CoChat
Sign Up
Cited by 190

The DOI matches its Crossref record.

TRAIP is a master regulator of DNA interstrand crosslink repair

Wu, R. Alex, Semlow, Daniel R., Kamimae-Lanning, Ashley N., Kochenova, Olga V., Chistol, Gheorghe, Hodskinson, Michael R., Amunugama, Ravindra, Sparks, Justin L., Wang, Meng, Deng, Lin, Mimoso, Claudia A., Low, Emily, Patel, Ketan J., Walter, Johannes C.·2019·Nature
DOI 10.1038/s41586-019-1002-0PMC PMC6417926
Open this paper in CoChat — free account

Overview

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1038/s41586-019-1002-0

Cites

Statistics

Verification

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Citations

Cites

No references could be resolved yet.

Research works printed but not linked: 53

  1. Semlow, D. R., Zhang, J., Budzowska, M., Drohat, A. C. & Walter, J. C. Replication-dependent unhooking of DNA interstrand cross-links by the NEIL3 glycosylase. Cell 167, 498–511.e14 (2016). · DOI
  2. Räschle, M. et al. Mechanism of replication-coupled DNA interstrand crosslink repair. Cell 134, 969–980 (2008). · DOI
  3. Larsen, N. B. et al. Mechanism of replication-coupled DNA-protein crosslink proteolysis by SPRTN and the proteasome. Mol. Cell 73, 574–588 (2019). · DOI
  4. Deng, L. et al. Mitotic CDK promotes replisome disassembly, fork breakage, and complex DNA rearrangements. Mol. Cell (in the press).
  5. Price, N. E., Catalano, M. J., Liu, S., Wang, Y. & Gates, K. S. Chemical and structural characterization of interstrand cross-links formed between abasic sites and adenine residues in duplex DNA. Nucleic Acids Res. 43, 3434–3441 (2015). · DOI
  6. Kottemann, M. C. & Smogorzewska, A. Fanconi anaemia and the repair of Watson and Crick DNA crosslinks. Nature 493, 356–363 (2013). · DOI
  7. Zhang, J. et al. DNA interstrand cross-link repair requires replication-fork convergence. Nat. Struct. Mol. Biol. 22, 242–247 (2015). · DOI
  8. Fullbright, G., Rycenga, H. B., Gruber, J. D. & Long, D. T. p97 promotes a conserved mechanism of helicase unloading during DNA cross-link repair. Mol. Cell. Biol. 36, 2983–2994 (2016). · DOI
  9. Amunugama, R. et al. Replication fork reversal during DNA interstrand crosslink repair requires CMG unloading. Cell Rep.s 23, 3419–3428 (2018). · DOI
  10. Knipscheer, P. et al. The Fanconi anemia pathway promotes replication-dependent DNA interstrand cross-link repair. Science 326, 1698–1701 (2009). · DOI
  11. Massaad, M. J. et al. Deficiency of base excision repair enzyme NEIL3 drives increased predisposition to autoimmunity. J. Clin. Invest. 126, 4219–4236 (2016). · DOI
  12. Parmar, K., D’Andrea, A. & Niedernhofer, L. J. Mouse models of Fanconi anemia. Mutat. Res. 668, 133–140 (2009). · DOI
  13. Sejersted, Y. et al. Endonuclease VIII-like 3 (Neil3) DNA glycosylase promotes neurogenesis induced by hypoxia-ischemia. Proc. Natl Acad. Sci. USA 108, 18802–18807 (2011). · DOI
  14. Torisu, K., Tsuchimoto, D., Ohnishi, Y. & Nakabeppu, Y. Hematopoietic tissue-specific expression of mouse Neil3 for endonuclease VIII-like protein. J. Biochem. 138, 763–772 (2005). · DOI
  15. Chapard, C., Hohl, D. & Huber, M. The role of the TRAF-interacting protein in proliferation and differentiation. Exp. Dermatol. 21, 321–326 (2012). · DOI
  16. Harley, M. E. et al. TRAIP promotes DNA damage response during genome replication and is mutated in primordial dwarfism. Nat. Genet. 48, 36–43 (2016). · DOI
  17. Räschle, M. et al. Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links. Science 348, 1253671 (2015). · DOI
