Department of Chemistry and Chemical Biology
102 Hurtig Hall
Northeastern University
Boston, Massachusetts 02115-5000
beuning at neu dot edu
http://www.northeastern.edu/chem/faculty_and_research/faculty/penny_j_beuning/
http://www.dna.neu.edu//
Ph.D., 2000, Department of Chemistry, University of Minnesota
B.A. 1994, Macalester College, St. Paul, MN, Chemistry major, Mathematics minor, Honors Thesis: New Methods in the Synthesis of a Cyanobacterin Analog, Advisor: Prof. Janet L. Carlson
Assistant Professor, Department of Chemistry and Chemical Biology, Northeastern University, July 1, 2006-present
Camille and Henry Dreyfus Foundation New Faculty Award, 2006-2011
Cottrell Scholar, Research Corporation for Science Advancement, 2009-2012
National Science Foundation CAREER award, 2009-2014
Biotechnology Initiative, member since 2006
Center for Interdisciplinary Research on Complex Systems (CIRCS), member since 2007
Environmental Cancer Research Program, member since 2008
Postdoctoral Scholar, Department of Biology, Massachusetts Institute of Technology
Project Title: Regulation of the SOS Response and Translesion Synthesis, Research Advisor: Prof. Graham C. Walker, 2001-2006
Postdoctoral Fellow of the Damon Runyon Cancer Research Foundation, 2001- 2004
Acting Principal Investigator, Department of Chemistry, University of Minnesota, 2000- 2001
Responsibilities: Supervised research group of 10 (graduate students, post-docs, and technician), led group meetings and journal clubs, administered two NIH R01 grants.
Postdoctoral Associate, Department of Chemistry, University of Minnesota
Minneapolis, MN, Advisor: Prof. Karin Musier-Forsyth, 2000-2001.
Technical Aide, 3M Printing and Publishing Systems Division, Quality Assurance, St. Paul, MN, 1992-1994, Supervisor: Michael Wieland
CHM U924 Directed Study in Chemistry, Spring 2007 (2 students)
CHM U901 Undergraduate Research, Spring 2007 (3 students)
CHM U750 Senior Research, Summer 2007 (1 student)
CHM G200 Research Skills and Ethics, Summer 2007
CHM U100 Chemistry and Chemical Biology at Northeastern, Fall 2007
CHM U901 Undergraduate Research, Fall 2007 (1 student)
INT G120 Introduction to Biotechnology, guest lecture, Fall 2007
CHM U901 Undergraduate Research, Spring 2008 (1 student)
CHM G200 Research Skills and Ethics, Summer 2008
CHM G221/U621/U622 Principles of Chemical Biology with Laboratory, Fall 2008
HNR U921 Honors Directed Study, Fall 2008 (1 student)
CHM U901 Undergraduate Research, Fall 2008 (1 student)
CHM U901 Undergraduate Research, Spring 2009 (1 student)
CHM G200 Research Skills and Ethics, Summer 2009
CHM U901 Undergraduate Research, Summer 2009 (2 students)
CHM U922 Directed Study, Summer II 2009 (1 student)
CHEM 5621/5622 Principles of Chemical Biology with Laboratory, Fall 2009
CHEM 7750 Advanced Problem Solving, Fall 2009, team taught
CHEM 4750 Senior Research, Fall 2009 (2 students)
HONR 4992 Honors Directed Study, Fall 2009 (1 student)
CHEM 5600 Research Skills and Ethics, Summer 2010
CHEM 4750 Senior Research, Summer I 2010 (1 student)
CHEM 1101 General Chemistry for Health Sciences, Fall 2010
CHEM 4750 Senior Research, Fall 2010 (1 student)
CHEM 4970 Jr/Sr Honors Project 1, Spring 2011 (1 student)
CHEM 4971 Jr/Sr Honors Project 1, Spring 2011 (1 student)
CHEM 5600 Research Skills and Ethics, Summer 2011
CHEM 4750 Senior Research, Summer I 2011 (1 student)
CHEM 4750 Senior Research, Summer II 2011 (2 students)
CHEM 5621/5622 Principles of Chemical Biology with Laboratory, Fall 2011
Prior to Northeastern:
