USP50 suppresses alternative RecQ helicase use and deleterious DNA2 activity during replication.


Journal

Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555

Informations de publication

Date de publication:
16 Sep 2024
Historique:
received: 14 08 2023
accepted: 30 08 2024
medline: 17 9 2024
pubmed: 17 9 2024
entrez: 16 9 2024
Statut: epublish

Résumé

Mammalian DNA replication relies on various DNA helicase and nuclease activities to ensure accurate genetic duplication, but how different helicase and nuclease activities are properly directed remains unclear. Here, we identify the ubiquitin-specific protease, USP50, as a chromatin-associated protein required to promote ongoing replication, fork restart, telomere maintenance, cellular survival following hydroxyurea or pyridostatin treatment, and suppression of DNA breaks near GC-rich sequences. We find that USP50 supports proper WRN-FEN1 localisation at or near stalled replication forks. Nascent DNA in cells lacking USP50 shows increased association of the DNA2 nuclease and RECQL4 and RECQL5 helicases and replication defects in cells lacking USP50, or FEN1 are driven by these proteins. Consequently, suppression of DNA2 or RECQL4/5 improves USP50-depleted cell resistance to agents inducing replicative stress and restores telomere stability. These data define an unexpected regulatory protein that promotes the balance of helicase and nuclease use at ongoing and stalled replication forks.

Identifiants

pubmed: 39284827
doi: 10.1038/s41467-024-52250-4
pii: 10.1038/s41467-024-52250-4
doi:

Substances chimiques

RecQ Helicases EC 3.6.4.12
Werner Syndrome Helicase EC 3.6.4.12
DNA Helicases EC 3.6.4.-
DNA2 protein, human EC 3.6.4.12
WRN protein, human EC 3.6.4.12
RECQL4 protein, human EC 3.6.1.-
RECQL5 protein, human 0
Flap Endonucleases EC 3.1.-
Ubiquitin-Specific Proteases EC 3.4.19.12
Chromatin 0

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

8102

Informations de copyright

© 2024. The Author(s).

