Znf750 interacts with KLF4 and RCOR1, KDM1A, And CTBP1/2 chromatin regulators to repress epidermal progenitor genes and induce differentiation genes

Genes and Development

Volumn 28, Issue 18, 2014, Pages 2013-2026

  Boxer, Lisa D ^a,b   Barajas, Brook ^a   Tao, Shiying ^a   Zhang, Jiajing ^a   Khavari, Paul A ^a,c  

^a STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b STANFORD UNIVERSITY   (United States)

^c VA PALO ALTO HEALTH CARE SYSTEM   (United States)

Author keywords

Chromatin regulator; Differentiation; KLF4; Stem cell; ZNF750

Indexed keywords

CARRIER PROTEINS AND BINDING PROTEINS; CTBP1 PROTEIN; CTBP2 PROTEIN; KDM1A PROTEIN; KRUPPEL LIKE FACTOR 4; PEPTIDES AND PROTEINS; RCOR1 PROTEIN; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; ZNF750 PROTEIN; ALCOHOL DEHYDROGENASE; C TERMINAL BINDING PROTEIN; C-TERMINAL BINDING PROTEIN; CHROMATIN REGULATOR; CTBP2 PROTEIN, HUMAN; DNA BINDING PROTEIN; HISTONE DEMETHYLASE; KDM1A PROTEIN, HUMAN; KRUPPEL LIKE FACTOR; NERVE PROTEIN; RCOR1 PROTEIN, HUMAN; REPRESSOR PROTEIN; ZNF750 PROTEIN, HUMAN;

ARTICLE; CHROMATIN; CHROMATIN IMMUNOPRECIPITATION; DNA BINDING; GENE MUTATION; HOMEOSTASIS AND REGULATION; NEOPLASM; PROTEIN LOCALIZATION; PROTEIN MOTIF; PROTEIN PROTEIN INTERACTION; PSORIASIS; CELL CULTURE; CELL DIFFERENTIATION; CHROMOSOME MAP; CYTOLOGY; DIFFERENTIATION; GENE EXPRESSION REGULATION; GENETICS; HEK293 CELL LINE; HUMAN; KERATINOCYTE; METABOLISM; PROTEIN BINDING; STEM CELL; ZNF750;

CHROMATIN REGULATOR; DIFFERENTIATION; KLF4; STEM CELL; ZNF750;

ALCOHOL OXIDOREDUCTASES; AMINO ACID MOTIFS; CELL DIFFERENTIATION; CELLS, CULTURED; CHROMOSOME MAPPING; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION, DEVELOPMENTAL; HEK293 CELLS; HISTONE DEMETHYLASES; HUMANS; KERATINOCYTES; KRUPPEL-LIKE TRANSCRIPTION FACTORS; NERVE TISSUE PROTEINS; PROTEIN BINDING; REPRESSOR PROTEINS; STEM CELLS; TRANSCRIPTION FACTORS;

EID: 84907155418     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.246579.114     Document Type: Article

References (42)