Instructor, MIT course 7.346 Advanced Undergraduate Seminar "The Role of DNA Repair in the Prevention of Human Disease" Instructor of record for undergraduate seminar-style course based on primary literature, Spring 2004
Preparing Future Faculty Program Participant, University of Minnesota, 1997-99
Guest Lecturer, Chem/Biol 58: Biochemistry, Macalester College, Spring 1999 (Nucleic acids: structure and function)
Guest Lecturer, Univ. of Minn. Chem 8403: Bioorganic III: Nucleic Acids, Winter 1999 (Group I Introns) and Winter 1997 (Solid Phase Chemical Synthesis of DNA Oligonucleotides)
Teaching Assistant, Department of Chemistry, University of Minnesota, Minneapolis, MN
1. Penny J. Beuning, Miriam Gulotta, and Karin Musier-Forsyth (1997) "Atomic Group "Mutagenesis" Reveals Major Groove Fine Interactions of a tRNA Synthetase with an RNA Helix" Journal of the American Chemical Society 119 8397-8402
2. Penny J. Beuning, Fan Yang, Paul Schimmel and Karin Musier-Forsyth (1997) "Specific atomic groups and RNA helix geometry in acceptor stem recognition by a tRNA synthetase" Proceedings of the National Academy of Sciences, U.S.A. 94 10150-10154
3. Barry S. Henderson, Penny J. Beuning, J.-P. Shi, Rolf Bald, Jens Peter Fuerste, Volker A. Erdmann, Karin Musier-Forsyth, and Paul Schimmel (1998) "Subtle Functional Interactions in the RNA Minor Groove at a Nonessential Base Pair" Journal of the American Chemical Society 1209110-9111
4. Penny J. Beuning, Michael R. Tessmer, Christoph G. Baumann, Deborah A. Kallick and Karin Musier-Forsyth (1999) "Sequence-Dependent Conformational Differences of Small RNAs Revealed by Native Gel Electrophoresis" Analytical Biochemistry 273 284-290
5. Penny J. Beuning and Susan L. Page (1999) "Increasing Retention and Improving the Climate for Women in Chemistry" 1999 Committee on Institutional Cooperation WISE Best Practices Guidebook: Mentoring Programs Edited by Jane Zimmer Daniels 17-22.
6. Penny J. Beuning and Karin Musier-Forsyth (1999) "Transfer RNA Recognition by Aminoacyl-tRNA Synthetases" Biopolymers, 52 1-28. (Review)
7. Abbey E. Fischer, Penny J. Beuning, and Karin Musier-Forsyth (1999) "Identification of Discriminator Base Atomic Groups That Modulate the Alanine Aminoacylation Reaction" Journal of Biological Chemistry 274 37093-37096.
8. Karin Musier-Forsyth and Penny J. Beuning (2000) "Role of Zinc Ion in Translational Accuracy Becomes Crystal Clear" Nature Structural Biology 7 435-436. (News and Views)
9. Maria C. Nagan, Penny Beuning, Karin Musier-Forsyth, and Christopher J. Cramer (2000) "Importance of Discriminator Base Stacking Interactions: Molecular Dynamics Analysis of A73 MicrohelixAla Variants" Nucleic Acids Research 28 2527-2534.
10. Penny J. Beuning and Karin Musier-Forsyth (2000) "Hydrolytic Editing by a Class II Aminoacyl-tRNA Synthetase" Proceedings of the National Academy of Sciences, U.S.A. 97 8916-8920.
11. Penny J. Beuning and Karin Musier-Forsyth (2001) "Species-Specific Differences in Amino Acid Editing by Class II Prolyl-tRNA Synthetase" Journal of Biological Chemistry 276 30779-30785.
12. Richard S. Lipman*, Penny J. Beuning*, Karin Musier-Forsyth and Ya-Ming Hou (2002) "Amino acid activation of a dual-specificity tRNA synthetase is independent of tRNA" Journal of Molecular Biology 316 421-427.
13. Penny J. Beuning*, Maria C. Nagan*, Christopher J. Cramer, Karin Musier-Forsyth, J. L. Gepi, and Donald Bashford (2002) "Efficient Aminoacylation of the tRNAAla Acceptor Stem: Dependence on 2:71 Base Pair" RNA 8 659-670.
