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Raymond J. Monnat Jr., MD

NGEC Principal Investigator

Professor of Genome Sciences and Pathology
University of Washington

Department of Biochemistry
University of Washington School of Medicine
Health Sciences K-072C, Box 357705
1959 NE Pacific St.
Seattle, WA 98195
Tel: 206-616-7392; Fax: 206-543-3967

E-mail Dr. Monnat

Dr. Monnat is a professor in the Departments of Pathology and Genome Sciences at the University of Washington. His laboratory studies the role of genetic insability in cancer risk and pathogenesis, and he has had a longstanding interest in the use of homing endonucleases as tools for targeted induction of double strand breaks. Specific ongoing projects in his lab address instability mechanisms in the human RecQ helicase deficiency syndromes, control of large scale gene rearrangements, double strand break DNA repair, and the spectrum and frequency of somatic mutations in vivo.

Dr. Monnat is the principal investigator for the NGEC in the area of novel homing endonucleases for genome engineering.
 


"The NGEC is a new and exciting opportunity to bring our longstanding interest in homing endonucleases to bear on practical as well as more basic problems in human biology and disease."
Ray Monnat

Awards and Honors

  • Experimental Pathologist-in-Training Award, American Association of Pathologists: 1984
  • Outstanding Teaching Award (from 1990 Entering Class of the University of Washington School of Medicine): 1991
  • Exemplary Leadership in Teaching Award, University of Washington School of Medicine (University of Washington Chair and plaque awarded): 1997
  • Distinguished Service Award, Fanconi Anemia Research Fund: 2004

Areas of Expertise

  • Human RecQ helicase deficiency syndromes, such as Werner syndrome
  • Homing endonucleases and their use as genome engineering reagents
  • Human somatic mutation

Research Interests

  • Werner Syndrome
  • DNA Replication Dynamics
  • Homing Endonucleases

Overview of the Monnat Lab

The Monnat Laboratory research focuses on molecular mechanisms that insure the faithful transmission of genetic information in human somatic cells, and on the generation of novel genome engineering reagents for biology and medicine. The lab conducts research in two key areas:

Genetic stability mechanisms
The Monnat Lab works on a small gene family, the human RecQ helicases, which play key roles in nucleic acid metabolism and genetic stability assurance. Loss of function of three of these proteins, WRN, BLM and RECQ4, are associated with the heritable genetic instability/cancer predisposition diseases Werner, Bloom and Rothmund-Thomson syndromes. Research at the lab is focused on in vivo functions of these proteins, on regulation and on functional redundancy between different members of the human RecQ helicase family.

Genome engineering
Homing endonucleases are highly site-specific endonucleases that catalyze the lateral transfer of parasitic DNA elements in all Kingdoms of life. Dr. Monnat and his team have characterized structures and target site specificities of members of two families of these proteins, and have used results to engineer novel chimeric homing endonucleases with altered target site specificities. These new gene-specific reagents are being used for genome engineering, and have potential for disease therapy and prevention.
 

NGEC Research

Homing As part of its role in the NGEC, the Monnat Laboratory is working to:

  1. Develop and optimize new LAGLIDADG homing endonucleases (LHEs) for human genome engineering applications.
  2. Develop and validate target gene-specific LHEs that cleave human/mammalian disease gene targets in living cells.
  3. Demonstrate LHE cleavage-induced recombination to repair of disease gene mutations in human, mouse and canine target cells.

The Monnat Lab has had a very longstanding interest in using homing endonucleases for both fundamental biology and for disease research and therapy. The NGEC is a realization of Dr. Monnat and his team’s original work over the past 15 years to identify and develop homing endonucleases as genomics reagents. The lab seeks to answer questions such as: What new proteins can be found in nature? What new proteins can be engineered from nature’s “starter set”? What are the functional properties of HEGs as genome engineering reagents in mammalian cell?

Key personnel carrying out this research include Hui Li (postdoctoral fellow), Stefan Pellenz (postdoctoral fellow) and Blake Hovde (graduate student).


Publications

2013

Lauper JM, Monnat RJ.  2013.  Diabetes mellitus and cancer in Werner syndrome.. Acta Diabetol.
Berti M, Chaudhuri AR, Thangavel S, Gomathinayagam S, Kenig S, Vujanovic M, Odreman F, Glatter T, Graziano S, Mendoza-Maldonado R et al..  2013.  Human RECQ1 promotes restart of replication forks reversed by DNA topoisomerase I inhibition.. Nat Struct Mol Biol.
Lauper JM, Krause A, Vaughan TL, Monnat RJ.  2013.  Spectrum and risk of neoplasia in werner syndrome: a systematic review.. PLoS One. 8(4):e59709.