  18. Hoffmann, S. et al. TRAIP is a PCNA-binding ubiquitin ligase that protects genome stability after replication stress. J. Cell Biol. 212, 63–75 (2016). · DOI
  19. Huang, J. et al. The DNA translocase FANCM/MHF promotes replication traverse of DNA interstrand crosslinks. Mol. Cell 52, 434–446 (2013). · DOI
  20. Mutreja, K. et al. ATR-mediated global fork slowing and reversal assist fork traverse and prevent chromosomal breakage at DNA interstrand cross-links. Cell Rep. 24, 2629–2642 (2018). · DOI
  21. Long, D. T., Joukov, V., Budzowska, M. & Walter, J. C. BRCA1 promotes unloading of the CMG helicase from a stalled DNA replication fork. Mol. Cell 56, 174–185 (2014). · DOI
  22. Priego Moreno, S., Bailey, R., Campion, N., Herron, S. & Gambus, A. Polyubiquitylation drives replisome disassembly at the termination of DNA replication. Science 346, 477–481 (2014). · DOI
  23. Dewar, J. M., Low, E., Mann, M., Räschle, M. & Walter, J. C. CRL2Lrr1 promotes unloading of the vertebrate replisome from chromatin during replication termination. Genes Dev. 31, 275–290 (2017). · DOI
  24. Liu, M. et al. Expression and purification of active mouse and human NEIL3 proteins. Protein Expr. Purif. 84, 130–139 (2012). · DOI
  25. Wang, B. et al. Structure and ubiquitin interactions of the conserved zinc finger domain of Npl4. J. Biol. Chem. 278, 20225–20234 (2003). · DOI
  26. Wallace, B. D. et al. APE2 Zf-GRF facilitates 3′-5′ resection of DNA damage following oxidative stress. Proc. Natl Acad. Sci. USA 114, 304–309 (2017). · DOI
  27. Dutrillaux, B., Aurias, A., Dutrillaux, A. M., Buriot, D. & Prieur, M. The cell cycle of lymphocytes in Fanconi anemia. Hum. Genet. 62, 327–332 (1982). · DOI
  28. Sparks, J. L. et al. The CMG helicase bypasses DNA-protein cross-links to facilitate their repair. Cell 176, 167–181.e21 (2019). · DOI
  29. Lebofsky, R., Takahashi, T. & Walter, J. C. DNA replication in nucleus-free Xenopus egg extracts. Methods Mol. Biol. 521, 229–252 (2009). · DOI
  30. Dewar, J. M., Budzowska, M. & Walter, J. C. The mechanism of DNA replication termination in vertebrates. Nature 525, 345–350 (2015). · DOI
  31. Joukov, V., Chen, J., Fox, E. A., Green, J. B. & Livingston, D. M. Functional communication between endogenous BRCA1 and its partner, BARD1, during Xenopus laevis development. Proc. Natl Acad. Sci. USA 98, 12078–12083 (2001). · DOI
  32. Walter, J. & Newport, J. Initiation of eukaryotic DNA replication: origin unwinding and sequential chromatin association of Cdc45, RPA, and DNA polymerase α. Mol. Cell 5, 617–627 (2000). · DOI
  33. Byun, T. S., Pacek, M., Yee, M. C., Walter, J. C. & Cimprich, K. A. Functional uncoupling of MCM helicase and DNA polymerase activities activates the ATR-dependent checkpoint. Genes Dev. 19, 1040–1052 (2005). · DOI · Paper page
  34. Wohlschlegel, J. A., Dhar, S. K., Prokhorova, T. A., Dutta, A. & Walter, J. C. Xenopus Mcm10 binds to origins of DNA replication after Mcm2-7 and stimulates origin binding of Cdc45. Mol. Cell 9, 233–240 (2002). · DOI
  35. Pacek, M., Tutter, A. V., Kubota, Y., Takisawa, H. & Walter, J. C. Localization of MCM2-7, Cdc45, and GINS to the site of DNA unwinding during eukaryotic DNA replication. Mol. Cell 21, 581–587 (2006). · DOI
  36. Kochaniak, A. B. et al. Proliferating cell nuclear antigen uses two distinct modes to move along DNA. J. Biol. Chem. 284, 17700–17710 (2009). · DOI
  37. Rosado, I. V., Langevin, F., Crossan, G. P., Takata, M. & Patel, K. J. Formaldehyde catabolism is essential in cells deficient for the Fanconi anemia DNA-repair pathway. Nat. Struct. Mol. Biol. 18, 1432–1434 (2011). · DOI