14. Deborah A. Kallick, Maria C. Nagan, Penny J. Beuning, Stephanie Kerimo, Michael R. Tessmer, Christopher J. Cramer, and Karin Musier-Forsyth (2002) "Alanine-tRNA synthetase recognition of wild-type microhelixAla versus a C1:G72 variant: An NMR and molecular dynamics analysis" Journal of Physical Chemistry B 106 8878-8884.
15. Fai-Chu Wong*, Penny J. Beuning*, Maria C. Nagan, Kiyotaka Shiba, and Karin-Musier-Forsyth (2002) "Functional role of the prokaryotic proline-tRNA synthetase insertion domain in amino acid editing." Biochemistry 41 7108-7115.
16. Penny J. Beuning and Amy J. Reese (2003) "Introducing the National Postdoctoral Association (NPA): A Resource and A Voice for Postdoctoral Scholars." AWIS Magazine 32 27-29.
17. Fai-Chu Wong, Penny J. Beuning, Carmen Silvers, and Karin Musier-Forsyth (2003) "An isolated class II aminoacyl-tRNA synthetase insertion domain is functional in amino acid editing." Journal of Biological Chemistry 278 52857-52864.
18. Penny J. Beuning and Graham C. Walker (2003) "Signal Transduction in the SOS Response" in Handbook of Cellular Signaling, Volume 3, Al Fornace, Ed. Chapter 299, pp. 185-189. Elsevier Science, San Diego, CA. (book chapter)
19. Veronica G. Godoy, Penny J. Beuning and Graham C. Walker (2004) "Gene Expression in Bacterial Systems: The LexA Regulatory System" in Encyclopedia of Biological Chemistry Volume 2, W. J. Lennarz and M. D. Lane, Eds., pp. 546-550, Academic Press/Elsevier Science, San Diego, CA. (encyclopedia chapter)
20. Penny J. Beuning, Sharotka M. Simon, Veronica G. Godoy, Daniel F. Jarosz, and Graham C. Walker (2006) "Characterization of E. coli translesion synthesis polymerases and their accessory factors" Methods in Enzymology 408 318-340.
21. Penny J. Beuning, Dorota Sawicka, Daniel Barsky, and Graham C. Walker (2006) "Two Processivity Clamp Interactions Differentially Alter the Dual Activities of UmuC" Molecular Microbiology 59 460-474.
22. Penny J. Beuning, Sharotka M. Simon, Adam Zemla, Daniel Barsky, and Graham C. Walker (2006) "A Non-Cleavable UmuD Variant that Acts as a UmuD' Mimic"Journal of Biological Chemistry 281 9633-9640.
23. Margareta Cruceanu, Andrew G. Stephen, Penny J. Beuning, Robert J. Gorelick, Robert J. Fisher, and Mark C. Williams (2006) "Single DNA molecule stretching experiments provide an efficient method for determining the activity of drugs that target the HIV-1 nucleocapsid protein" Analytical Biochemistry 358 159-170.
24. Daniel F. Jarosz, Penny J. Beuning, Susan E. Cohen, and Graham C. Walker (2007) "Y-Family DNA Polymerases in Escherichia coli" Trends in Microbiology 15 70-77.
25. Micah J. McCauley, Leila Shokri, Jana Sefcikova, Ceslovas Venclovas, Penny J. Beuning, and Mark C. Williams (2008)"Distinct Double- and Single-Stranded DNA Binding of E. coli Replicative DNA Polymerase III Alpha Subunit" ACS Chemical Biology 3 577-587.
26. Brenna W. Shurtleff, Jaylene N. Ollivierre, Mohammad Tehrani, Graham C. Walker, and Penny J. Beuning (2009) "Steric Gate Variants of UmuC Confer UV Hypersensitivity on Escherichia coli" Journal of Bacteriology 191 4815-4823.
27. Penny J. Beuning, Sarah Chan, Lauren S. Waters, Haripriya Addepalli, Jaylene N. Ollivierre, and Graham C. Walker (2009) "Characterization of Novel Alleles of the Escherichia coli umuDC genes Identifies Additional Interaction Sites of UmuC with the Beta Clamp" Journal of Bacteriology 191 5910-5920.