2012

Li H, Ulge UY, Hovde BT, Doyle LA, Monnat RJ.  2012.  Comprehensive homing endonuclease target site specificity profiling reveals evolutionary constraints and enables genome engineering applications.. Nucleic acids research. 40(6):2587-98.
Duxin JP, Moore HR, Sidorova J, Karanja K, Honaker Y, Dao B, Piwnica-Worms H, Campbell JL, Monnat RJ, Stewart SA.  2012.  An Okazaki fragment processing-independent role for human Dna2 during DNA replication.. The Journal of biological chemistry.

2011

Ulge UY, Baker DA, Monnat RJ.  2011.  Comprehensive computational design of mCreI homing endonuclease cleavage specificity for genome engineering.. Nucleic acids research. 39(10):4330-9.
Windbichler N, Menichelli M, Papathanos PA, Thyme SB, Li H, Ulge UY, Hovde BT, Baker D, Monnat RJ, Burt A et al..  2011.  A synthetic homing endonuclease-based gene drive system in the human malaria mosquito.. Nature.

2010

Monnat RJ.  2010.  Human RECQ helicases: roles in DNA metabolism, mutagenesis and cancer biology.. Seminars in cancer biology. 20(5):329-39.
Mao FJ, Sidorova JM, Lauper JM, Emond MJ, Monnat RJ.  2010.  The human WRN and BLM RecQ helicases differentially regulate cell proliferation and survival after chemotherapeutic DNA damage.. Cancer research. 70(16):6548-55.
Dhillon KK, Sidorova JM, Albertson TM, Anderson JB, Ladiges WC, Rabinovitch PS, Preston BD, Monnat RJ.  2010.  Divergent cellular phenotypes of human and mouse cells lacking the Werner syndrome RecQ helicase.. DNA repair. 9(1):11-22.
Thangavel S, Mendoza-Maldonado R, Tissino E, Sidorova JM, Yin J, Wang W, Monnat RJ, Falaschi A, Vindigni A.  2010.  Human RECQ1 and RECQ4 helicases play distinct roles in DNA replication initiation.. Molecular and cellular biology. 30(6):1382-96.

2009

Rey L, Sidorova JM, Puget N, Boudsocq F, Biard DSF, Monnat RJ, Cazaux C, Hoffmann J-S.  2009.  Human DNA polymerase eta is required for common fragile site stability during unperturbed DNA replication.. Molecular and cellular biology. 29(12):3344-54.
McConnell Smith A, Takeuchi R, Pellenz S, Davis L, Maizels N, Monnat RJ, Stoddard BL.  2009.  Generation of a nicking enzyme that stimulates site-specific gene conversion from the I-AniI LAGLIDADG homing endonuclease.. Proceedings of the National Academy of Sciences of the United States of America. 106(13):5099-104.
Sidorova JM, Li N, Schwartz DC, Folch A, Monnat RJ.  2009.  Microfluidic-assisted analysis of replicating DNA molecules.. Nature protocols. 4(6):849-61.
Li H, Pellenz S, Ulge U, Stoddard BL, Monnat RJ.  2009.  Generation of single-chain LAGLIDADG homing endonucleases from native homodimeric precursor proteins.. Nucleic acids research. 37(5):1650-62.

2008

Berkovich E, Monnat RJ, Kastan MB.  2008.  Assessment of protein dynamics and DNA repair following generation of DNA double-strand breaks at defined genomic sites.. Nature protocols. 3(5):915-22.
Loeb LA, Monnat RJ.  2008.  DNA polymerases and human disease.. Nature reviews. Genetics. 9(8):594-604.
Sidorova JM, Li N, Folch A, Monnat RJ.  2008.  The RecQ helicase WRN is required for normal replication fork progression after DNA damage or replication fork arrest.. Cell cycle (Georgetown, Tex.). 7(6):796-807.

