Publications

Original Research

• HM-DyadCap – capture and mapping of 5-hydroxymethylcytosine/5-methylcytosine CpG dyads in mammalian DNA

  L. Engelhard*; D. Schiller*; M. S. Zambrano-Mila; K. Keliuotyte; B. Buchmuller; S. Tiwari; J. Imig; A. Simeone; C. Schröter; S. Becker; D. Summerer.

  Nucleic Acids Res. 2026, 54(8), gkag389. doi:10.1093/nar/gkag389 DOI PMID:42023651 PMID PMC13103736 PMC
  Impact: Demonstrated that our engineered MBD (Buchmuller et al., JACS 2022) is capable of profiling hmC/mC marks in mammalian genomes
• Evolved Readers of 5‐Carboxylcytosine CpG Dyads Reveal a High Versatility of the Methyl‐CpG‐Binding Domain for Recognition of Noncanonical Epigenetic Marks

  B. Kosel; K. Bigler; B. C. Buchmuller; S. R. Acharyya; R. Linser; D. Summerer.

  Angew. Chem. Int. Ed. 2024, 63(17), e202318837. doi:10.1002/anie.202318837 DOI PMID:38284298 PMID
  Impact: Demonstrated the MBD scaffold can be evolved towards 5-carboxylcytosine recognition despite the stark chemical difference from the natural substrate
• Epigenetic CpG duplex marks probed by an evolved DNA reader via a well-tempered conformational plasticity

  H. Singh; C. K. Das; B. C. Buchmuller; L. V. Schäfer; D. Summerer; R. Linser.

  Nucleic Acids Res. 2023, 51(12), 6495–6506. doi:10.1093/nar/gkad134 DOI PMID:36919612 PMID PMC10325892 PMC
  Impact: Revealed molecular basis of hmC/mC reader selectivity through conformational plasticity using combined insights from NMR spectroscopy, MD simulations, and directed evolution
• A translational repression reporter assay for the analysis of RNA-binding protein consensus sites

  J. Nowacki; M. Malenica; S. Schmeing; D. Schiller; B. Buchmuller; G. Amrahova; P. ‘t Hart.

  RNA Biol. 2023, 20(1), 85–94. doi:10.1080/15476286.2023.2192553 DOI PMID:36946649 PMID PMC10038052 PMC
  Impact: Expanded the translational repression assay for linear RNA sequences enabling broader RNA-binding protein studies
• Imaging-Based In Situ Analysis of 5‑Methylcytosine at Low Repetitive Single Gene Loci with Transcription-Activator-Like Effector Probes

  A. Jung; A. Munõz-López; B. C. Buchmuller; S. Banerjee; D. Summerer.

  ACS Chem. Biol. 2023, 18(2), 230–236. doi:10.1021/acschembio.2c00857 DOI PMID:36693632 PMID PMC9942090 PMC
  Impact: Extended TALE imaging to low-repetitive single gene loci through signal amplification strategies
• A high-throughput effector screen identifies a novel small molecule scaffold for inhibition of ten-eleven translocation dioxygenase 2

  S. Palei; J. Weisner; M. Vogt; R. Gontla; B. Buchmuller; C. Ehrt; T. Grabe; S. Kleinbölting; M. Müller; G. H. Clever; D. Rauh; D. Summerer.

  RSC Med. Chem. 2022, 13(12), 1540–1548. doi:10.1039/d2md00186a DOI PMID:36545435 PMID PMC9749932 PMC
  Impact: Identified a novel quinoline-based TET2 inhibitor scaffold through high-throughput screening of 31,500 compounds
• Evolved DNA Duplex Readers for Strand-Asymmetrically Modified 5‑Hydroxymethylcytosine/5-Methylcytosine CpG Dyads

  B. C. Buchmuller; J. Dröden; H. Singh; S. Palei; M. Drescher; R. Linser; D. Summerer.

  JACS 2022, 144(7), 2987–2993. doi:10.1021/jacs.1c10678 DOI PMID:35157801 PMID PMC8874921 PMC
  Impact: First affinity probes enabling selective enrichment of strand-asymmetric epigenetic DNA marks from genomic DNA
• Engineered TALE Repeats for Enhanced Imaging‐Based Analysis of Cellular 5‐Methylcytosine

  Á. Muñoz‐López; A. Jung; B. Buchmuller; J. Wolffgramm; S. Maurer; A. Witte; D. Summerer.

  ChemBioChem 2021, 22(4), 645–651. doi:10.1002/cbic.202000563 DOI PMID:32991020 PMID PMC7894354 PMC
  Impact: Engineered 5mC-binding TALE repeats for imaging-based quantification of DNA methylation at repetitive loci
• Light‐Activation of DNA‐Methyltransferases

  J. Wolffgramm; B. Buchmuller; S. Palei; Á. Muñoz‐López; J. Kanne; P. Janning; M. R. Schweiger; D. Summerer.

  Angew. Chem. Int. Ed. 2021, 60(24), 13507–13512. doi:10.1002/anie.202103945 DOI PMID:33826797 PMID PMC8251764 PMC
  Impact: First direct optical control of DNMT catalysis enabling insights into cancer-related mutations and programmable site-specific methylation
• Light-Activatable TET-Dioxygenases Reveal Dynamics of 5‑Methylcytosine Oxidation and Transcriptome Reorganization

  S. Palei; B. Buchmuller; J. Wolffgramm; A. Muñoz-Lopez; S. Jung; P. Czodrowski; D. Summerer.

  JACS 2020, 142(16), 7289–7294. doi:10.1021/jacs.0c01193 DOI PMID:32286069 PMID
  Impact: First temporal control of TET dioxygenase activity in mammalian cells enabling time-resolved monitoring of methylation dynamics and transcriptome reorganization
• CRISPR-Cas12a–assisted PCR tagging of mammalian genes

  J. Fueller; K. Herbst; M. Meurer; K. Gubicza; B. Kurtulmus; J. D. Knopf; D. Kirrmaier; B. C. Buchmuller; G. Pereira; M. K. Lemberg; M. Knop.