Références

Zeman, M. K. & Cimprich, K. A. Causes and consequences of replication stress. Nat. Cell Biol. 16, 2–9 (2014).
pubmed: 24366029 pmcid: 4354890 doi: 10.1038/ncb2897
Gaillard, H., Garcia-Muse, T. & Aguilera, A. Replication stress and cancer. Nat. Rev. Cancer 15, 276–289 (2015).
pubmed: 25907220 doi: 10.1038/nrc3916
Lu, H. & Davis, A. J. Human RecQ helicases in DNA double-strand break repair. Front. Cell Dev. Biol. 9, 640755 (2021).
pubmed: 33718381 pmcid: 7947261 doi: 10.3389/fcell.2021.640755
Larsen, N. B. & Hickson, I. D. RecQ helicases: conserved guardians of genomic integrity. Adv. Exp. Med. Biol. 767, 161–184 (2013).
pubmed: 23161011 doi: 10.1007/978-1-4614-5037-5_8
Vindigni, A. & Hickson, I. D. RecQ helicases: multiple structures for multiple functions? HFSP J. 3, 153–164 (2009).
pubmed: 19949442 pmcid: 2714954 doi: 10.2976/1.3079540
Mojumdar, A. Mutations in conserved functional domains of human RecQ helicases are associated with diseases and cancer: a review. Biophys. Chem. 265, 106433 (2020).
pubmed: 32702531 doi: 10.1016/j.bpc.2020.106433
Capp, C., Wu, J. & Hsieh, T. S. RecQ4: the second replicative helicase? Crit. Rev. Biochem. Mol. Biol. 45, 233–242 (2010).
pubmed: 20429771 pmcid: 2874125 doi: 10.3109/10409231003786086
Abu-Libdeh B. et al. RECON syndrome is a genome instability disorder caused by mutations in the DNA helicase RECQL1. J. Clin. Invest. 132, e147301 (2022).
Chan, E. M. et al. WRN helicase is a synthetic lethal target in microsatellite unstable cancers. Nature 568, 551–556 (2019).
pubmed: 30971823 pmcid: 6580861 doi: 10.1038/s41586-019-1102-x
Lieb S. et al. Werner syndrome helicase is a selective vulnerability of microsatellite instability-high tumor cells. Elife 8, e43333 (2019).
Kategaya, L., Perumal, S. K., Hager, J. H. & Belmont, L. D. Werner syndrome helicase is required for the survival of cancer cells with microsatellite instability. iScience 13, 488–497 (2019).
pubmed: 30898619 pmcid: 6441948 doi: 10.1016/j.isci.2019.02.006
Behan, F. M. et al. Prioritization of cancer therapeutic targets using CRISPR-Cas9 screens. Nature 568, 511–516 (2019).
pubmed: 30971826 doi: 10.1038/s41586-019-1103-9
van Wietmarschen, N. et al. Repeat expansions confer WRN dependence in microsatellite-unstable cancers. Nature 586, 292–298 (2020).
pubmed: 32999459 pmcid: 8916167 doi: 10.1038/s41586-020-2769-8
Davies, S. L., North, P. S. & Hickson, I. D. Role for BLM in replication-fork restart and suppression of origin firing after replicative stress. Nat. Struct. Mol. Biol. 14, 677–679 (2007).
pubmed: 17603497 doi: 10.1038/nsmb1267
Berti, M. et al. Human RECQ1 promotes restart of replication forks reversed by DNA topoisomerase I inhibition. Nat. Struct. Mol. Biol. 20, 347–354 (2013).
pubmed: 23396353 pmcid: 3897332 doi: 10.1038/nsmb.2501
Zellweger, R. et al. Rad51-mediated replication fork reversal is a global response to genotoxic treatments in human cells. J. Cell Biol. 208, 563–579 (2015).
pubmed: 25733714 pmcid: 4347635 doi: 10.1083/jcb.201406099
Rodriguez-Lopez, A. M., Jackson, D. A., Iborra, F. & Cox, L. S. Asymmetry of DNA replication fork progression in Werner’s syndrome. Aging Cell 1, 30–39 (2002).
pubmed: 12882351 doi: 10.1046/j.1474-9728.2002.00002.x
Sidorova, J. M., Li, N., Folch, A. & Monnat, R. J. Jr. The RecQ helicase WRN is required for normal replication fork progression after DNA damage or replication fork arrest. Cell Cycle 7, 796–807 (2008).
pubmed: 18250621 doi: 10.4161/cc.7.6.5566
Su, F. et al. Nonenzymatic role for WRN in preserving nascent DNA strands after replication stress. Cell Rep. 9, 1387–1401 (2014).
pubmed: 25456133 pmcid: 4782925 doi: 10.1016/j.celrep.2014.10.025
Baynton, K. et al. WRN interacts physically and functionally with the recombination mediator protein RAD52. J. Biol. Chem. 278, 36476–36486 (2003).
pubmed: 12750383 doi: 10.1074/jbc.M303885200
Pichierri, P., Nicolai, S., Cignolo, L., Bignami, M. & Franchitto, A. The RAD9-RAD1-HUS1 (9.1.1) complex interacts with WRN and is crucial to regulate its response to replication fork stalling. Oncogene 31, 2809–2823 (2012).
pubmed: 22002307 doi: 10.1038/onc.2011.468
Thangavel, S. et al. DNA2 drives processing and restart of reversed replication forks in human cells. J. Cell Biol. 208, 545–562 (2015).
pubmed: 25733713 pmcid: 4347643 doi: 10.1083/jcb.201406100
Blundred, R., Myers, K., Helleday, T., Goldman, A. S. & Bryant, H. E. Human RECQL5 overcomes thymidine-induced replication stress. DNA Repair (Amst.) 9, 964–975 (2010).