2007

Volná P, Jarjour J, Baxter S, Roffler SR, Monnat RJ, Stoddard BL, Scharenberg AM.  2007.  Flow cytometric analysis of DNA binding and cleavage by cell surface-displayed homing endonucleases.. Nucleic acids research. 35(8):2748-58.
Eastberg JH, Eklund J, Monnat R, Stoddard BL.  2007.  Mutability of an HNH nuclease imidazole general base and exchange of a deprotonation mechanism.. Biochemistry. 46(24):7215-25.
Berkovich E, Monnat RJ, Kastan MB.  2007.  Roles of ATM and NBS1 in chromatin structure modulation and DNA double-strand break repair.. Nature cell biology. 9(6):683-90.
Sharma A, Awasthi S, Harrod CK, Matlock EF, Khan S, Xu L, Chan S, Yang H, Thammavaram CK, Rasor RA et al..  2007.  The Werner syndrome helicase is a cofactor for HIV-1 long terminal repeat transactivation and retroviral replication.. The Journal of biological chemistry. 282(16):12048-57.
Eklund JL, Ulge UY, Eastberg J, Monnat RJ.  2007.  Altered target site specificity variants of the I-PpoI His-Cys box homing endonuclease.. Nucleic acids research. 35(17):5839-50.
Monnat RJ.  2007.  From broken to old: DNA damage, IGF1 endocrine suppression and aging.. DNA repair. 6(9):1386-90.
Kudlow BA, Kennedy BK, Monnat RJ.  2007.  Werner and Hutchinson-Gilford progeria syndromes: mechanistic basis of human progeroid diseases.. Nature reviews. Molecular cell biology. 8(5):394-404.
Dhillon KK, Sidorova J, Saintigny Y, Poot M, Gollahon K, Rabinovitch PS, Monnat RJ.  2007.  Functional role of the Werner syndrome RecQ helicase in human fibroblasts.. Aging cell. 6(1):53-61.

2006

Ashworth J, Havranek JJ, Duarte CM, Sussman D, Monnat RJ, Stoddard BL, Baker D.  2006.  Computational redesign of endonuclease DNA binding and cleavage specificity.. Nature. 441(7093):656-9.

2005

Awasthi S, Sharma A, Wong K, Zhang J, Matlock EF, Rogers L, Motloch P, Takemoto S, Taguchi H, Cole MD et al..  2005.  A human T-cell lymphotropic virus type 1 enhancer of Myc transforming potential stabilizes Myc-TIP60 transcriptional interactions.. Molecular and cellular biology. 25(14):6178-98.

2004

Chevalier B, Sussman D, Otis C, Noël A-J, Turmel M, Lemieux C, Stephens K, Monnat RJ, Stoddard BL.  2004.  Metal-dependent DNA cleavage mechanism of the I-CreI LAGLIDADG homing endonuclease.. Biochemistry. 43(44):14015-26.
Sussman D, Chadsey M, Fauce S, Engel A, Bruett A, Monnat R, Stoddard BL, Seligman LM.  2004.  Isolation and characterization of new homing endonuclease specificities at individual target site positions.. Journal of molecular biology. 342(1):31-41.
Swanson C, Saintigny Y, Emond MJ, Monnat RJ.  2004.  The Werner syndrome protein has separable recombination and survival functions.. DNA repair. 3(5):475-82.
Monnat RJ, Saintigny Y.  2004.  Werner syndrome protein--unwinding function to explain disease.. Science of aging knowledge environment : SAGE KE. 2004(13):re3.

2003

Chevalier B, Turmel M, Lemieux C, Monnat RJ, Stoddard BL.  2003.  Flexible DNA target site recognition by divergent homing endonuclease isoschizomers I-CreI and I-MsoI.. Journal of molecular biology. 329(2):253-69.
Grandori C, Wu K-J, Fernandez P, Ngouenet C, Grim J, Clurman BE, Moser MJ, Oshima J, Russell DW, Swisshelm K et al..  2003.  Werner syndrome protein limits MYC-induced cellular senescence.. Genes & development. 17(13):1569-74.

2002

Saintigny Y, Makienko K, Swanson C, Emond MJ, Monnat RJ.  2002.  Homologous recombination resolution defect in werner syndrome.. Molecular and cellular biology. 22(20):6971-8.
Colgin LM, Hackmann AFM, Emond MJ, Monnat RJ.  2002.  The unexpected landscape of in vivo somatic mutation in a human epithelial cell lineage.. Proceedings of the National Academy of Sciences of the United States of America. 99(3):1437-42.
Chevalier BS, Kortemme T, Chadsey MS, Baker D, Monnat RJ, Stoddard BL.  2002.  Design, activity, and structure of a highly specific artificial endonuclease.. Molecular cell. 10(4):895-905.