  J. Cell Biol. 2020, 219(6), e201910210. doi:10.1083/jcb.201910210 DOI PMID:32406907 PMID PMC7265327 PMC
  Impact: Extended our CASTLING approach (Buchmuller et al., Nat. Commun. 2019) for gene editing to mammalian cells with up to 60% in-frame tagging efficiency; now widely adopted for endogenous protein tagging studies
• Designer Receptors for Nucleotide‐Resolution Analysis of Genomic 5‐Methylcytosine by Cellular Imaging

  Á. Muñoz‐López; B. Buchmuller; J. Wolffgramm; A. Jung; M. Hussong; J. Kanne; M. R. Schweiger; D. Summerer.

  Angew. Chem. Int. Ed. 2020, 59(23), 8927–8931. doi:10.1002/anie.202001935 DOI PMID:32167219 PMID PMC7318601 PMC
  Impact: First nucleotide-resolution imaging of 5mC in single cells; enabled direct correlation between epigenetic marks and transcription factor recruitment
• Complete Profiling of Methyl-CpG-Binding Domains for Combinations of Cytosine Modifications at CpG Dinucleotides Reveals Differential Read-out in Normal and Rett-Associated States

  B. C. Buchmuller; B. Kosel; D. Summerer.

  Sci. Rep. 2020, 10(1), 4053. doi:10.1038/s41598-020-61030-1 DOI PMID:32132616 PMID PMC7055227 PMC
  Impact: First comprehensive profiling of the human MBD protein family revealing differential recognition of oxidized CpG marks by Rett syndrome-associated MeCP2 mutations
• Pooled clone collections by multiplexed CRISPR-Cas12a-assisted gene tagging in yeast

  B. C. Buchmuller*; K. Herbst*; M. Meurer; D. Kirrmaier; E. Sass; E. D. Levy; M. Knop.

  Nat. Commun. 2019, 10(1), 2960. doi:10.1038/s41467-019-10816-7 DOI PMID:31273196 PMID PMC6609715 PMC
  Impact: CASTLING enables rapid construction of yeast clone libraries with >90% tagging efficiency; method adapted for mammalian gene tagging (Fueller et al., J. Cell Biol. 2020) and cited in advanced Cas12a engineering studies
• Programmable Protein–DNA Cross-Linking for the Direct Capture and Quantification of 5‑Formylcytosine

  M. Gieß; A. Muñoz-López; B. Buchmuller; G. Kubik; D. Summerer.

  JACS 2019, 141(24), 9453–9457. doi:10.1021/jacs.9b01432 DOI PMID:31180648 PMID
  Impact: Advanced TALE-based nucleobase targeting from recognition to covalent crosslinking for sensitive 5fC quantification
• Overcoming conservation in TALE–DNA interactions: a minimal repeat scaffold enables selective recognition of an oxidized 5-methylcytosine

  S. Maurer; B. Buchmuller; C. Ehrt; J. Jasper; O. Koch; D. Summerer.

  Chem. Sci. 2018, 9(36), 7247–7252. doi:10.1039/c8sc01958d DOI PMID:30288245 PMID PMC6148557 PMC
  Impact: Developed GRPr-targeting PET tracers with high binding affinity as potential diagnostic imaging tools for prostate and breast cancer
• Genome-wide C-SWAT library for high-throughput yeast genome tagging

  M. Meurer; Y. Duan; E. Sass; I. Kats; K. Herbst; B. C. Buchmuller; V. Dederer; F. Huber; D. Kirrmaier; M. Štefl; K. V. Laer; T. P. Dick; M. K. Lemberg; A. Khmelinskii; E. D. Levy; M. Knop.

  Nat. Methods 2018, 15(8), 598–600. doi:10.1038/s41592-018-0045-8 DOI PMID:29988096 PMID
  Impact: Created a genome-wide acceptor library (5,661 strains) enabling rapid swapping of tags and regulatory elements; widely adopted for yeast functional genomics
• Monomeric and Dimeric 68Ga-Labeled Bombesin Analogues for Positron Emission Tomography (PET) Imaging of Tumors Expressing Gastrin-Releasing Peptide Receptors (GRPrs)

  C. Liolios; B. Buchmuller; U. Bauder-Wüst; M. Schäfer; K. Leotta; U. Haberkorn; M. Eder; K. Kopka.

  J. Med. Chem. 2018, 61(5), 2062–2074. doi:10.1021/acs.jmedchem.7b01856 DOI PMID:29432691 PMID
  Impact: Potential diagnostic tools for prostate and breast cancer

Reviews, Book Chapters, Monographs

• Deciphering strand-asymmetrically modified CpG dyads in the DNA double-helix

  B. C. Buchmuller.

  2021. doi:10.17877/DE290R-22422 DOI
• DNA Modifications, Methods and Protocols

  B. Buchmuller; Á. Muñoz-López; M. Gieß; D. Summerer.

  Methods Mol. Biol. 2021, 2198, 381–399. doi:10.1007/978-1-0716-0876-0 DOI PMID:32822046 PMID
• Programmable tools for targeted analysis of epigenetic DNA modifications

  B. Buchmuller; A. Jung; Á. Muñoz-López; D. Summerer.

  Curr. Opin. Chem. Biol. 2021, 63, 1–10. doi:10.1016/j.cbpa.2021.01.002 DOI PMID:33588304 PMID