1. Abrajano JJ, Qureshi IA, Gokhan S, Molero AE, Zheng D, Bergman A, Mehler MF. 2010. Corepressor for element-1-silencing transcription factor preferentially mediates gene networks underlying neural stem cell fate decisions. Proc Natl Acad Sci 107: 16685-16690.
2. Bao X, Tang J, Lopez-Pajares V, Tao S, Qu K, Crabtree GR, Khavari PA. 2013. ACTL6a enforces the epidermal progenitor state by suppressing SWI/SNF-dependent induction of KLF4. Cell Stem Cell 12: 193-203.
3. Bardet AF, He Q, Zeitlinger J, Stark A. 2012. A computational pipeline for comparative ChIP-seq analyses. Nat Protoc 7: 45-61.
4. Birnbaum RY, Zvulunov A, Hallel-Halevy D, Cagnano E, Finer G, Ofir R, Geiger D, Silberstein E, Feferman Y, Birk OS. 2006. Seborrhea-like dermatitis with psoriasiform elements caused by a mutation in ZNF750, encoding a putative C2H2 zinc finger protein. Nat Genet 38: 749-751.
5. Birnbaum RY, Hayashi G, Cohen I, Poon A, Chen H, Lam ET, Kwok P-Y, Birk OS, Liao W. 2011. Association analysis identifies ZNF750 regulatory variants in psoriasis. BMC Med Genet 12: 167.
6. Boyer LA, Lee TI, Cole MF, Johnstone SE, Levine SS, Zucker JP, Guenther MG, Kumar RM, Murray HL, Jenner RG, et al. 2005. Core transcriptional regulatory circuitry in human embryonic stem cells. Cell 122: 947-956.
7. Chen X, Xu H, Yuan P, Fang F, Huss M, Vega VB, Wong E, Orlov YL, Zhang W, Jiang J, et al. 2008. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 133: 1106-1117.
8. Choi H, Larsen B, Lin Z-Y, Breitkreutz A, Mellacheruvu D, Fermin D, Qin ZS, Tyers M, Gingras A-C, Nesvizhskii AI. 2011. SAINT: probabilistic scoring of affinity purificationmass spectrometry data. Nat Methods 8: 70-73.
9. The ENCODE Project Consortium. 2012. An integrated encyclopedia of DNA elements in the human genome. Nature 489: 57-74.
10. Evans PM, Zhang W, Chen X, Yang J, Bhakat KK, Liu C. 2007. Kruppel-like factor 4 is acetylated by p300 and regulates gene transcription via modulation of histone acetylation. J Biol Chem 282: 33994-34002.
11. Fang M, Li J, Blauwkamp T, Bhambhani C, Campbell N, Cadigan KM. 2006. C-terminal-binding protein directly activates and represses Wnt transcriptional targets in Drosophila. EMBO J 25: 2735-2745.
12. Feinberg MW, Wara AK, Cao Z, Lebedeva MA, Rosenbauer F, Iwasaki H, Hirai H, Katz JP, Haspel RL, Gray S, et al. 2007. The Kruppel-like factor KLF4 is a critical regulator of monocyte differentiation. EMBO J 26: 4138-4148.
13. Geiman DE, Ton-That H, Johnson JM, Yang VW. 2000. Transactivation and growth suppression by the gut-enriched Kr€uppel-like factor (Krüppel-like factor 4) are dependent on acidic amino acid residues and protein-protein interaction. Nucleic Acids Res 28: 1106-1113.
14. Hopkin AS, Gordon W, Klein RH, Espitia F, Daily K, Zeller M, Baldi P, Andersen B. 2012. GRHL3/GET1 and trithorax group members collaborate to activate the epidermal progenitor differentiation program. PLoS Genet 8: e1002829.
15. Indra AK, Dupé V, Bornert J-M, Messaddeq N, Yaniv M, Mark M, Chambon P, Metzger D. 2005. Temporally controlled targeted somatic mutagenesis in embryonic surface ectoderm and fetal epidermal keratinocytes unveils two distinct developmental functions of BRG1 in limb morphogenesis and skin barrier formation. Development 132: 4533-4544.
16. Jiang J, Chan Y-S, Loh Y-H, Cai J, Tong G-Q, Lim C-A, Robson P, Zhong S, Ng H-H. 2008. A core Klf circuitry regulates selfrenewal of embryonic stem cells. Nat Cell Biol 10: 353-360.
17. Jin W, Scotto KW, Hait WN, Yang J-M. 2007. Involvement of CtBP1 in the transcriptional activation of the MDR1 gene in human multidrug resistant cancer cells. Biochem Pharmacol 74: 851-859.
18. Katz JP, Perreault N, Goldstein BG, Lee CS, Labosky PA, Yang VW, Kaestner KH. 2002. The zinc-finger transcription factor Klf4 is required for terminal differentiation of goblet cells in the colon. Development 129: 2619-2628.
19. Kretz M, Webster DE, Flockhart RJ, Lee CS, Zehnder A, Lopez-Pajares V, Qu K, Zheng GXY, Chow J, Kim GE, et al. 2012. Suppression of progenitor differentiation requires the long noncoding RNA ANCR. Genes Dev 26: 338-343.
20. Lee MG, Wynder C, Cooch N, Shiekhattar R. 2005. An essential role for CoREST in nucleosomal histone 3 lysine 4 demethylation. Nature 437: 432-435.
