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Boddy, Michael
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Boddy, Michael

Faculty Member
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Positions

  • 2017 - Associate Professor, Molecular Medicine , Scripps Research
  • 2002 - Faculty Member, Skaggs Graduate School of Chemical and Biological Sciences , Scripps Research
  • 2013 - 2017 Associate Professor, Cell and Molecular Biology (CMB) , Scripps Research
  • 2007 - 2012 Associate Professor, Molecular Biology , Scripps Research
  • 2002 - 2007 Assistant Professor, Molecular Biology , Scripps Research
  • 1997 - 2002 Research Associate, Molecular Biology , Scripps Research
Dr. Michael Boddy studies proteins that repair DNA and maintain the integrity of the genome and asks how these repair mechanisms are relevant to cancer and other human diseases.

Research Areas research areas

  • Cancer (UMLS)

Contact

  • nboddy@scripps.edu

Websites

  • Michael Boddy, Ph.D.
  • Laboratory Website
  • Publications
  • Research
  • Teaching
  • Background
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Publications

recent publications
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  • Publications without PubMed PMIDs

  • academic article

    • Loe, T. K., Li, J. S. Z., Zhang, Y., Azeroglu, B., Boddy, M. N., Denchi, E. L. Telomere length heterogeneity in ALT cells is maintained by PML-dependent localization of the BTR complex to telomeres Genes & Development  2020 34:650-662  DOI:10.1101/gad.333963.119  PMID:32217664  PMCID:PMC7197349
    • Oravcova, M., Boddy, M. N. Recruitment, loading, and activation of the Smc5-Smc6 SUMO ligase Current Genetics  2019 65:669-676  DOI:10.1007/s00294-018-0922-9  PMID:30600397  PMCID:PMC6511331
    • Oravcova, M., Gadaleta, M. C., Nie, M. H., Reubens, M. C., Limbo, O., Russell, P., Boddy, M. N. Brc1 promotes the focal accumulation and SUMO ligase activity of Smc5-Smc6 during replication stress Molecular and Cellular Biology  2019 39:00271-18  DOI:10.1128/mcb.00271-18  PMID:30348841  PMCID:PMC6321882
    • Nie, M., Moser, B. A., Nakamura, T. M., Boddy, M. N. SUMO-targeted ubiquitin ligase activity can either suppress or promote genome instability, depending on the nature of the DNA lesion PLoS Genetics  2017 13  DOI:10.1371/journal.pgen.1006776  PMID:28475613  PMCID:PMC5438191
    • Nie, M., Arner, E., Prudden, J., Schaffer, L., Head, S., Boddy, M. N. Functional crosstalk between the PP2A and SUMO pathways revealed by analysis of STUbL suppressor, razor 1-1 PLoS Genetics  2016 12  DOI:10.1371/journal.pgen.1006165  PMID:27398807  PMCID:PMC4939958
    • Nie, M., Vashisht, A. A., Wohlschlegel, J. A., Boddy, M. N. High confidence fission yeast SUMO conjugates identified by tandem denaturing affinity purification Scientific Reports  2015 5:14389  DOI:10.1038/srep14389  PMID:26404184  PMCID:PMC4585906
    • Nie, M., Boddy, M. N. Pli1(PIAS1) SUMO ligase protected by the nuclear pore-associated SUMO protease Ulp1(SENP1/2) Journal of Biological Chemistry  2015 290:22678-22685  DOI:10.1074/jbc.M115.673038  PMID:26221037  PMCID:PMC4566240
    • Zilio, N., Codlin, S., Vashisht, A. A., Bitton, D. A., Head, S. R., Wohlschlegel, J. A., Bahler, J., Boddy, M. N. A novel histone deacetylase complex in the control of transcription and genome stability Molecular and Cellular Biology  2014 34:3500-3514  DOI:10.1128/mcb.00519-14  PMID:25002536  PMCID:PMC4135615