  38. Budzowska, M., Graham, T. G., Sobeck, A., Waga, S. & Walter, J. C. Regulation of the Rev1-pol ζ complex during bypass of a DNA interstrand cross-link. EMBO J. 34, 1971–1985 (2015). · DOI
  39. Michel, M. A. et al. Assembly and specific recognition of K29- and K33-linked polyubiquitin. Mol. Cell 58, 95–109 (2015). · DOI
  40. Knipscheer, P., Räschle, M., Schärer, O. D. & Walter, J. C. Replication-coupled DNA interstrand cross-link repair in Xenopus egg extracts. Methods Mol. Biol. 920, 221–243 (2012). · DOI
  41. Graham, T. G., Walter, J. C. & Loparo, J. J. Two-stage synapsis of DNA ends during non-homologous end joining. Mol. Cell 61, 850–858 (2016). · DOI
  42. Hemsley, A., Arnheim, N., Toney, M. D., Cortopassi, G. & Galas, D. J. A simple method for site-directed mutagenesis using the polymerase chain reaction. Nucleic Acids Res. 17, 6545–6551 (1989). · DOI
  43. Trowitzsch, S., Bieniossek, C., Nie, Y., Garzoni, F. & Berger, I. New baculovirus expression tools for recombinant protein complex production. J. Struct. Biol. 172, 45–54 (2010). · DOI · Paper page
  44. Ilves, I., Petojevic, T., Pesavento, J. J. & Botchan, M. R. Activation of the MCM2-7 helicase by association with Cdc45 and GINS proteins. Mol. Cell 37, 247–258 (2010). · DOI
  45. Liu, M. et al. The mouse ortholog of NEIL3 is a functional DNA glycosylase in vitro and in vivo. Proc. Natl Acad. Sci. USA 107, 4925–4930 (2010). · DOI
  46. Franken, N. A., Rodermond, H. M., Stap, J., Haveman, J. & van Bree, C. Clonogenic assay of cells in vitro. Nat. Protoc. 1, 2315–2319 (2006). · DOI
  47. Vos, J. M. & Hanawalt, P. C. Processing of psoralen adducts in an active human gene: repair and replication of DNA containing monoadducts and interstrand cross-links. Cell 50, 789–799 (1987). · DOI
  48. Derheimer, F. A., Hicks, J. K., Paulsen, M. T., Canman, C. E. & Ljungman, M. Psoralen-induced DNA interstrand cross-links block transcription and induce p53 in an ataxia-telangiectasia and Rad3-related-dependent manner. Mol. Pharmacol. 75, 599–607 (2009). · DOI
  49. Walter, J., Sun, L. & Newport, J. Regulated chromosomal DNA replication in the absence of a nucleus. Mol. Cell 1, 519–529 (1998). · DOI
  50. Klein Douwel, D. et al. XPF-ERCC1 acts in unhooking DNA interstrand crosslinks in cooperation with FANCD2 and FANCP/SLX4. Mol. Cell 54, 460–471 (2014). · DOI
  51. Long, D. T., Räschle, M., Joukov, V. & Walter, J. C. Mechanism of RAD51-dependent DNA interstrand cross-link repair. Science 333, 84–87 (2011). · DOI
  52. Fu, Y. V. et al. Selective bypass of a lagging strand roadblock by the eukaryotic replicative DNA helicase. Cell 146, 931–941 (2011). · DOI
  53. Sonneville, R. et al. CUL-2LRR-1 and UBXN-3 drive replisome disassembly during DNA replication termination and mitosis. Nat. Cell Biol. 19, 468–479 (2017). · DOI

Cited by

Sorted by citations

See all 190

Metadata

Authors
Wu, R. A., Semlow, D. R., Kamimae-Lanning, A. N., Kochenova, O. V., Chistol, G., Hodskinson, M. R., Amunugama, R., Sparks, J. L., Wang, M., Deng, L., Mimoso, C. A., Low, E., Patel, K. J., & Walter, J. C.
Venue
Nature
Publisher
Springer Science and Business Media LLC
Published
2019-03
Volume
567
Issue
7747
Pages
267-272
ISSN
  • 0028-0836
  • 1476-4687
DOI
10.1038/s41586-019-1002-0
PMC
PMC6417926
Cited by
190
References
0
Language
en
Licence
www.springer.com/tdm (tdm)

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review