21. Li HX, Han M, Bernier M, Zheng B, Sun SG, Su M, Zhang R, Fu JR, Wen JK. 2010. Kruppel-like Factor 4 promotes differentiation by transforming growth factor-receptor-mediated Smad and p38 MAPK signaling in vascular smooth muscle cells. J Biol Chem 285: 17846-17856.
22. Lin Y, Wu Y, Li J, Dong C, Ye X, Chi Y-I, Evers BM, Zhou BP. 2010. The SNAG domain of Snail1 functions as a molecular hook for recruiting lysine-specific demethylase 1. EMBO J 29: 1803-1816.
23. Lin D-C, Hao J-J, Nagata Y, Xu L, Shang L, Meng X, Sato Y, Okuno Y, Varela AM, Ding L-W, et al. 2014. Genomic and molecular characterization of esophageal squamous cell carcinoma. Nat Genet 46: 467-473.
24. Liu G, Zheng H, Ai W. 2009. C-terminal binding proteins (CtBPs) attenuate KLF4-mediated transcriptional activation. FEBS Lett 583: 3127-3132.
25. Mellacheruvu D, Wright Z, Couzens AL, Lambert J-P, St-Denis NA, Li T, Miteva YV, Hauri S, Sardiu ME, Low TY, et al. 2013. The CRAPome: a contaminant repository for affinity purificationmass spectrometry data. Nat Methods 10: 730-736.
26. Paliwal S, Ho N, Parker D, Grossman SR. 2012. CtBP2 promotes human cancer cell migration by transcriptional activation of Tiam1. Genes Cancer 3: 481-490.
27. Patel S, Xi ZF, Seo EY, McGaughey D, Segre JA. 2006. Klf4 and corticosteroids activate an overlapping set of transcriptional targets to accelerate in utero epidermal barrier acquisition. Proc Natl Acad Sci 103: 18668-18673.
28. Postigo AA, Dean DC. 1999. ZEB represses transcription through interaction with the corepressor CtBP. Proc Natl Acad Sci 96: 6683-6688.
29. Quinlan KGR, Nardini M, Verger A, Francescato P, Yaswen P, Corda D, Bolognesi M, Crossley M. 2006. Specific recognition of ZNF217 and other zinc finger proteins at a surface groove of C-terminal binding proteins. Mol Cell Biol 26: 8159-8172.
30. Rinn JL, Huarte M. 2011. To repress or not to repress: this is the guardian’s question. Trends Cell Biol 21: 344-353.
31. Segre JA, Bauer C, Fuchs E. 1999. Klf4 is a transcription factor required for establishing the barrier function of the skin. Nat Genet 22: 356-360.
32. Sen GL, Webster DE, Barragan DI, Chang HY, Khavari PA. 2008. Control of differentiation in a self-renewing mammalian tissue by the histone demethylase JMJD3. Genes Dev 22: 1865-1870.
33. Sen GL, Boxer LD, Webster DE, Bussat RT, Qu K, Zarnegar BJ, Johnston D, Siprashvili Z, Khavari PA. 2012. ZNF750 is a p63 target gene that induces KLF4 to drive terminal epidermal differentiation. Dev Cell 22: 669-677.
34. Shi Y, Sawada J-I, Sui G, Affar EB, Whetstine JR, Lan F, Ogawa H, Luke MP-S, Nakatani Y, Shi Y. 2003. Coordinated histone modifications mediated by a CtBP co-repressor complex. Nature 422: 735-738.
35. Shi Y, Lan F, Matson C, Mulligan P, Whetstine JR, Cole PA, Casero RA, Shi Y. 2004. Histone demethylation mediated by the nuclear amine oxidase homolog LSD1. Cell 119: 941-953.
36. Soufi A, Donahue G, Zaret KS. 2012. Facilitators and impediments of the pluripotency reprogramming factors’ initial engagement with the genome. Cell 151: 994-1004.
37. Takahashi K, Yamanaka S. 2006. Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126: 663-676.
38. Teng A, Nair M, Wells J, Segre JA, Dai X. 2007. Strain-dependent perinatal lethality of Ovol1-deficient mice and identification of Ovol2 as a downstream target of Ovol1 in skin epidermis. Biochimica et Biophysica Acta 1772: 89-95.
39. Trinkle-Mulcahy L, Boulon S, Lam YW, Urcia R, Boisvert F-M, Vandermoere F, Morrice NA, Swift S, Rothbauer U, Leonhardt H, et al. 2008. Identifying specific protein interaction partners using quantitative mass spectrometry and bead proteomes. J Cell Biol 183: 223-239.
40. Yang C-F, Hwu W-L, Yang L-C, Chung W-H, Chien Y-H, Hung C-F, Chen H-C, Tsai P-J, Fann CSJ, Liao F, et al. 2008. A promoter sequence variant of ZNF750 is linked with familial psoriasis. J Invest Dermatol 128: 1662-1668.
41. You A, Tong JK, Grozinger CM, Schreiber SL. 2001. CoREST is an integral component of the CoREST-human histone deacetylase complex. Proc Natl Acad Sci 98: 1454-1458.
42. Yu Z, Lin KK, Bhandari A, Spencer JA, Xu X, Wang N, Lu Z, Gill GN, Roop DR, Wertz P, et al. 2006. The Grainyhead-like epithelial transactivator Get-1/Grhl3 regulates epidermal terminal differentiation and interacts functionally with LMO4. Dev Biol 299: 122-136.