    • Groocock, L. M., Nie, M., Prudden, J., Moiani, D., Wang, T., Cheltsov, A., Rambo, R. P., Arvai, A. S., Hitomi, C., Tainer, J. A., Luger, K., Perry, J. J. P., et al. RNF4 interacts with both SUMO and nucleosomes to promote the DNA damage response EMBO Reports  2014 15:601-608  DOI:10.1002/embr.201338369  PMID:24714598  PMCID:PMC4210088
    • Zilio, N., Wehrkamp-Richter, S., Boddy, M. N. A new versatile system for rapid control of gene expression in the fission yeast Schizosaccharomyces pombe Yeast  2012 29:425-434  DOI:10.1002/yea.2920  PMID:22968950  PMCID:PMC3478897
    • Wehrkamp-Richter, S., Hyppa, R. W., Prudden, J., Smith, G. R., Boddy, M. N. Meiotic DNA joint molecule resolution depends on Nse5-Nse6 of the Smc5-Smc6 holocomplex Nucleic Acids Research  2012 40:9633-9646  DOI:10.1093/nar/gks713  PMID:22855558  PMCID:PMC3479181
    • Nie, M. H., Aslanian, A., Prudden, J., Heideker, J., Vashisht, A. A., Wohlschlegel, J. A., Yates, J. R., Boddy, M. N. Dual recruitment of Cdc48 (p97)-Ufd1-Npl4 ubiquitin-selective segregase by small ubiquitin-like modifier protein (SUMO) and ubiquitin in SUMO-targeted ubiquitin ligase-mediated genome stability functions Journal of Biological Chemistry  2012 287:29610-29619  DOI:10.1074/jbc.M112.379768  PMID:22730331  PMCID:PMC3436128
    • Groocock, L. M., Prudden, J., Perry, J. J. P., Boddy, M. N. The RecQ4 orthologue Hrq1 is critical for DNA interstrand cross-link repair and genome stability in fission yeast Molecular and Cellular Biology  2012 32:276-287  DOI:10.1128/mcb.06184-11  PMID:22064477  PMCID:PMC3255783
    • Prudden, J., Perry, J. J. P., Nie, M. H., Vashisht, A. A., Arvai, A. S., Hitomi, C., Guenther, G., Wohlschlegel, J. A., Tainer, J. A., Boddy, M. N. DNA repair and global sumoylation are regulated by distinct Ubc9 noncovalent complexes Molecular and Cellular Biology  2011 31:2299-2310  DOI:10.1128/mcb.05188-11  PMID:21444718  PMCID:PMC3133251
    • Bekes, M., Prudden, J., Srikumar, T., Raught, B., Boddy, M. N., Salvesen, G. S. The dynamics and mechanism of SUMO chain deconjugation by SUMO-specific proteases Journal of Biological Chemistry  2011 286:10238-10247  DOI:10.1074/jbc.M110.205153  PMID:21247896  PMCID:PMC3060478
    • Heideker, J., Prudden, J., Perry, J. J. P., Tainer, J. A., Boddy, M. N. SUMO-targeted ubiquitin ligase, Rad60, and Nse2 SUMO ligase suppress spontaneous Top1-mediated DNA damage and genome instability PLoS Genetics  2011 7:e1001320  DOI:10.1371/journal.pgen.1001320  PMID:21408210  PMCID:PMC3048374
    • Prudden, J., Perry, J. J. P., Arvai, A. S., Tainer, J. A., Boddy, M. N. Molecular mimicry of SUMO promotes DNA repair Nature Structural & Molecular Biology  2009 16:509-516  DOI:10.1038/nsmb.1582  PMID:19363481  PMCID:PMC2711901
    • Heideker, J., Perry, J. J. P., Boddy, M. N. Genome stability roles of sumo-targeted ubiquitin ligases DNA Repair  2009 8:517-524  DOI:10.1016/j.dnarep.2009.01.010  PMID:19233742  PMCID:PMC2685196
    • Pebernard, S., Schaffer, L., Campbell, D., Head, S. R., Boddy, M. N. Localization of Smc5/6 to centromeres and telomeres requires heterochromatin and SUMO, respectively EMBO Journal  2008 27:3011-3023  DOI:10.1038/emboj.2008.220  PMID:18923417  PMCID:PMC2585169
    • Pebernard, S., Perry, J. J. P., Tainer, J. A., Boddy, M. N. Nse1 RING-like domain supports functions of the Smc5-Smc6 holocomplex in genome stability Molecular Biology of the Cell  2008 19:4099-4109  DOI:10.1091/mbc.E08-02-0226  PMID:18667531  PMCID:PMC2555936
    • Perry, J. J. P., Tainer, J. A., Boddy, M. N. A sim-ultaneous role for SUMO and ubiquitin Trends in Biochemical Sciences  2008 33:201-208  DOI:10.1016/j.tibs.2008.02.001  PMID:18403209