pubmed: 20643585 doi: 10.1016/j.dnarep.2010.06.009
Popuri, V. et al. RECQL5 plays co-operative and complementary roles with WRN syndrome helicase. Nucleic Acids Res. 41, 881–899 (2013).
pubmed: 23180761 doi: 10.1093/nar/gks1134
Kanagaraj, R., Saydam, N., Garcia, P. L., Zheng, L. & Janscak, P. Human RECQ5beta helicase promotes strand exchange on synthetic DNA structures resembling a stalled replication fork. Nucleic Acids Res. 34, 5217–5231 (2006).
pubmed: 17003056 pmcid: 1635296 doi: 10.1093/nar/gkl677
Ozsoy, A. Z., Ragonese, H. M. & Matson, S. W. Analysis of helicase activity and substrate specificity of Drosophila RECQ5. Nucleic Acids Res. 31, 1554–1564 (2003).
pubmed: 12595564 pmcid: 149836 doi: 10.1093/nar/gkg243
Rossi, M. L., Ghosh, A. K. & Bohr, V. A. Roles of Werner syndrome protein in protection of genome integrity. DNA Repair (Amst.) 9, 331–344 (2010).
pubmed: 20075015 doi: 10.1016/j.dnarep.2009.12.011
Rogers, C. M. et al. Yeast Hrq1 shares structural and functional homology with the disease-linked human RecQ4 helicase. Nucleic Acids Res. 45, 5217–5230 (2017).
pubmed: 28334827 pmcid: 5605238 doi: 10.1093/nar/gkx151
Nickoloff J. A. et al. Cellular responses to widespread DNA replication stress. Int. J. Mol. Sci. 24, 16903 (2023).
Zheng, L. et al. Novel function of the flap endonuclease 1 complex in processing stalled DNA replication forks. EMBO Rep. 6, 83–89 (2005).
pubmed: 15592449 doi: 10.1038/sj.embor.7400313
Bryant, H. E. et al. PARP is activated at stalled forks to mediate Mre11-dependent replication restart and recombination. EMBO J. 28, 2601–2615 (2009).
pubmed: 19629035 pmcid: 2738702 doi: 10.1038/emboj.2009.206
Duxin, J. P. et al. Okazaki fragment processing-independent role for human Dna2 enzyme during DNA replication. J. Biol. Chem. 287, 21980–21991 (2012).
pubmed: 22570476 pmcid: 3381158 doi: 10.1074/jbc.M112.359018
Peng, G. et al. Human nuclease/helicase DNA2 alleviates replication stress by promoting DNA end resection. Cancer Res. 72, 2802–2813 (2012).
pubmed: 22491672 pmcid: 3367086 doi: 10.1158/0008-5472.CAN-11-3152
Duxin, J. P. et al. Human Dna2 is a nuclear and mitochondrial DNA maintenance protein. Mol. Cell Biol. 29, 4274–4282 (2009).
pubmed: 19487465 pmcid: 2715806 doi: 10.1128/MCB.01834-08
Li Z. et al. hDNA2 nuclease/helicase promotes centromeric DNA replication and genome stability. EMBO J. 37, e96729 (2018).
Shaheen, R. et al. Genomic analysis of primordial dwarfism reveals novel disease genes. Genome Res. 24, 291–299 (2014).
pubmed: 24389050 pmcid: 3912419 doi: 10.1101/gr.160572.113
Tarnauskaite, Z. et al. Biallelic variants in DNA2 cause microcephalic primordial dwarfism. Hum. Mutat. 40, 1063–1070 (2019).
pubmed: 31045292 pmcid: 6773220
Di Lazzaro Filho R. et al. Biallelic variants in DNA2 cause poikiloderma with congenital cataracts and severe growth failure reminiscent of Rothmund-Thomson syndrome. J. Med. Genet. 60, 1127–1132 (2023).
Ulrich, H. D. Two-way communications between ubiquitin-like modifiers and DNA. Nat. Struct. Mol. Biol. 21, 317–324 (2014).
pubmed: 24699080 doi: 10.1038/nsmb.2805
Smeenk, G. & Mailand, N. Writers, readers, and erasers of histone ubiquitylation in DNA double-strand break repair. Front. Genet. 7, 122 (2016).
pubmed: 27446204 pmcid: 4923129 doi: 10.3389/fgene.2016.00122
Yuan, J. et al. HERC2-USP20 axis regulates DNA damage checkpoint through claspin. Nucleic Acids Res. 42, 13110–13121 (2014).
pubmed: 25355518 pmcid: 4245938 doi: 10.1093/nar/gku1034
Quesada, V. C. et al. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. Biochem. Biophys. Res. Commun. 314, 54–62 (2004).
pubmed: 14715245 doi: 10.1016/j.bbrc.2003.12.050
Ernst, A. et al. A strategy for modulation of enzymes in the ubiquitin system. Science 339, 590–595 (2013).
pubmed: 23287719 doi: 10.1126/science.1230161
Komander, D., Clague, M. J. & Urbe, S. Breaking the chains: structure and function of the deubiquitinases. Nat. Rev. Mol. Cell Biol. 10, 550–563 (2009).
pubmed: 19626045 doi: 10.1038/nrm2731
Kilgas, S. & Ramadan, K. Inhibitors of the ATPase p97/VCP: From basic research to clinical applications. Cell Chem. Biol. 30, 3–21 (2023).
pubmed: 36640759 doi: 10.1016/j.chembiol.2022.12.007
Petermann, E. et al. Hydroxyurea-stalled replication forks become progressively inactivated and require two different RAD51-mediated pathways for restart and repair. Mol. Cell 37, 492–502 (2010).
pubmed: 20188668 pmcid: 2958316 doi: 10.1016/j.molcel.2010.01.021