28. Sharotka M. Simon, Lauren S. Waters, Daniel F. Jarosz, and Penny J. Beuning (2009) "Song: SOS" Biochemistry and Molecular Biology Education 37 316.
29. James J. Foti, Lyle A. Simmons, Penny J. Beuning, and Graham C. Walker (2009) "Signal Transduction in the Escherichia coli SOS Response" in Handbook of Cell Signaling Second Ed. R.A. Bradshaw and E.A. Dennis, Eds., Chapter 258, pp. 2127-2136, Elsevier Science, San Diego, CA.
30. Jing Fang, Kasper D. Rand, Michelle C. Silva, Thomas E. Wales, John R. Engen, and Penny J. Beuning (2010) "Conformational dynamics of the Escherichia coli polymerase manager proteins UmuD and UmuD' " Journal of Molecular Biology 398 40-53.
31. Jaylene N. Ollivierre, Jing Fang, and Penny J. Beuning (2010) "The roles of UmuD in regulating mutagenesis" Journal of Nucleic Acids 2010 Article ID 947680; 12 pages; doi:10.4061/2010/947680
32. Jaylene N. Ollivierre, Michelle C. Silva, Jana Sefcikova, and Penny J. Beuning (2010) "Polymerase switching in response to DNA damage" in Biophysics of DNA-Protein Interactions: from single molecules to biological systems M.C. Williams and L. J. Maher, III, Eds., Chapter 11, pp. 241-292, Springer, New York, NY.
33. Jaylene N. Ollivierre, Jacquelyn L. Sikora, and Penny J. Beuning (2011) "The dimeric SOS mutagenesis protein UmuD is active as a monomer" Journal of Biological Chemistry 286 3607-3617.
34. Jason M. Walsh, Lisa A. Hawver, and Penny J. Beuning (2011) "Escherichia coli Y Family DNA Polymerases" Frontiers in Bioscience 16 3164-3182.
35. Jing Fang, Kasper D. Rand, Penny J. Beuning, and John R. Engen (2011) "False EX1 signatures caused by sample carryover during HXMS analyses" International Journal of Mass Spectrometry 302 19-25.
36. Jason M. Walsh, Imenne Bouamaied, Tom Brown, L. Marcus Wilhelmsson, and Penny J. Beuning "Discrimination against the Cytosine Analog tC by Escherichia coli DNA Polymerase IV DinB" Journal of Molecular Biology 409 89-100 (2011).
37. Gye-Won Han, Jaejo Ko, Carol L. Farr, Marc C. Deller, Qingping Xu, Hsiu-Ju Chiu, Mitchell D. Miller, Jana Sefcikova, Srinivas Somarowthu, Penny J. Beuning, Marc-Andre Elsliger, Ashley Deacon, Adam Godzik, Scott A. Lesley, Ian A. Wilson, and Mary Jo Ondrechen "Crystal Structure of Metal-Dependent Phosphoesterase (YP_910028.1) from Bifidobacterium adolescentis: Computational prediction and experimental validation of phosphoesterase activity" Proteins: Structure, Function, and Bioinformatics 79 2146-2160 (2011).
38. Jing Fang, John R. Engen, and Penny J. Beuning "Escherichia coli processivity clamp beta from DNA polymerase III is dynamic in solution" Biochemistry 50 5958-5968 (2011).
39. Lisa A. Hawver and Penny J. Beuning "Chapter 486 UmuC D Lesion Bypass DNA Polymerase V" ; in Encyclopedia of Biological Chemistry 2nd edition W. J. Lennarz and M. D. Lane, Eds., Elsevier Science, in press. (encyclopedia chapter)
40. Lisa A. Hawver, Caitlin A. Gillooly, and Penny J. Beuning "Characterization of Escherichia coli UmuC Active Site Loops Identifies Variants that Confer UV Hypersensitivity" Journal of Bacteriology 193 5400-5411 (2011).
