- Open Access
Induction of human fetal hemoglobin expression by adenosine-2’,3’-dialdehyde
Journal of Translational Medicine volume 11, Article number: 14 (2013)
Pharmacologic reactivation of fetal hemoglobin expression is a promising strategy for treatment of sickle cell disease and β-thalassemia. The objective of this study was to investigate the effect of the methyl transferase inhibitor adenosine-2’,3’-dialdehyde (Adox) on induction of human fetal hemoglobin (HbF) in K562 cells and human hematopoietic progenitor cells.
Expression levels of human fetal hemoglobin were assessed by northern blot analysis and Real-time PCR. HbF and adult hemoglobin (HbA) content were analyzed using high-performance liquid chromatography (HPLC). DNA methylation levels on human gamma-globin gene promoters were determined using Bisulfite sequence analysis. Enrichment of histone marks on genes was assessed by chromosome immunoprecipitation (ChIP).
Adox induced γ-globin gene expression in both K562 cells and in human bone marrow erythroid progenitor cells through a mechanism potentially involving inhibition of protein arginine methyltransferase 5 (PRMT5).
The ability of methyl transferase inhibitors such as Adox to efficiently reactivate fetal hemoglobin expression suggests that these agents may provide a means of reactivating fetal globin expression as a therapeutic option for treating sickle cell disease and β-thalassemia.
Human globin genes undergo two switches during development, from embryonic (ε) to fetal (γ) and from fetal (γ) to adult (β) globin . Reactivation of fetal hemoglobin (HbF) in adults is one of the most effective strategies for treatment of sickle cell disease and β-thalassemia as increased fetal globin levels are associated with improved symptoms in hemoglobinopathy patients .
To date, compounds such as 5-aza-2-deoxycytidine (decitabine) , hydroxyurea (HU) , short-chain fatty acids (SCFAs) , and histone deacetylase (HDAC) inhibitors , have been used to increase HbF, although their effects are variable. However, the mechanism of action is not clear and remains controversial .
In previous studies, we determined that protein arginine methyltransferase 5 (PRMT5) coupled with Dnmt3a and related complexes played a critical role in human fetal globin gene repression [7, 8]. In this report, we have found that treatment with adenosine-2’,3’-dialdehyde (Adox), a methyltransferase inhibitor [9, 10], can induce fetal hemoglobin gene transcription in adult human bone marrow erythroid progenitor cells. This activity of Adox may be associated with inhibition of PRMT5.
Cell culture and reagents
K562 cells were cultured as described previously . To generate human bone marrow (BM) erythroid progenitor cells, isolated CD34+ cells were grown in StemSpan SFEM medium with 1X CC100 cytokine mix for 6 days, then reseeded into the same medium supplemented with SCF (20 ng/ml), EPO (1 U/ml), IL-3 (5 ng/ml), dexamethasone (2 μM), and β-estradiol (1 μM), and cultured for two more weeks . Cell surface marker analysis with CD71 and Glycophorin A indicated that the cultured cells were greater than 90% erythroid lineage. Human BM cells were collected under approval by the Melbourne Health Human Research Ethics Committee.
A 25 mM stock solution of adenosine-2’,3’-dialdehyde (Adox, Sigma) was prepared in 0.04 M HCl. Decitabine (Sigma) was prepared in phosphate-buffered saline (PBS). Working solutions of both reagents were prepared by dilution in PBS immediately prior to use.
Benzidine staining, Northern Blot, and DNA methylation analysis
K562 cells were treated with Adox (2.5 μM) for 2 days and washed twice with ice-cold phosphate-buffered saline. The cell pellets were then resuspended in ice-cold phosphate-buffered saline. Benzidine solution (0.1% 3,3’-diaminobenzidine containing hydrogen peroxide) was added at room temperature. Benzidine-positive cells were spun onto a glass plate, examined by light microscopy and photographed. Northern blot analysis of K562 cells was performed as described previously . Bisulfite sequence analysis was performed as described previously . PCR was performed with HiFi Taq polymerase (Roche) as follows: 30 cycles, 94°C for 20 s, 55°C for 20 s, and 68°C for 35 s. PCR products were cloned into pCRII (Invitrogen) followed by nucleotide sequencing using the Big-Dye Termination method (ABI). At lease 40 clones were sequenced for each CpG site.