Xu, Q., Farah, M., Webster, J. M. & Wojcikiewicz, R. J. Bortezomib rapidly suppresses ubiquitin thiolesterification to ubiquitin-conjugating enzymes and inhibits ubiquitination of histones and type I inositol 1,4,5-trisphosphate receptor. Mol. Cancer Ther. 3, 1263–1269 (2004).
pubmed: 15486193 doi: 10.1158/1535-7163.1263.3.10
Karlsson M. et al. A single-cell type transcriptomics map of human tissues. Sci. Adv. 7, eabh2169 (2021).
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).
pubmed: 15833913 pmcid: 1091739 doi: 10.1101/gad.1301205
Altieri, A., Dell’Aquila, M., Pentimalli, F., Giordano, A. & Alfano, L. SMART (Single Molecule Analysis of Resection Tracks) technique for assessing DNA end-resection in response to DNA damage. Bio Protoc. 10, e3701 (2020).
pubmed: 33659366 pmcid: 7842315 doi: 10.21769/BioProtoc.3701
Nickoloff, J. A., Sharma, N., Taylor, L., Allen, S. J. & Hromas, R. The safe path at the fork: ensuring replication-associated DNA double-strand breaks are repaired by homologous recombination. Front. Genet. 12, 748033 (2021).
pubmed: 34646312 pmcid: 8502867 doi: 10.3389/fgene.2021.748033
Hanada, K. et al. The structure-specific endonuclease Mus81 contributes to replication restart by generating double-strand DNA breaks. Nat. Struct. Mol. Biol. 14, 1096–1104 (2007).
pubmed: 17934473 doi: 10.1038/nsmb1313
Franchitto, A. et al. Replication fork stalling in WRN-deficient cells is overcome by prompt activation of a MUS81-dependent pathway. J. Cell Biol. 183, 241–252 (2008).
pubmed: 18852298 pmcid: 2568021 doi: 10.1083/jcb.200803173
Rass, U. Resolving branched DNA intermediates with structure-specific nucleases during replication in eukaryotes. Chromosoma 122, 499–515 (2013).
pubmed: 24008669 pmcid: 3827899 doi: 10.1007/s00412-013-0431-z
Cai, J. et al. Induction of deubiquitinating enzyme USP50 during erythropoiesis and its potential role in the regulation of Ku70 stability. J. Investig. Med. 66, 1–6 (2018).
pubmed: 29101126 doi: 10.1136/jim-2017-000622
Lee, J. Y. et al. The deubiquitinating enzyme, ubiquitin-specific peptidase 50, regulates inflammasome activation by targeting the ASC adaptor protein. FEBS Lett. 591, 479–490 (2017).
pubmed: 28094437 pmcid: 5324553 doi: 10.1002/1873-3468.12558
Keijzer N. et al. Variety in the USP deubiquitinase catalytic mechanism. Life Sci. Alliance 7, (2024).
Dobbs, F. M. et al. Precision digital mapping of endogenous and induced genomic DNA breaks by INDUCE-seq. Nat. Commun. 13, 3989 (2022).
pubmed: 35810156 pmcid: 9271039 doi: 10.1038/s41467-022-31702-9
Piovesan, A. et al. On the length, weight and GC content of the human genome. BMC Res. Notes 12, 106 (2019).
pubmed: 30813969 pmcid: 6391780 doi: 10.1186/s13104-019-4137-z
Li B., Reddy S. & Comai L. The Werner syndrome helicase coordinates sequential strand displacement and FEN1-mediated flap cleavage during polymerase delta elongation. Mol Cell Biol 37, e00560-16 (2017).
Sarkies, P. et al. FANCJ coordinates two pathways that maintain epigenetic stability at G-quadruplex DNA. Nucleic Acids Res. 40, 1485–1498 (2012).
pubmed: 22021381 doi: 10.1093/nar/gkr868
Wang, W. et al. The human Rad9-Rad1-Hus1 checkpoint complex stimulates flap endonuclease 1. Proc. Natl Acad. Sci. USA 101, 16762–16767 (2004).
pubmed: 15556996 pmcid: 534749 doi: 10.1073/pnas.0407686101
Iannascoli, C., Palermo, V., Murfuni, I., Franchitto, A. & Pichierri, P. The WRN exonuclease domain protects nascent strands from pathological MRE11/EXO1-dependent degradation. Nucleic Acids Res. 43, 9788–9803 (2015).
pubmed: 26275776 pmcid: 4787784
Sharma, S. et al. WRN helicase and FEN-1 form a complex upon replication arrest and together process branch migrating DNA structures associated with the replication fork. Mol. Biol. Cell 15, 734–750 (2004).
pubmed: 14657243 pmcid: 329389 doi: 10.1091/mbc.e03-08-0567
Brosh R. M. Jr. et al. Werner syndrome protein interacts with human flap endonuclease 1 and stimulates its cleavage activity. EMBO J. 20, 5791–5801 (2001).
Saharia, A. et al. FEN1 ensures telomere stability by facilitating replication fork re-initiation. J. Biol. Chem. 285, 27057–27066 (2010).
pubmed: 20551483 pmcid: 2930705 doi: 10.1074/jbc.M110.112276
Xu, S. et al. Abro1 maintains genome stability and limits replication stress by protecting replication fork stability. Genes Dev. 31, 1469–1482 (2017).
pubmed: 28860160 pmcid: 5588928 doi: 10.1101/gad.299172.117