2001

Prince PR, Emond MJ, Monnat RJ.  2001.  Loss of Werner syndrome protein function promotes aberrant mitotic recombination.. Genes & development. 15(8):933-8.
Chevalier BS, Monnat RJ, Stoddard BL.  2001.  The homing endonuclease I-CreI uses three metals, one of which is shared between the two active sites.. Nature structural biology. 8(4):312-6.

2000

Moser MJ, Bigbee WL, Grant SG, Emond MJ, Langlois RG, Jensen RH, Oshima J, Monnat RJ.  2000.  Genetic instability and hematologic disease risk in Werner syndrome patients and heterozygotes.. Cancer research. 60(9):2492-6.
Moser MJ, Kamath-Loeb AS, Jacob JE, Bennett SE, Oshima J, Monnat RJ.  2000.  WRN helicase expression in Werner syndrome cell lines.. Nucleic acids research. 28(2):648-54.
Flory MR, Moser MJ, Monnat RJ, Davis TN.  2000.  Identification of a human centrosomal calmodulin-binding protein that shares homology with pericentrin.. Proceedings of the National Academy of Sciences of the United States of America. 97(11):5919-23.
Galburt EA, Chadsey MS, Jurica MS, Chevalier BS, Erho D, Tang W, Monnat RJ, Stoddard BL.  2000.  Conformational changes and cleavage by the homing endonuclease I-PpoI: a critical role for a leucine residue in the active site.. Journal of molecular biology. 300(4):877-87.

1999

Prince PR, Ogburn CE, Moser MJ, Emond MJ, Martin GM, Monnat RJ.  1999.  Cell fusion corrects the 4-nitroquinoline 1-oxide sensitivity of Werner syndrome fibroblast cell lines.. Human genetics. 105(1-2):132-8.
Moser MJ, Oshima J, Monnat RJ.  1999.  WRN mutations in Werner syndrome.. Human mutation. 13(4):271-9.
Galburt EA, Chevalier B, Tang W, Jurica MS, Flick KE, Monnat RJ, Stoddard BL.  1999.  A novel endonuclease mechanism directly visualized for I-PpoI.. Nature structural biology. 6(12):1096-9.
Monnat RJ, Hackmann AF, Cantrell MA.  1999.  Generation of highly site-specific DNA double-strand breaks in human cells by the homing endonucleases I-PpoI and I-CreI.. Biochemical and biophysical research communications. 255(1):88-93.

1998

Jurica MS, Monnat RJ, Stoddard BL.  1998.  DNA recognition and cleavage by the LAGLIDADG homing endonuclease I-CreI.. Molecular cell. 2(4):469-76.
Argast GM, Stephens KM, Emond MJ, Monnat RJ.  1998.  I-PpoI and I-CreI homing site sequence degeneracy determined by random mutagenesis and sequential in vitro enrichment.. Journal of molecular biology. 280(3):345-53.
Flick KE, Jurica MS, Monnat RJ, Stoddard BL.  1998.  DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI.. Nature. 394(6688):96-101.

1997

Bennett SE, Umar A, Oshima J, Monnat RJ, Kunkel TA.  1997.  Mismatch repair in extracts of Werner syndrome cell lines.. Cancer research. 57(14):2956-60.
Seligman LM, Stephens KM, Savage JH, Monnat RJ.  1997.  Genetic analysis of the Chlamydomonas reinhardtii I-CreI mobile intron homing system in Escherichia coli.. Genetics. 147(4):1653-64.
Flick KE, McHugh D, Heath JD, Stephens KM, Monnat RJ, Stoddard BL.  1997.  Crystallization and preliminary X-ray studies of I-PpoI: a nuclear, intron-encoded homing endonuclease from Physarum polycephalum.. Protein science : a publication of the Protein Society. 6(12):2677-80.
Brooks-Wilson AR, Emond MJ, Monnat RJ.  1997.  Unexpectedly low loss of heterozygosity in genetically unstable Werner syndrome cell lines.. Genes, chromosomes & cancer. 18(2):133-42.
Heath PJ, Stephens KM, Monnat RJ, Stoddard BL.  1997.  The structure of I-Crel, a group I intron-encoded homing endonuclease.. Nature structural biology. 4(6):468-76.
Stephens KM, Monnat RJ, Heath PJ, Stoddard BL.  1997.  Crystallization and preliminary X-ray studies of I-CreI: a group I intron-encoded endonuclease from C. reinhardtii.. Proteins. 28(1):137-9.