ChIP assays were performed as described previously . H4R3me2s and histone H4 acetylation antibodies were purchased from Abcam. Each experiment was performed independently at least twice. The ChIP samples were analyzed by quantitative real-time PCR using FastStart Universal SYBR Green Master (Roche). A standard curve was prepared for the primers using serial titration of the input DNA. The percentage of ChIP DNA was calculated relative to the input DNA from primer-specific standard curves using Rotor-Gene 6000 Series Software 1.7.
Quantitative RT-PCR (Q-RT-PCR)
Total RNA was isolated from cells with Trizol reagent (Invitrogen). cDNA was generated using a reverse transcription system (Promega). The identities of the amplified bands were confirmed by sequencing. The PCR conditions and primers were described previously , and all samples were run in triplicate.
For bone marrow samples, plasmid DNA encoding γ-globin, β-globin or α-globin was used to generate the standard curve for determination of copy number. The number of molecules per nanogram total RNA from bone marrow cells was calculated from standard curves using Rotor-Gene 6000 Series Software 1.7.
HPLC for adult and fetal hemoglobin
Aliquots of one million cells were washed in phosphate-buffered saline. The pellets were lysed by repeated freeze-thaw. The supernatant was analyzed for HbF and adult hemoglobin (HbA) content by ion-exchange high-performance liquid chromatography (HPLC) using a Bio-Rad VARIANT β-thalassemia Short Program.
Results and discussion
In order to test the effect of Adox to induce γ-globin, K562 cells were treated and showed a dose response effect on activation (Figure 1A). Next, we performed a time-course analysis of γ-globin induction by Adox. We found that from day 2 γ-globin expression was readily detected, but after day 6, induction stopped (Figure 1B). This result suggested that Adox could induce γ-globin very quick and it could also be metabolized during cell proliferation. Adox also induced a dose-dependent inhibition of in vitro proliferation of K562 cells,similar to the effect of decitabine (Figure 1C) . Benzidine staining of K562 cells also showed activation effect of Adox on γ-globin (Figure 1D). Q-RT-PCR analysis further confirmed a 9-fold induction of γ-globin gene expression by Adox compared to the control (Figure 1E).
In keeping with previous results, the levels of histone mark H4R3me2s on the γ-globin promoter triggered by PRMT5 were significantly reduced in Adox-treated cells compared to untreated cells (Figure 2A). PRMT5 inhibition by Adox treatment followed a dose response (Figure 2B) that occurred over the same drug concentration range as γ-globin induction (Figure 1A).
DNA methylation has been shown to be important in regulation of globin gene expression. Because Adox can inhibit both DNA methylation and protein methylation including histone tail methylation, we performed bisulfite DNA sequencing experiments on globin genes. Using decitabine as a positive control, we found that Adox significantly reduced DNA methylation (Figure 2C). Together these results suggested that Adox was a potent inducer of γ-globin expression in K562 cells.
Next, in order to probe the effect of Adox on human primary erythroid cells, we isolated human bone marrow CD34+ cells and cultured them under optimal conditions for erythroid cell differentiation . We treated human bone marrow cells (BM) with Adox and decitabine (both refreshed twice a week). Total RNA from these cells was isolated and analyzed by Q-RT-PCR. Adox treatment produced a dose–response effect on γ-globin gene expression (Figure 3A). We also confirmed the effect of decitabine on induction of γ-globin gene expression (Figure 3A). We observed that at 20 μM Adox, γ-globin was maximally induced 4-fold relative to the control. No morphological differences of cells were observed during differentiation of Adox treated cells, suggesting that Adox may not perturb overall erythroid differentiation process (Figure 3B). Using HPLC analysis, we confirmed that in human adult bone marrow cells, Adox reactivated HbF to 8.6%, which was 2.7-fold relative to the control, whereas decitabine reactivated HbF to 5.1%, which was 1.6-fold relative to the control (Figure 3C). The α-globin and β-globin of BM cells showed no induction in the presence of either Adox or decitabine (Figure 3D, 3E&3F). Consistent with these results, by ChIP analysis the levels of histone mark H4R3me2s on the γ-globin promoter were greatly reduced in Adox-treated or decitabine-treated BM cells compared to control-treated cells (Figure 4A), but not on CDH1 promoter , indicating specificity of Adox for γ-globin gene (Figure 4B). In keeping with this, histone H4 acetylation on the γ-globin promoter was also markedly increased in Adox-treated BM cells compared to the control (Figure 4C). Interestingly, DNA methylation of the γ-globin gene in these BM cells was also reduced, but not as significantly as in Adox-treated K562 cells (Figure 2C & 4D). These results suggested that inhibition of histone methylation (H4R3me2s) might be more important than reduction of DNA methylation for inducing fetal globin expression in human bone marrow cells.