Garzon, J., Ursich, S., Lopes, M., Hiraga, S. I. & Donaldson, A. D. Human RIF1-protein phosphatase 1 prevents degradation and breakage of nascent DNA on replication stalling. Cell Rep. 27, 2558–2566.e2554 (2019).
pubmed: 31141682 pmcid: 6547018 doi: 10.1016/j.celrep.2019.05.002
Mukherjee, C. et al. RIF1 promotes replication fork protection and efficient restart to maintain genome stability. Nat. Commun. 10, 3287 (2019).
pubmed: 31337767 pmcid: 6650494 doi: 10.1038/s41467-019-11246-1
Dungrawala, H. & Cortez, D. Purification of proteins on newly synthesized DNA using iPOND. Methods Mol. Biol. 1228, 123–131 (2015).
pubmed: 25311126 pmcid: 4384176 doi: 10.1007/978-1-4939-1680-1_10
Sirbu, B. M. et al. Identification of proteins at active, stalled, and collapsed replication forks using isolation of proteins on nascent DNA (iPOND) coupled with mass spectrometry. J. Biol. Chem. 288, 31458–31467 (2013).
pubmed: 24047897 pmcid: 3814742 doi: 10.1074/jbc.M113.511337
Dungrawala, H. et al. The replication checkpoint prevents two types of fork collapse without regulating replisome stability. Mol. Cell 59, 998–1010 (2015).
pubmed: 26365379 pmcid: 4575883 doi: 10.1016/j.molcel.2015.07.030
Kehrli, K. et al. Class I histone deacetylase HDAC1 and WRN RECQ helicase contribute additively to protect replication forks upon hydroxyurea-induced arrest. J. Biol. Chem. 291, 24487–24503 (2016).
pubmed: 27672210 pmcid: 5114403 doi: 10.1074/jbc.M115.708594
Wang, Q. et al. Modified iPOND revealed the role of mutant p53 in promoting helicase function and telomere maintenance. Aging (Albany NY) 15, 10767–10784 (2023).
pubmed: 37827695 doi: 10.18632/aging.205117
Wiest, N. E. & Tomkinson, A. E. Optimization of native and formaldehyde iPOND techniques for use in suspension cells. Methods Enzymol. 591, 1–32 (2017).
pubmed: 28645366 doi: 10.1016/bs.mie.2017.03.001
Chung, L. et al. The FEN1 E359K germline mutation disrupts the FEN1-WRN interaction and FEN1 GEN activity, causing aneuploidy-associated cancers. Oncogene 34, 902–911 (2015).
pubmed: 24608430 doi: 10.1038/onc.2014.19
Hanzlikova, H. et al. The importance of poly(ADP-ribose) polymerase as a sensor of unligated okazaki fragments during DNA replication. Mol. Cell 71, 319–331.e313 (2018).
pubmed: 29983321 pmcid: 6060609 doi: 10.1016/j.molcel.2018.06.004
Crabbe, L., Verdun, R. E., Haggblom, C. I. & Karlseder, J. Defective telomere lagging strand synthesis in cells lacking WRN helicase activity. Science 306, 1951–1953 (2004).
pubmed: 15591207 doi: 10.1126/science.1103619
Saharia, A. et al. Flap endonuclease 1 contributes to telomere stability. Curr. Biol. 18, 496–500 (2008).
pubmed: 18394896 pmcid: 2367431 doi: 10.1016/j.cub.2008.02.071
Damerla, R. R. et al. Werner syndrome protein suppresses the formation of large deletions during the replication of human telomeric sequences. Cell Cycle 11, 3036–3044 (2012).
pubmed: 22871734 pmcid: 3442914 doi: 10.4161/cc.21399
Sturzenegger, A. et al. DNA2 cooperates with the WRN and BLM RecQ helicases to mediate long-range DNA end resection in human cells. J. Biol. Chem. 289, 27314–27326 (2014).
pubmed: 25122754 pmcid: 4175362 doi: 10.1074/jbc.M114.578823
Pinto C., Kasaciunaite K., Seidel R. & Cejka P. Human DNA2 possesses a cryptic DNA unwinding activity that functionally integrates with BLM or WRN helicases. Elife 5, e18574 (2016).
Liu, W. et al. A selective small molecule DNA2 inhibitor for sensitization of human cancer cells to chemotherapy. EBioMedicine 6, 73–86 (2016).
pubmed: 27211550 pmcid: 4856754 doi: 10.1016/j.ebiom.2016.02.043
Masuda-Sasa, T., Polaczek, P., Peng, X. P., Chen, L. & Campbell, J. L. Processing of G4 DNA by Dna2 helicase/nuclease and replication protein A (RPA) provides insights into the mechanism of Dna2/RPA substrate recognition. J. Biol. Chem. 283, 24359–24373 (2008).
pubmed: 18593712 pmcid: 2528986 doi: 10.1074/jbc.M802244200
Lin, W. et al. Mammalian DNA2 helicase/nuclease cleaves G-quadruplex DNA and is required for telomere integrity. EMBO J. 32, 1425–1439 (2013).
pubmed: 23604072 pmcid: 3655473 doi: 10.1038/emboj.2013.88
Nimonkar, A. V. et al. BLM-DNA2-RPA-MRN and EXO1-BLM-RPA-MRN constitute two DNA end resection machineries for human DNA break repair. Genes Dev. 25, 350–362 (2011).
pubmed: 21325134 pmcid: 3042158 doi: 10.1101/gad.2003811
Sidorova J. M., Kehrli K., Mao F. & Monnat R., Jr. Distinct functions of human RECQ helicases WRN and BLM in replication fork recovery and progression after hydroxyurea-induced stalling. DNA Repair 12, 128–139 (2013).