1996

Martin GM, Ogburn CE, Colgin LM, Gown AM, Edland SD, Monnat RJ.  1996.  Somatic mutations are frequent and increase with age in human kidney epithelial cells.. Human molecular genetics. 5(2):215-21.

1993

Maresh GA, Monnat RJ.  1993.  Novel fluoride-stimulated dichlorofluorescin dye oxidation pathway in human leukemia cell lines.. Biochemical and biophysical research communications. 194(2):869-75.
Liu PK, Trujillo JM, Monnat RJ.  1993.  Spectrum of spontaneous mutation in animal cells containing an aphidicolin-resistant DNA polymerase alpha.. Mutation research. 288(2):229-36.

1992

Monnat RJ, Chiaverotti TA, Hackmann AF, Maresh GA.  1992.  Molecular structure and genetic stability of human hypoxanthine phosphoribosyltransferase (HPRT) gene duplications.. Genomics. 13(3):788-96.
Monnat RJ, Hackmann AF, Chiaverotti TA.  1992.  Nucleotide sequence analysis of human hypoxanthine phosphoribosyltransferase (HPRT) gene deletions.. Genomics. 13(3):777-87.
Monnat RJ.  1992.  Werner syndrome: molecular genetics and mechanistic hypotheses.. Experimental gerontology. 27(4):447-53.

1991

Chiaverotti TA, Battula N, Monnat RJ.  1991.  Rat hypoxanthine phosphoribosyltransferase cDNA cloning and sequence analysis.. Genomics. 11(4):1158-60.
Chiaverotti TA, Battula N, Monnat RJ.  1991.  Rat hypoxanthine phosphoribosyltransferase cDNA cloning and sequence analysis.. Advances in experimental medicine and biology. 309B:117-20.
Monnat RJ, Hackmann AF, Chiaverotti TA, Maresh GA.  1991.  Molecular analysis of human hprt gene deletions and duplications.. Advances in experimental medicine and biology. 309B:113-6.

1990

Fukuchi K, Tanaka K, Kumahara Y, Marumo K, Pride MB, Martin GM, Monnat RJ.  1990.  Increased frequency of 6-thioguanine-resistant peripheral blood lymphocytes in Werner syndrome patients.. Human genetics. 84(3):249-52.

1989

Monnat RJ.  1989.  General pathology teaching at the University of Washington.. The Journal of pathology. 159(4):345-9.
Fukuchi K, Martin GM, Monnat RJ.  1989.  Mutator phenotype of Werner syndrome is characterized by extensive deletions.. Proceedings of the National Academy of Sciences of the United States of America. 86(15):5893-7.

1988

Mita S, Monnat RJ, Loeb LA.  1988.  Resistance of HeLa cell mitochondrial DNA to mutagenesis by chemical carcinogens.. Cancer research. 48(16):4578-83.
Turker MS, Monnat RJ, Fukuchi K, Johnston PA, Ogburn CE, Weller RE, Park JF, Martin GM.  1988.  A novel class of unstable 6-thioguanine-resistant cells from dog and human kidneys.. Cell biology and toxicology. 4(2):211-23.
Mita S, Monnat RJ, Loeb LA.  1988.  Direct selection of mutations in the human mitochondrial tRNAThr gene: reversion of an 'uncloneable' phenotype.. Mutation research. 199(1):183-90.

1986

Monnat RJ, Reay DT.  1986.  Nucleotide sequence identity of mitochondrial DNA from different human tissues.. Gene. 43(3):205-11.

1985

Monnat RJ, Loeb LA.  1985.  Nucleotide sequence preservation of human mitochondrial DNA.. Proceedings of the National Academy of Sciences of the United States of America. 82(9):2895-9.
Monnat RJ, Maxwell CL, Loeb LA.  1985.  Nucleotide sequence preservation of human leukemic mitochondrial DNA.. Cancer research. 45(4):1809-14.

1983

Monnat RJ, Loeb LA.  1983.  Mechanisms of neoplastic transformation.. Cancer investigation. 1(2):175-83.

1982

Rutledge JC, Haas JE, Monnat R, Milstein JM.  1982.  Hypertrophic cardiomyopathy is a component of subacute necrotizing encephalomyelopathy.. The Journal of pediatrics. 101(5):706-10.

1979

Monnat RJ.  1979.  Small volumes quantified.. Archives of pathology & laboratory medicine. 103(11):602.

1978

Chen WJ, Monnat RJ, Chen M, Mottet NK.  1978.  Aluminum induced pulmonary granulomatosis.. Human pathology. 9(6):705-11.



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