    • Prudden, J., Pebernard, S., Raffa, G., Slavin, D. A., Perry, J. J. P., Tainer, J. A., McGowan, C. H., Boddy, M. N. Sumo-targeted ubiquitin ligases in genome stability EMBO Journal  2007 26:4089-4101  DOI:10.1038/sj.emboj.7601838  PMID:17762865  PMCID:PMC2230673
    • Raffa, G. D., Wohlschlegel, J., Yates, J. R., Boddy, M. N. SUMO-binding motifs mediate the Rad60-dependent response to replicative stress and self-association Journal of Biological Chemistry  2006 281:27973-27981  DOI:10.1074/jbc.M601943200  PMID:16880212
    • Pebernard, S., Wohschlegel, J., McDonald, W. H., Yates, J. R., Boddy, M. N. The Nse5-Nse6 dimer mediates DNA repair roles of the Smc5-Smc6 complex Molecular and Cellular Biology  2006 26:1617-1630  DOI:10.1128/mcb.26.5.1617-1630.2006  PMID:16478984  PMCID:PMC1430260
    • Kai, M., Boddy, M. N., Russell, P., Wang, T. S. F. Replication checkpoint kinase Cds1 regulates Mus81 to reserve genome integrity during replication stress Genes & Development  2005 19:919-932  DOI:10.1101/gad.1304305  PMID:15805465  PMCID:PMC1080131
    • Pebernard, S., McDonald, W. H., Pavlova, Y., Yates, J. R., Boddy, M. N. Nse1, Nse2, and a novel subunit of the Smc5-Smc6 complex, Nse3, play a crucial role in meiosis Molecular Biology of the Cell  2004 15:4866-4876  DOI:10.1091/mbc.E04-05-0436  PMID:15331764  PMCID:PMC524734
    • Blais, V., Gao, H., Elwell, C. A., Boddy, M. N., Gaillard, P. H. L., Russell, P., McGowan, C. H. RNA interference inhibition of Mus81 reduces mitotic recombination in human cells Molecular Biology of the Cell  2004 15:552-562  DOI:10.1091/mbc.E03-08-0580  PMID:14617801  PMCID:PMC329235
    • McDonald, W. H., Pavlova, Y., Yates, J. R., Boddy, M. N. Novel essential DNA repair proteins Nse1 and Nse2 are subunits of the fission yeast Smc5-Smc6 complex Journal of Biological Chemistry  2003 278:45460-45467  DOI:10.1074/jbc.M308828200  PMID:12966087
    • Boddy, M. N., Shanahan, P., McDonald, W. H., Lopez-Girona, A., Noguchi, E., Yates, J. R., Russell, P. Replication checkpoint kinase Cds1 regulates recombinational repair protein Rad60 Molecular and Cellular Biology  2003 23:5939-5946  DOI:10.1128/mcb.23.16.5939-5946.2003  PMID:12897162  PMCID:PMC166335
    • Smith, G. R., Boddy, M. N., Shanahan, P., Russell, P. Fission yeast Mus81.Eme1 Holliday junction resolvase is required for meiotic crossing over but not for gene conversion Genetics  2003 165:2289-2293  PMID:14704204  PMCID:PMC1462924
    • Boddy, M. N., Russell, P. DNA replication checkpoint Current Biology  2001 11:R953-R956  DOI:10.1016/s0960-9822(01)00572-3  PMID:11728320
    • Boddy, M. N., Gaillard, P. H. L., McDonald, W. H., Shanahan, P., Yates, J. R., Russell, P. Mus81-Eme1 are essential components of a Holliday junction resolvase Cell  2001 107:537-548  DOI:10.1016/s0092-8674(01)00536-0  PMID:11719193
    • Chen, X. B., Melchionna, R., Denis, C. M., Gaillard, P. H. L., Blasina, A., Van de Weyer, I., Boddy, M. N., Russell, P., Vialard, J., McGowan, C. H. Human Mus81-associated endonuclease cleaves Holliday junctions in vitro Molecular Cell  2001 8:1117-1127  DOI:10.1016/s1097-2765(01)00375-6  PMID:11741546
    • Tanaka, K., Boddy, M. N., Chen, X. B., McGowan, C. H., Russell, P. Threonine-11, phosphorylated by Rad3 and atm in vitro, is required for activation of fission yeast checkpoint kinase Cds1 Molecular and Cellular Biology  2001 21:3398-3404  DOI:10.1128/mcb.21.10.3398-3404.2001  PMID:11313465
    • Boddy, M. N., Lopez-Girona, A., Shanahan, P., Interthal, H., Heyer, W. D., Russell, P. Damage tolerance protein Mus81 associates with the FHA1 domain of checkpoint kinase Cds1 Molecular and Cellular Biology  2000 20:8758-8766  DOI:10.1128/mcb.20.23.8758-8766.2000  PMID:11073977