Hu, Y. et al. RECQL5/Recql5 helicase regulates homologous recombination and suppresses tumor formation via disruption of Rad51 presynaptic filaments. Genes Dev. 21, 3073–3084 (2007).
pubmed: 18003859 pmcid: 2081974 doi: 10.1101/gad.1609107
Saponaro, M. et al. RECQL5 controls transcript elongation and suppresses genome instability associated with transcription stress. Cell 157, 1037–1049 (2014).
pubmed: 24836610 pmcid: 4032574 doi: 10.1016/j.cell.2014.03.048
Urban, V. et al. RECQ5 helicase promotes resolution of conflicts between replication and transcription in human cells. J. Cell Biol. 214, 401–415 (2016).
pubmed: 27502483 pmcid: 4987291 doi: 10.1083/jcb.201507099
Ghosh, A. K. et al. RECQL4, the protein mutated in Rothmund-Thomson syndrome, functions in telomere maintenance. J. Biol. Chem. 287, 196–209 (2012).
pubmed: 22039056 doi: 10.1074/jbc.M111.295063
Masai, H. RecQL4: a helicase linking formation and maintenance of a replication fork. J. Biochem. 149, 629–631 (2011).
pubmed: 21436139 doi: 10.1093/jb/mvr031
Popuri, V. et al. RECQL5 plays co-operative and complementary roles with WRN syndrome helicase. Nucleic Acids Res. 45, 1566 (2017).
pubmed: 28180303 doi: 10.1093/nar/gkw1216
Singh, D. K. et al. The human RecQ helicases BLM and RECQL4 cooperate to preserve genome stability. Nucleic Acids Res. 40, 6632–6648 (2012).
pubmed: 22544709 pmcid: 3413146 doi: 10.1093/nar/gks349
Zyner K. G. et al. Genetic interactions of G-quadruplexes in humans. Elife 8, e46793 (2019).
Groza, T. et al. The International Mouse Phenotyping Consortium: comprehensive knockout phenotyping underpinning the study of human disease. Nucleic Acids Res. 51, D1038–D1045 (2023).
pubmed: 36305825 doi: 10.1093/nar/gkac972
Aressy, B. et al. A screen for deubiquitinating enzymes involved in the G(2)/M checkpoint identifies USP50 as a regulator of HSP90-dependent Wee1 stability. Cell Cycle 9, 3815–3822 (2010).
pubmed: 20930503 doi: 10.4161/cc.9.18.13133
Buus, R., Faronato, M., Hammond, D. E., Urbe, S. & Clague, M. J. Deubiquitinase activities required for hepatocyte growth factor-induced scattering of epithelial cells. Curr. Biol. 19, 1463–1466 (2009).
pubmed: 19699092 pmcid: 2764384 doi: 10.1016/j.cub.2009.07.040
Walden, M., Masandi, S. K., Pawlowski, K. & Zeqiraj, E. Pseudo-DUBs as allosteric activators and molecular scaffolds of protein complexes. Biochem. Soc. Trans. 46, 453–466 (2018).
pubmed: 29472364 doi: 10.1042/BST20160268
Singh, P., Zheng, L., Chavez, V., Qiu, J. & Shen, B. Concerted action of exonuclease and Gap-dependent endonuclease activities of FEN-1 contributes to the resolution of triplet repeat sequences (CTG)n- and (GAA)n-derived secondary structures formed during maturation of Okazaki fragments. J. Biol. Chem. 282, 3465–3477 (2007).
pubmed: 17138563 doi: 10.1074/jbc.M606582200
Liu, R., Qiu, J., Finger, L. D., Zheng, L. & Shen, B. The DNA-protein interaction modes of FEN-1 with gap substrates and their implication in preventing duplication mutations. Nucleic Acids Res. 34, 1772–1784 (2006).
pubmed: 16582103 pmcid: 1421507 doi: 10.1093/nar/gkl106
Huang, S. et al. Characterization of the human and mouse WRN 3’–>5’ exonuclease. Nucleic Acids Res. 28, 2396–2405 (2000).
pubmed: 10871373 pmcid: 102739 doi: 10.1093/nar/28.12.2396
Shen, J. C. & Loeb, L. A. The Werner syndrome gene: the molecular basis of RecQ helicase-deficiency diseases. Trends Genet. 16, 213–220 (2000).
pubmed: 10782115 doi: 10.1016/S0168-9525(99)01970-8
Yoon, J. H., Sellamuthu, K., Prakash, L. & Prakash, S. WRN exonuclease imparts high fidelity on translesion synthesis by Y family DNA polymerases. Genes Dev. 38, 213–232 (2024).
pubmed: 38503516 pmcid: 11065173 doi: 10.1101/gad.351410.123
Kamath-Loeb, A. S., Lan, L., Nakajima, S., Yasui, A. & Loeb, L. A. Werner syndrome protein interacts functionally with translesion DNA polymerases. Proc. Natl Acad. Sci. USA 104, 10394–10399 (2007).
pubmed: 17563354 pmcid: 1965524 doi: 10.1073/pnas.0702513104
Gray, M. D. et al. The Werner syndrome protein is a DNA helicase. Nat. Genet. 17, 100–103 (1997).
pubmed: 9288107 doi: 10.1038/ng0997-100
Brosh, R. M. Jr., Opresko, P. L. & Bohr, V. A. Enzymatic mechanism of the WRN helicase/nuclease. Methods Enzymol. 409, 52–85 (2006).
pubmed: 16793395 doi: 10.1016/S0076-6879(05)09004-X
Datta, A. et al. WRN helicase safeguards deprotected replication forks in BRCA2-mutated cancer cells. Nat. Commun. 12, 6561 (2021).
pubmed: 34772932 pmcid: 8590011 doi: 10.1038/s41467-021-26811-w
