protein response: From stress pathway to homeostatic regulation. Science 334(6059):1081-1086
25. Hetz C (2012) The unfolded protein response: Controlling cell fate decisions under ER stress and beyond. Nat Rev Mol Cell Biol 13(2):89-102
26. Liu JX, Howell SH (2010) Endoplasmic reticulum protein quality control and its relationship to environmental stress responses in plants. Plant Cell 22(9):2930-2942
27. Ron D, Walter P (2007) Signal integration in the endoplasmic reticulum unfolded protein response. Nat Rev Mol Cell Biol 8(7):519-529
28. Haze K, Yoshida H, Yanagi H, Yura T, Mori K (1999) Mammalian transcription factor ATF6 is synthesized as a transmembrane protein and activated by proteolysis in response to endoplasmic reticulum stress. Mol Biol Cell 10(11):3787-3799
29. Rüegsegger U, Leber JH, Walter P (2001) Block of HAC1 mRNA translation by longrange base pairing is released by cytoplasmic splicing upon induction of the unfolded protein response. Cell 107(1):103-114
30. Calfon M, et al. (2002) IRE1 couples endoplasmic reticulum load to secretory capacity by processing the XBP-1 mRNA. Nature 415(6867):92-96
31. Liu JX, Srivastava R, Che P, Howell SH (2007) An endoplasmic reticulum stress response in Arabidopsis is mediated by proteolytic processing and nuclear relocation of a membrane-associated transcription factor, bZIP28. Plant Cell 19(12):4111-4119
32. Iwata Y, Koizumi N (2005) An Arabidopsis transcription factor, AtbZIP60, regulates the endoplasmic reticulum stress response in a manner unique to plants. Proc Natl Acad Sci USA 102(14):5280-5285
33. Deng Y, et al. (2011) Heat induces the splicing by IRE1 of a mRNA encoding a transcription factor involved in the unfolded protein response in Arabidopsis. Proc Natl Acad Sci USA 108(17):7247-7252
34. Weake VM, Workman JL (2010) Inducible gene expression: Diverse regulatory mechanisms. Nat Rev Genet 11(6):426-437
35. Liu JX, Howell SH (2010) bZIP28 and NF-Y transcription factors are activated by ER stress and assemble into a transcriptional complex to regulate stress response genes in Arabidopsis. Plant Cell 22(3):782-796
36. Sun L, et al. (2013) The plant-specific transcription factor gene NAC103 is induced by bZIP60 through a new cis-regulatory element to modulate the unfolded protein response in Arabidopsis. Plant J 76(2):274-286
37. Iwata Y, Fedoroff NV, Koizumi N (2008) Arabidopsis bZIP60 is a proteolysis-activated transcription factor involved in the endoplasmic reticulum stress response. Plant Cell 20(11):3107-3121
38. Santos-Rosa H, et al. (2002) Active genes are tri-methylated at K4 of histone H3. Nature 419(6905):407-411
39. Bernstein BE, et al. (2002) Methylation of histone H3 Lys 4 in coding regions of active genes. Proc Natl Acad Sci USA 99(13):8695-8700
40. Schneider J, et al. (2005) Molecular regulation of histone H3 trimethylation by COMPASS and the regulation of gene expression. Mol Cell 19(6):849-856
41. Dou Y, et al. (2006) Regulation of MLL1 H3K4 methyltransferase activity by its core components. Nat Struct Mol Biol 13(8):713-719
42. Wysocka J, et al. (2005) WDR5 associates with histone H3 methylated at K4 and is essential for H3 K4 methylation and vertebrate development. Cell 121(6):859-872
43. Benveniste D, Sonntag HJ, Sanguinetti G, Sproul D (2014) Transcription factor binding predicts histone modifications in human cell lines. Proc Natl Acad Sci USA 111(37): 13367-13372
44. Adelman K, Lis JT (2012) Promoter-proximal pausing of RNA polymerase II: Emerging roles in metazoans. Nat Rev Genet 13(10):720-731.