PreprintCited by 13CRISPR and Genetic EngineeringAnimal Genetics and ReproductionVirus-based gene therapy research

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Transposase N-terminal phosphorylation and asymmetric transposon ends inhibit piggyBac transposition in mammalian cells

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Preprint — published as 10.1093/nar/gkac1191

Abstract

Mechanistic regulation of DNA transposon systems in mammalian cells remains poorly understood. Using modeling, biochemical, and cell-based assays, we sought to extend the recent cryoEM structural insight into the piggyBac transpososome to evaluate the previously unexplained role of the transposase N-terminus, the need for asymmetric transposon ends, and the complexity of transposase tetramer formation for transposition in mammalian cells. We found that N-terminal phosphorylation by casein kinase II inhibits transposase-DNA interaction and designed deletion of this phosphorylated domain releases inhibition thereby enhancing activity. We also found that the N-terminal domain promotes transposase dimerization in the absence of transposon DNA. N-terminal deletion enables transposition of symmetric transposon ends that was previously not achievable with piggyBac . The complex transposase tetramer needed for transposition of asymmetric transposon ends can be overcome via appending a second transposase C-terminal domain in combination with symmetric transposon ends overcoming the negative regulation by asymmetric ends. Our results demonstrate that N-terminal transposase phosphorylation and the requirement for asymmetric transposon ends both negatively regulate piggyBac transposons in mammalian cells. These novel insights into mechanism and structure of the piggyBac transposase expand its potential use for genomic applications.

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  1. 2021, TALE and TALEN genome editing technologies, Gene and Genome Editing, 2, 100007, 10.1016/j.ggedit.2021.100007 · DOI
  2. 2022, ON-Target Adverse Events of CRISPR-Cas9 Nuclease: More Chaotic than Expected, CRISPR J, 5, 19, 10.1089/crispr.2021.0120 · DOI
  3. 10.1016/S0092-8674(00)80436-5 · DOI
  4. 10.1038/ng.343 · DOI
  5. 1996, Precise excision of TTAA-specific lepidopteran transposons piggyBac (IFP2) and tagalong (TFP3) from the baculovirus genome in cell lines from two species of Lepidoptera, Insect Mol.Biol, 5, 141, 10.1111/j.1365-2583.1996.tb00048.x · DOI
  6. 10.1007/BF00120216 · DOI
  7. 10.1016/j.cell.2005.07.013 · DOI · Paper page
  8. 2009, Generation of transgene-free induced pluripotent mouse stem cells by the piggyBac transposon, Nat.Methods, 6, 363, 10.1038/nmeth.1323 · DOI
  9. 10.1038/nature07863 · DOI
  10. 10.1126/science.1193004 · DOI
  11. 10.1073/pnas.0910383107 · DOI
  12. 2022, Cas-CLOVER is a novel high-fidelity nuclease for safe and robust generation of TSCM-enriched allogeneic CAR-T cells, Molecular Therapy - Nucleic Acids, 29, 979, 10.1016/j.omtn.2022.06.003 · DOI
  13. 2021, A Phase I/II Clinical Trial of Piggybac-Modified GMR CAR-T Cell Therapy for CD116 Positive Relapsed/Refractory Myeloid Malignancies, Blood, 138, 4813, 10.1182/blood-2021-149089 · DOI
  14. 10.1073/pnas.1612980114 · DOI
  15. 2016, Genome-wide Profiling Reveals Remarkable Parallels Between Insertion Site Selection Properties of the MLV Retrovirus and the piggyBac Transposon in Primary Human CD4(+) T Cells, Molecular therapy : the journal of the American Society of Gene Therapy, 24, 592, 10.1038/mt.2016.11 · DOI
  16. 2008, Analysis of the piggyBac transposase reveals a functional nuclear targeting signal in the 94 c-terminal residues, BMC molecular biology, 9, 72, 10.1186/1471-2199-9-72 · DOI
  17. 2008, Mutational analysis of highly conserved aspartate residues essential to the catalytic core of the piggyBac transposase, BMC molecular biology, 9, 73, 10.1186/1471-2199-9-73 · DOI
  18. 10.1093/nar/gky044 · DOI
  19. 10.1073/pnas.1305987110 · DOI
  20. 10.1038/emboj.2008.41 · DOI
  21. 2011, A hyperactive piggyBac transposase for mammalian applications, Proc.Natl.Acad.Sci.U.S A, 108, 1531, 10.1073/pnas.1008322108 · DOI
  22. 10.1089/hum.2011.138 · DOI
  23. 2012, A Hyperactive Transposase Promotes Persistent Gene Transfer of a piggyBac DNA Transposon, Molecular therapy. Nucleic acids, 1, e50, 10.1038/mtna.2012.12 · DOI
  24. 2013, A versatile, highly efficient, and potentially safer piggyBac transposon system for mammalian genome manipulations, FASEB journal : official publication of the Federation of American Societies for Experimental Biology, 27, 4429, 10.1096/fj.12-223586 · DOI
  25. Hua, W.-K. , Hsu, J.C. , Chen, Y.-C. , Chang, P.S. , Wen, K.-L.K. , Wang, P.-N. , Yu, Y.-S. , Chen, Y.-C. , Cheng, I.-C. and Wu, S.C.-Y. (2022) Quantum pBac: An effective, high-capacity piggyBac-based gene integration vector system for unlocking gene therapy potential. bioRxiv, 2022.2004.2029.490002. · DOI
  26. 10.1038/s41467-020-17128-1 · DOI
  27. 2022, Functional Characterization of the N-Terminal Disordered Region of the piggyBac Transposase, International Journal of Molecular Sciences, 23, 10317, 10.3390/ijms231810317 · DOI
  28. 10.1038/sj.mt.6300028 · DOI
  29. 2008, Chromosomal transposition of PiggyBac in mouse embryonic stem cells, Proc.Natl.Acad.Sci.U.S A, 105, 9290, 10.1073/pnas.0801017105 · DOI
  30. 2020, Self-Reporting Transposons Enable Simultaneous Readout of Gene Expression and Transcription Factor Binding in Single Cells, Cell, 182, 992, 10.1016/j.cell.2020.06.037 · DOI
  31. 10.1038/ncomms10716 · DOI
  32. 10.1128/MCB.26.4.1558-1568.2006 · DOI
  33. 10.1038/nbt1240 · DOI · Paper page
  34. Zhao, H. , Brautigam, C.A. , Ghirlando, R. and Schuck, P. (2013) Overview of current methods in sedimentation velocity and sedimentation equilibrium analytical ultracentrifugation. Curr Protoc Protein Sci, Chapter 20, Unit20 12. · DOI
  35. 10.1016/S0006-3495(00)76713-0 · DOI
  36. 10.1016/S0091-679X(07)84006-4 · DOI
  37. Evans, R. , O’Neill, M. , Pritzel, A. , Antropova, N. , Senior, A. , Green, T. , Žídek, A. , Bates, R. , Blackwell, S. , Yim, J. et al. (2022) Protein complex prediction with AlphaFold-Multimer. bioRxiv, 2021.2010.2004.463034. · DOI · Paper page
  38. 2017, Comparative analysis of chimeric ZFP-, TALE- and Cas9-piggyBac transposases for integration into a single locus in human cells, Nucleic Acids Res, 45, 8411, 10.1093/nar/gkx572 · DOI
  39. 10.1093/nar/7.6.1513 · DOI · Paper page
  40. 10.14806/ej.17.1.200 · DOI · Paper page
  41. 10.1093/bioinformatics/btp450 · DOI
  42. Wickham, H. (2016) ggplot2: Elegant Graphics for Data Analysis. Springer-Verlag New York. · DOI
  43. Wagih, O. (2017). · DOI
  44. 10.1038/s41587-019-0201-4 · DOI · Paper page
  45. 2013, Software for computing and annotating genomic ranges, PLoS computational biology, 9, e1003118, 10.1371/journal.pcbi.1003118 · DOI
  46. 10.1093/gbe/evx010 · DOI
  47. 10.1038/nrm2203 · DOI · Paper page
  48. 10.1038/s41586-019-1093-7 · DOI
  49. 2021, The C-terminal Domain of piggyBac Transposase Is Not Required for DNA Transposition, J Mol Biol, 433, 166805, 10.1016/j.jmb.2020.166805 · DOI
  50. 10.1021/acs.chemrev.6b00003 · DOI
  51. 10.1038/s41586-019-1753-7 · DOI
  52. Kaczmarska, Z. , Czarnocki-Cieciura, M. , Górecka-Minakowska, K.M. , Wingo, R.J. , Jackiewicz, J. , Zajko, W. , Poznański, J.T. , Rawski, M. , Grant, T. , Peters, J.E. et al. (2022) Structural basis of transposon end recognition explains central features of Tn7 transposition systems. Mol Cell. · DOI
  53. 10.1038/s41594-019-0319-6 · DOI · Paper page
  54. 10.1093/nar/gkt874 · DOI
  55. 10.1042/BJ20140178 · DOI
  56. 10.1074/jbc.AW119.008144 · DOI