Hansel-Hertsch, R., Spiegel, J., Marsico, G., Tannahill, D. & Balasubramanian, S. Genome-wide mapping of endogenous G-quadruplex DNA structures by chromatin immunoprecipitation and high-throughput sequencing. Nat. Protoc. 13, 551–564 (2018).
pubmed: 29470465 doi: 10.1038/nprot.2017.150
Lyu, J., Shao, R., Yung, Kwong & Elsasser, P. Y. SJ. Genome-wide mapping of G-quadruplex structures with CUT&Tag. Nucleic Acids Res. 50, e13 (2022).
pubmed: 34792172 doi: 10.1093/nar/gkab1073
Marsico, G. et al. Whole genome experimental maps of DNA G-quadruplexes in multiple species. Nucleic Acids Res. 47, 3862–3874 (2019).
pubmed: 30892612 pmcid: 6486626 doi: 10.1093/nar/gkz179
Falquet, B. et al. Disease-associated DNA2 nuclease-helicase protects cells from lethal chromosome under-replication. Nucleic Acids Res. 48, 7265–7278 (2020).
pubmed: 32544229 pmcid: 7367196
Thakar, T. et al. Ubiquitinated-PCNA protects replication forks from DNA2-mediated degradation by regulating Okazaki fragment maturation and chromatin assembly. Nat. Commun. 11, 2147 (2020).
pubmed: 32358495 pmcid: 7195461 doi: 10.1038/s41467-020-16096-w
Sangrithi, M. N. et al. Initiation of DNA replication requires the RECQL4 protein mutated in Rothmund-Thomson syndrome. Cell 121, 887–898 (2005).
pubmed: 15960976 doi: 10.1016/j.cell.2005.05.015
Xu, X. & Liu, Y. Dual DNA unwinding activities of the Rothmund-Thomson syndrome protein, RECQ4. EMBO J. 28, 568–577 (2009).
pubmed: 19177149 pmcid: 2657580 doi: 10.1038/emboj.2009.13
Thangavel, S. et al. Human RECQ1 and RECQ4 helicases play distinct roles in DNA replication initiation. Mol. Cell Biol. 30, 1382–1396 (2010).
pubmed: 20065033 pmcid: 2832491 doi: 10.1128/MCB.01290-09
Luong, T. T. et al. Hrq1/RECQL4 regulation is critical for preventing aberrant recombination during DNA intrastrand crosslink repair and is upregulated in breast cancer. PLoS Genet. 18, e1010122 (2022).
pubmed: 36126066 pmcid: 9488787 doi: 10.1371/journal.pgen.1010122
Lu, H. et al. RECQL4 promotes DNA end resection in repair of DNA double-strand breaks. Cell Rep. 16, 161–173 (2016).
pubmed: 27320928 pmcid: 5576896 doi: 10.1016/j.celrep.2016.05.079
Speina, E. et al. Human RECQL5beta stimulates flap endonuclease 1. Nucleic Acids Res. 38, 2904–2916 (2010).
pubmed: 20081208 pmcid: 2875029 doi: 10.1093/nar/gkp1217
Rossi, M. L., Ghosh, A. K., Kulikowicz, T., Croteau, D. L. & Bohr, V. A. Conserved helicase domain of human RecQ4 is required for strand annealing-independent DNA unwinding. DNA Repair (Amst.) 9, 796–804 (2010).
pubmed: 20451470 doi: 10.1016/j.dnarep.2010.04.003
Budhathoki, J. B. et al. RecQ-core of BLM unfolds telomeric G-quadruplex in the absence of ATP. Nucleic Acids Res. 42, 11528–11545 (2014).
pubmed: 25245947 pmcid: 4191421 doi: 10.1093/nar/gku856
Sowa, M. E., Bennett, E. J., Gygi, S. P. & Harper, J. W. Defining the human deubiquitinating enzyme interaction landscape. Cell 138, 389–403 (2009).
pubmed: 19615732 pmcid: 2716422 doi: 10.1016/j.cell.2009.04.042
Butler, L. R. et al. The proteasomal de-ubiquitinating enzyme POH1 promotes the double-strand DNA break response. EMBO J. 31, 3918–3934 (2012).
pubmed: 22909820 pmcid: 3463844 doi: 10.1038/emboj.2012.232
Jumper, J. et al. Highly accurate protein structure prediction with AlphaFold. Nature 596, 583–589 (2021).
pubmed: 34265844 pmcid: 8371605 doi: 10.1038/s41586-021-03819-2
Schindelin, J. et al. Fiji: an open-source platform for biological-image analysis. Nat. Methods 9, 676–682 (2012).
pubmed: 22743772 doi: 10.1038/nmeth.2019
Rueden, C. T. et al. ImageJ2: ImageJ for the next generation of scientific image data. BMC bioinformatics 18, 529 (2017).
pubmed: 29187165 pmcid: 5708080 doi: 10.1186/s12859-017-1934-z
Cruz-García, A., López-Saavedra, A. & Huertas, P. BRCA1 accelerates CtIP-mediated DNA-end resection. Cell Rep. 9, 451–459 (2014).
pubmed: 25310973 doi: 10.1016/j.celrep.2014.08.076
Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357–359 (2012).
pubmed: 22388286 pmcid: 3322381 doi: 10.1038/nmeth.1923
Quinlan, A. R. & Hall, I. M. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841–842 (2010).
pubmed: 20110278 pmcid: 2832824 doi: 10.1093/bioinformatics/btq033
Santana-Garcia, W. et al. RSAT 2022: regulatory sequence analysis tools. Nucleic Acids Res. 50, W670–W676 (2022).
pubmed: 35544234 pmcid: 9252783 doi: 10.1093/nar/gkac312
Williams E. S., Bailey S. M. Chromosome orientation fluorescence in situ hybridization (CO-FISH). Cold Spring Harb. Protoc. 2009, pdb prot5269 (2009).