Adox is an odorless methyltransferase inhibitor that functions through a feedback loop . Adox can inhibit adenosylhomocysteine hydrolase activity thereby indirectly inhibiting methyltransferases that catalyze adenosylmethionine to adenosylhomocysteine . Mice can tolerate Adox at 100 μmol/kg without any ill-effect [16, 17]. Compared to DNA methylation inhibitors such as decitabine, Adox appears to function as an inhibitor of both DNA methylation and protein methylation. It is unclear how this compares to decitabine because we currently do not know the exact mechanism by which decitabine induces γ-globin expression .
DNA methylation plays a critical role in modulation of globin gene expression. Inhibitors of DNA methylation or histone deacetylation, such as decitabine and butyrate, have been shown to induce HbF [19, 20]. Compared to treatment of K562 cells, treatment of human BM cells with Adox triggered less reduction in methylation at the γ-globin gene, although there was more significant demethylation beyond the transcription initiation site (TIS) at CpG −53 and −50 (Figure 4D). This is similar to results obtained by 5-Azacytidine treatment . The fact that immortalized K562 cells resemble embryonic erythroid progenitors without expression of adult hemoglobin may contribute to this difference. Also, hypermethylation of the γ-globin promoter in BM cells may result in different requirements of Adox concentrations for inducing γ-globin expression in K562 and BM cells. Nevertheless, in this context, DNA hypomethylation produced by Adox treatment may not be a major event or direct trigger in the reactivation of γ-globin expression in human BM cells. Histone modification or repressor complex (e.g. NURD complex) reconstitution which might trigger histone modification changes may contribute to the γ-globin gene reactivation [21–23]. Alternatively, we cannot exclude the possibility that different erythroid specific transcription factors play roles upon γ-globin induction by Adox treatment [24, 25].
Histone methylation at H3K9, H3K27, H4K20, or symmetric methylation at H4R3 is normally associated with repression of transcription [26, 27]. We have previously demonstrated that histone H4R3me2s is an early histone mark induced by PRMT5 that can coordinately induce other histone methylation events such as H4K20me3, H3K9me3, H3K27me3, and deacetylation of histones . In the current results, in human bone marrow cells, Adox induced γ-globin expression independent of significant hypomethylation of the gene. This suggests that histone methylation, such as H4R3me2s, may play a more critical role in regulation of globin genes.
Our current studies indicat that Adox reactivates fetal hemoglobin expression efficiently. We speculate that reactivation of fetal globin by Adox may be through a mechanism involving inhibition of PRMT5 in both K562 and human bone marrow erythroid progenitor cells. These findings may contribute to the development of new reagents for reactivating fetal globin expression as a treatment for sickle cell disease and β-thalassemia.
Stamatoyannopoulos G: Control of globin gene expression during development and erythroid differentiation. Exp Hematol. 2005, 33: 259-271. 10.1016/j.exphem.2004.11.007.
Perrine SP: Fetal globin stimulant therapies in the beta-hemoglobinopathies: principles and current potential. Pediatr Ann. 2008, 37: 339-346.