Metadata

Authors
Luo, W., Hickman, A. B., Genzor, P., Ghirlando, R., Furman, C. M., Menshikh, A., Haase, A., Dyda, F., & Wilson, M. H.
Affiliations
  • Vanderbilt University Medical Center (US)
  • National Institutes of Health (US)
  • United States Department of Veterans Affairs (US)
Corresponding author
  • Dyda, Fred
  • Wilson, Matthew H.
Venue
Nucleic Acids Research
Publisher
openRxiv
Published
2022-09-26
Volume
50
Issue
22
Pages
13128-13142
ISSN
0305-1048 (ISSN-L)
OpenAlex
W4312081968
Cited by
13
References
1
Citations by year
2026: 4 · 2025: 6 · 2023: 3
FWCI
0.73
Type
journal article
Language
en
Open access
Licence
public-domain
Locations
  • Nucleic Acids Research (publishedVersion, public-domain)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
  • PubMed Central (publishedVersion)
  • PubMed (publishedVersion)
Funders
  • U.S. Department of Veterans Affairs (I01 BX004258)
  • National Institutes of Health (DK036153-16, DK114809)
  • National Institute of Diabetes and Digestive and Kidney Diseases (R01DK093660, P30DK114809, DK114809, DK093660, ZIADK036153, ZIADK075111)
  • National Institute of Biomedical Imaging and Bioengineering (R01EB033676)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Animal Genetics and Reproduction
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Virus-based gene therapy research
Keywords
piggyBac transposon, casein kinase 2, transposition regulation, protein redesign, mammalian cells
MeSH terms
Cell Line, DNA Transposable Elements, Humans, Phosphorylation, Transposases

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