Auteurs

Hannah L Mackay (HL)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Helen R Stone (HR)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.
CCTT-C Cancer Research UK, Clinical trials unit, Sir Robert Aitken building, College of Medicine and Health, University of Birmingham, Birmingham, B15 2TT, UK.

George E Ronson (GE)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Katherine Ellis (K)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.
School of Chemical, Materials and Biological Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK.

Alexander Lanz (A)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Yara Aghabi (Y)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Alexandra K Walker (AK)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Katarzyna Starowicz (K)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.
Adthera Bio, Lyndon House, 62 Hagley Road, Birmingham, B16 8PE, UK.

Alexander J Garvin (AJ)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.
SUMO Biology Lab, School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, UK.

Patrick Van Eijk (P)

Broken String Biosciences Ltd., BioData Innovation Centre, Unit AB3-03, Level 3, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1DR, UK.
Division of Cancer & Genetics School of Medicine, Cardiff University, Heath Park, Cardiff, CF14 4XN, UK.

Stefan A Koestler (SA)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Elizabeth J Anthony (EJ)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Ann Liza Piberger (AL)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Anoop S Chauhan (AS)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Poppy Conway-Thomas (P)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Alina Vaitsiankova (A)

Genome Damage and Stability Centre, School of Life Sciences, University of Sussex, Falmer, Brighton, BN1 9RQ, UK.
Department of Genetics and Development, Herbert Irving Comprehensive Cancer Center, Columbia University Irving Medical Center, New York, NY, USA.

Sobana Vijayendran (S)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.
University Hospital Birmingham N.H.S. Foundation Trust, Queen Elizabeth Hospital Birmingham, Mindelsohn Way, Birmingham, B15 2TH, UK.

James F Beesley (JF)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Eva Petermann (E)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Eric J Brown (EJ)

Abramson Family Cancer Research Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, 421 Curie Boulevard PA, 19104-6160, USA.

Ruth M Densham (RM)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Simon H Reed (SH)

Broken String Biosciences Ltd., BioData Innovation Centre, Unit AB3-03, Level 3, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1DR, UK.
Division of Cancer & Genetics School of Medicine, Cardiff University, Heath Park, Cardiff, CF14 4XN, UK.

Felix Dobbs (F)

Broken String Biosciences Ltd., BioData Innovation Centre, Unit AB3-03, Level 3, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1DR, UK.
Division of Cancer & Genetics School of Medicine, Cardiff University, Heath Park, Cardiff, CF14 4XN, UK.

Marco Saponaro (M)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK.

Joanna R Morris (JR)

Birmingham Centre for Genome Biology and Institute of Cancer and Genomic Sciences, University of Birmingham, Birmingham, B15 2TT, UK. j.morris.3@bham.ac.uk.

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