DeSimone J, Koshy M, Dorn L, Lavelle D, Bressler L, Molokie R, Talischy N: Maintenance of elevated fetal hemoglobin levels by decitabine during dose interval treatment of sickle cell anemia. Blood. 2002, 99: 3905-3908. 10.1182/blood.V99.11.3905.
Charache S, Terrin ML, Moore RD, Dover GJ, Barton FB, Eckert SV, McMahon RP, Bonds DR: Effect of hydroxyurea on the frequency of painful crises in sickle cell anemia. Investigators of the Multicenter Study of Hydroxyurea in Sickle Cell Anemia. N Engl J Med. 1995, 332: 1317-1322. 10.1056/NEJM199505183322001.
Pace BS, White GL, Dover GJ, Boosalis MS, Faller DV, Perrine SP: Short-chain fatty acid derivatives induce fetal globin expression and erythropoiesis in vivo. Blood. 2002, 100: 4640-4648. 10.1182/blood-2002-02-0353.
Cao H, Stamatoyannopoulos G, Jung M: Induction of human gamma globin gene expression by histone deacetylase inhibitors. Blood. 2004, 103: 701-709. 10.1182/blood-2003-02-0478.
Zhao Q, Rank G, Tan YT, Li H, Moritz RL, Simpson RJ, Cerruti L, Curtis DJ, Patel DJ, Allis CD: PRMT5-mediated methylation of histone H4R3 recruits DNMT3A, coupling histone and DNA methylation in gene silencing. Nat Struct Mol Biol. 2009, 16: 304-311. 10.1038/nsmb.1568.
Rank G, Cerruti L, Simpson RJ, Moritz RL, Jane SM, Zhao Q: Identification of a PRMT5-dependent repressor complex linked to silencing of human fetal globin gene expression. Blood. 2010, 116: 1585-1592. 10.1182/blood-2009-10-251116.
Kwak YT, Guo J, Prajapati S, Park KJ, Surabhi RM, Miller B, Gehrig P, Gaynor RB: Methylation of SPT5 regulates its interaction with RNA polymerase II and transcriptional elongation properties. Mol Cell. 2003, 11: 1055-1066. 10.1016/S1097-2765(03)00101-1.
Bruns AF, Grothe C, Claus P: Fibroblast growth factor 2 (FGF-2) is a novel substrate for arginine methylation by PRMT5. Biol Chem. 2009, 390: 59-65.
Sankaran VG, Menne TF, Xu J, Akie TE, Lettre G, Van Handel B, Mikkola HK, Hirschhorn JN, Cantor AB, Orkin SH: Human fetal hemoglobin expression is regulated by the developmental stage-specific repressor BCL11A. Science. 2008, 322: 1839-1842. 10.1126/science.1165409.
Zhao Q, Zhou W, Rank G, Sutton R, Wang X, Cumming H, Cerruti L, Cunningham JM, Jane SM: Repression of human gamma-globin gene expression by a short isoform of the NF-E4 protein is associated with loss of NF-E2 and RNA polymerase II recruitment to the promoter. Blood. 2006, 107: 2138-2145. 10.1182/blood-2005-06-2497.
Wyczechowska D, Fabianowska-Majewska K: The effects of cladribine and fludarabine on DNA methylation in K562 cells. Biochem Pharmacol. 2003, 65: 219-225. 10.1016/S0006-2952(02)01486-7.
Hou Z, Peng H, Ayyanathan K, Yan KP, Langer EM, Longmore GD, Rauscher FJ: 3rd: The LIM protein AJUBA recruits protein arginine methyltransferase 5 to mediate SNAIL-dependent transcriptional repression. Mol Cell Biol. 2008, 28: 3198-3207. 10.1128/MCB.01435-07.
Hermes M, Osswald H, Kloor D: Role of S-adenosylhomocysteine hydrolase in adenosine-induced apoptosis in HepG2 cells. Exp Cell Res. 2007, 313: 264-283. 10.1016/j.yexcr.2006.10.003.
Hoffman JL: The rate of transmethylation in mouse liver as measured by trapping S-adenosylhomocysteine. Arch Biochem Biophys. 1980, 205: 132-135. 10.1016/0003-9861(80)90091-0.