    • Rhind, N., Baber-Furnari, B. A., Lopez-Girona, A., Boddy, M. N., Brondello, J. M., Moser, B., Shanahan, P., Blasina, A., McGowan, C., Russell, P. DNA damage checkpoint control of mitosis in fission yeast Cold Spring Harbor Symposia on Quantitative Biology  2000 65:353-359  DOI:10.1101/sqb.2000.65.353  PMID:12760050
    • Baber-Furnari, B. A., Rhind, N., Boddy, M. N., Shanahan, P., Lopez-Girona, A., Russell, P. Regulation of mitotic inhibitor Mik1 helps to enforce the DNA damage checkpoint Molecular Biology of the Cell  2000 11:1-11  DOI:10.1091/mbc.11.1.1  PMID:10637286  PMCID:PMC14752
    • Brondello, J. M., Boddy, M. N., Furnari, B., Russell, P. Basis for the checkpoint signal specificity that regulates Chk1 and Cds1 protein kinases Molecular and Cellular Biology  1999 19:4262-4269  PMID:10330167  PMCID:PMC104386
    • Furnari, B., Blasina, A., Boddy, M. N., McGowan, C. H., Russell, P. Cdc25 inhibited in vivo and in vitro by checkpoint kinases Cds1 and Chk1 Molecular Biology of the Cell  1999 10:833-845  DOI:10.1091/mbc.10.4.833  PMID:10198041  PMCID:PMC25205
    • Duprez, E., Saurin, A. J., Desterro, J. M., Lallemand-Breitenbach, V., Howe, K., Boddy, M. N., Solomon, E., de The, H., Hay, R. T., Freemont, P. S. SUMO-1 modification of the acute promyelocytic leukaemia protein PML: implications for nuclear localisation Journal of Cell Science  1999 112:381-393  PMID:9885291
    • Boddy, M. N., Russell, P. DNA replication checkpoint control Frontiers in Bioscience  1999 4:D841-D848  PMID:10577839
    • Boddy, M. N., Furnari, B., Mondesert, O., Russell, P. Replication checkpoint enforced by kinases Cds1 and Chk1 Science  1998 280:909-912  DOI:10.1126/science.280.5365.909  PMID:9572736
    • Howe, K., Williamson, J., Boddy, N., Sheer, D., Freemont, P., Solomon, E. The ubiquitin-homology gene PIC1: Characterization of mouse (Pic1) and human (UBL1) genes and pseudogenes Genomics  1998 47:92-100  DOI:10.1006/geno.1997.5091  PMID:9465300
    • Boddy, M. N., Duprez, E., Borden, K. L. B., Freemont, P. S. Surface residue mutations of the PML RING finger domain alter the formation of nuclear matrix-associated PML bodies Journal of Cell Science  1997 110:2197-2205  PMID:9378769
    • Boddy, M. N., Howe, K., Etkin, L. D., Solomon, E., Freemont, P. S. PIC 1, a novel ubiquitin-like protein which interacts with the PML component of a multiprotein complex that is disrupted in acute promyelocytic leukaemia Oncogene  1996 13:971-982  PMID:8806687
    • Saurin, A. J., Borden, K. L. B., Boddy, M. N., Freemont, P. S. Does this have a familiar ring? Trends in Biochemical Sciences  1996 21:208-214  DOI:10.1016/s0968-0004(96)80017-x  PMID:8744354
    • Otto, W. R., Nanchahal, J., Lu, Q. L., Boddy, N., Dover, R. Survival of allogeneic cells in cultured organotypic skin grafts Plastic and Reconstructive Surgery  1995 96:166-176  DOI:10.1097/00006534-199507000-00025  PMID:7604097
    • Borden, K. L. B., Boddy, M. N., Lally, J., Oreilly, N. J., Martin, S., Howe, K., Solomon, E., Freemont, P. S. The solution structure of the RING finger domain from the acute promyelocytic leukaemia proto-oncoprotein PML EMBO Journal  1995 14:1532-1541  PMID:7729428  PMCID:PMC398240
    • Boddy, M. N., Freemont, P. S., Borden, K. L. B. The p53-associated protein MDM2 contains a newly characterized zinc-binding domain called the RING finger Trends in Biochemical Sciences  1994 19:198-199  DOI:10.1016/0968-0004(94)90020-5  PMID:8048160

