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Struckman NE, de Jong RCM, Honders MW, Smith SAI, van der Lee DI, Koutsoumpli G, de Ru AH, Mikesch JH, van Veelen PA, Falkenburg JHF, Griffioen M. Hotspot DNA Methyltransferase 3A ( DNMT3A) and Isocitrate Dehydrogenase 1 and 2 ( IDH1/2) Mutations in Acute Myeloid Leukemia and Their Relevance as Targets for Immunotherapy. Biomedicines 2024; 12:1086. [PMID: 38791049 PMCID: PMC11118067 DOI: 10.3390/biomedicines12051086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2024] [Revised: 04/29/2024] [Accepted: 05/09/2024] [Indexed: 05/26/2024] Open
Abstract
DNA methyltransferase 3A (DNMT3A) and isocitrate dehydrogenase 1 and 2 (IDH1/2) are genes involved in epigenetic regulation, each mutated in 7-23% of patients with acute myeloid leukemia. Here, we investigated whether hotspot mutations in these genes encode neoantigens that can be targeted by immunotherapy. Five human B-lymphoblastoid cell lines expressing common HLA class I alleles were transduced with a minigene construct containing mutations that often occur in DNMT3A or IDH1/2. From these minigene-transduced cell lines, peptides were eluted from HLA class I alleles and analyzed using tandem mass spectrometry. The resulting data are available via ProteomeXchange under the identifier PXD050560. Mass spectrometry revealed an HLA-A*01:01-binding DNMT3AR882H peptide and an HLA-B*07:02-binding IDH2R140Q peptide as potential neoantigens. For these neopeptides, peptide-HLA tetramers were produced to search for specific T-cells in healthy individuals. Various T-cell clones were isolated showing specific reactivity against cell lines transduced with full-length DNMT3AR882H or IDH2R140Q genes, while cell lines transduced with wildtype genes were not recognized. One T-cell clone for DNMT3AR882H also reacted against patient-derived acute myeloid leukemia cells with the mutation, while patient samples without the mutation were not recognized, thereby validating the surface presentation of a DNMT3AR882H neoantigen that can potentially be targeted in acute myeloid leukemia via immunotherapy.
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Affiliation(s)
- Nadine E. Struckman
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - Rob C. M. de Jong
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - M. Willy Honders
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - Sophie-Anne I. Smith
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - Dyantha I. van der Lee
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - Georgia Koutsoumpli
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - Arnoud H. de Ru
- Center for Proteomics and Metabolomics, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (A.H.d.R.); (P.A.v.V.)
| | - Jan-Henrik Mikesch
- Department of Medicine A, University Hospital Münster, 48149 Münster, Germany;
| | - Peter A. van Veelen
- Center for Proteomics and Metabolomics, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (A.H.d.R.); (P.A.v.V.)
| | - J. H. Frederik Falkenburg
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
| | - Marieke Griffioen
- Department of Hematology, Leiden University Medical Center, 2333ZA Leiden, The Netherlands; (N.E.S.); (R.C.M.d.J.); (M.W.H.); (S.-A.I.S.); (D.I.v.d.L.); (G.K.); (J.H.F.F.)
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Hayun M, Szwarcwort M, Rosenberg D, Sahar D, Ofran Y. Spontaneous arising of a lymphoblastoid B-cell line harbouring a pre-leukemic DNMT3A mutation in acute myeloid leukaemia cell culture. J Cell Mol Med 2021; 25:10778-10782. [PMID: 34651440 PMCID: PMC8581312 DOI: 10.1111/jcmm.16992] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2021] [Revised: 09/23/2021] [Accepted: 09/30/2021] [Indexed: 11/28/2022] Open
Affiliation(s)
- Michal Hayun
- The Clinical Research Institute at Rambam (CRIR), Rambam Health Care Campus, Haifa, Israel
| | | | - Dina Rosenberg
- Hematology Laboratory, Rambam Health Care Campus, Haifa, Israel
| | - Dvora Sahar
- Hematology Laboratory, Rambam Health Care Campus, Haifa, Israel
| | - Yishai Ofran
- The Clinical Research Institute at Rambam (CRIR), Rambam Health Care Campus, Haifa, Israel.,Department of Hematology and Bone Marrow Transplantation, Rambam Health Care Campus, Haifa, Israel.,Department of Hematology, Shaare Zedek Medical Center, Faculty of Medicine, the Hebrew University of Jerusalem, Jerusalem, Israel
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