Marafante E, Vahter M: The effect of methyltransferase inhibition on the metabolism of [74As]arsenite in mice and rabbits. Chem Biol Interact. 1984, 50: 49-57. 10.1016/0009-2797(84)90131-5.
Mabaera R, Greene MR, Richardson CA, Conine SJ, Kozul CD, Lowrey CH: Neither DNA hypomethylation nor changes in the kinetics of erythroid differentiation explain 5-azacytidine’s ability to induce human fetal hemoglobin. Blood. 2008, 111: 411-420. 10.1182/blood-2007-06-093948.
Lavelle D, Vaitkus K, Hankewych M, Singh M, DeSimone J: Effect of 5-aza-2’-deoxycytidine (Dacogen) on covalent histone modifications of chromatin associated with the epsilon-, gamma-, and beta-globin promoters in Papio anubis. Exp Hematol. 2006, 34: 339-347. 10.1016/j.exphem.2005.12.010.
Fathallah H, Weinberg RS, Galperin Y, Sutton M, Atweh GF: Role of epigenetic modifications in normal globin gene regulation and butyrate-mediated induction of fetal hemoglobin. Blood. 2007, 110: 3391-3397. 10.1182/blood-2007-02-076091.
Rupon JW, Wang SZ, Gaensler K, Lloyd J, Ginder GD: Methyl binding domain protein 2 mediates gamma-globin gene silencing in adult human betaYAC transgenic mice. Proc Natl Acad Sci USA. 2006, 103: 6617-6622. 10.1073/pnas.0509322103.
Chin J, Singh M, Banzon V, Vaitkus K, Ibanez V, Kouznetsova T, Mahmud N, DeSimone J, Lavelle D: Transcriptional activation of the gamma-globin gene in baboons treated with decitabine and in cultured erythroid progenitor cells involves different mechanisms. Exp Hematol. 2009, 37: 1131-1142. 10.1016/j.exphem.2009.06.007.
Bauer DE, Orkin SH: Update on fetal hemoglobin gene regulation in hemoglobinopathies. Curr Opin Pediatr. 2011, 23: 1-8. 10.1097/MOP.0b013e3283420fd0.
Sankaran VG, Xu J, Ragoczy T, Ippolito GC, Walkley CR, Maika SD, Fujiwara Y, Ito M, Groudine M, Bender MA: Developmental and species-divergent globin switching are driven by BCL11A. Nature. 2009, 460: 1093-1097. 10.1038/nature08243.
Zhou D, Liu K, Sun CW, Pawlik KM, Townes TM: KLF1 regulates BCL11A expression and gamma- to beta-globin gene switching. Nat Genet. 2010, 42: 742-744. 10.1038/ng.637.
Ruthenburg AJ, Li H, Patel DJ, Allis CD: Multivalent engagement of chromatin modifications by linked binding modules. Nat Rev Mol Cell Biol. 2007, 8: 983-994. 10.1038/nrm2298.
Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, Wang Z, Wei G, Chepelev I, Zhao K: High-resolution profiling of histone methylations in the human genome. Cell. 2007, 129: 823-837. 10.1016/j.cell.2007.05.009.
We are grateful to members of the Jane and Zhao laboratories for helpful discussions. This work was supported by National Natural Science Foundation of China NSFC#31071118, NSFC#31170716, NSFC#81121062, BK2011052, NSFC#30270811 (QZ), NSFC#81060248 (YH), the Fundamental Research Funds for the Central Universities, and the Doctoral Program of Higher Education of China RFDP#20090091110033, The Cooley’s Anemia Foundation (QZ), and The National Health and Medical Research Council of Australia (SMJ).
The authors declare that they have no competing interests.
YH, GR, and MZ carried out ChIP assays, Northern blot, DNA methylation analyses. JJ, RL, and ZX participated in cell staining, Q-RT-PCR, and Western blot experiments. FB, LC, CM, and RT helped with cell culture and HPLC experiments. SMJ and QZ designed, analyzed the research and wrote the manuscript. All authors read and approved the final manuscript.
Yinghong He, Gerhard Rank contributed equally to this work.