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Research

research overview

  • DNA Repair and the Maintenance of Genomic Stability

    Our laboratory uses the genetically tractable fission yeast as a model system to study proteins involved in the maintenance of genomic stability. Loss of genomic integrity is causally associated with cancer and other diseases. The pathways that we study are highly conserved across species and thus provide a valuable framework for analysis of the analogous human pathways.

    Currently we are studying functional interactions between proteins of the DNA repair and replication checkpoint systems. The replication checkpoint senses replication perturbations and coordinates cellular responses such as cell-cycle arrest, replication fork-stabilization and DNA repair. The enforcer of the replication checkpoint is a kinase called Cds1 (Human Chk2). The way in which Cds1 arrests cell-cycle progression when replication is blocked has been worked out in some detail. However, little is known about the targets of Cds1 that are important for replication fork stability and DNA repair. We have identified novel DNA repair factors that are regulated via Cds1-dependent phosphorylation. We are currently determining the precise molecular function(s) of these DNA repair proteins so that we can understand how their regulation by Cds1 mitigates genome damage.

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Teaching

advisees

  • graduate advising relationship

    • Heideker, Christine Johanna, Ph.D.  candidate, 2007 - 2011
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Background

education and training

  • Ph.D., King's College London , Imperial Cancer Research Fund 1996
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Contact

full name

  • Michael Boddy

geographic location

  • Scripps California 

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