41. Jaylene N. Ollivierre, David E. Budil, and Penny J. Beuning "Electron spin labeling reveals the highly dynamic N-terminal arms of the SOS mutagenesis protein UmuD" Molecular BioSystems 7 3183-3186 (2011).
42. Srinivas Somarowthu, Heather R. Brodkin, J. Alejandro D'Aquino, Dagmar Ringe, Mary Jo Ondrechen, Penny J. Beuning "A Tale of Two Isomerases: Compact versus Extended Active Sites in Ketosteroid Isomerase and Phosphoglucose Isomerase" Biochemistry 50 9283–9295 (2011).
43. "De Novo Asymmetric Synthesis of Fridamycin E" Qian Chen, Michael Mulzer, Pei Shi, Penny J. Beuning, Geoffrey W. Coates, and George A. O’Doherty Organic Letters in press.
*contributed equally
Penny J. Beuning, Deborah A. Kallick, Stephanie S. Kerimo, Christopher J. Cramer, and Karin Musier-Forsyth "Conformational Analysis of tRNAAla Acceptor Stem Variants and Correlation with Aminoacylation Activity" RNA '98: The Third Annual Meeting of The RNA Society, Madison, Wisconsin, May 26-31, 1998, oral presentation at tRNA Synthetase Mini-Session, May 27, 1998
Penny Beuning "Increasing Retention and Improving the Climate for Women in Chemistry" Committee on Institutional Cooperation-Women in Science and Engineering Best Practices Workshop on Mentoring, Madison, Wisconsin, May 3-5, 1999
Penny J. Beuning and Karin Musier-Forsyth "Hydrolytic Editing by a Class II Aminoacyl-tRNA Synthetase" tRNA 2000: 18th International tRNA Workshop, Cambridge, UK, April 8-12, 2000
Penny J. Beuning, Laurie Waters, Mark D. Sutton and Graham C. Walker "Molecular Interactions that Govern the Cellular Response to DNA Damage in E. coli" Boston Bacterial Meeting, Boston, MA June 14-15, 2002.
Penny J. Beuning "The Cellular Response to DNA Damage in E. coli: Regulation of a Y-Family Polymerase" seminar, Lawrence Livermore National Laboratory, March 18, 2003.
Penny J. Beuning, Daniel Barsky, and Graham Walker "Processivity Clamp Interactions Regulate the Dual Functions of the umuDC DNA Polymerase" MIT Biology Retreat, May 20, 2004.
Penny J. Beuning "Regulation of a specialized DNA polymerase via interactions with the processivity clamp" seminar, Institute of Biotechnology, Vilnius, Lithuania, August 17, 2005.
Penny J. Beuning "Critical Role of Processivity Clamps in Regulating Mutagenic DNA Polymerases" seminar to Prof. John Kuriyan's laboratory, University of California, Berkeley, April 3, 2006
Penny J. Beuning "Roles of Two Processivity Clamps in the Cellular Response to DNA Damage and Replication Stress" seminar, Institute of Biotechnology, Vilnius, Lithuania, May 9, 2006
Penny J. Beuning "Roles of Two Processivity Clamps in Resistance to DNA Damage and DNA Replication Stress" seminar, Nanomedicine Science and Technology group, Northeastern University, July 19, 2006
Penny J. Beuning "Critical Role of Processivity Clamp Proteins in the Cellular Response to DNA Damage" seminar, Department of Civil and Environmental Engineering, Northeastern University, November 10, 2006
Penny J. Beuning "Processivity Clamp Interactions Regulate a Mutagenic DNA Polymerase" seminar, Department of Cell and Molecular Biology, University of Rhode Island, November 20, 2006
Penny J. Beuning "A Single Point Mutation in E. coli DNA Polymerase V Renders Cells Hypersensitive to UV Light" seminar, Institute of Biotechnology, Vilnius, Lithuania, September 21, 2007
Penny J. Beuning "Dreyfus Foundation: Promoting New Faculty and Academic Careers", invited, American Chemical Society 2008 Spring Meeting, New Orleans, LA, April 6, 2008
Penny J. Beuning, Brenna Shurtleff, Jana Sefcikova, and Graham C. Walker "Steric Gate Variants in a Y family DNA Polymerase Confer UV-Hypersensitivity" selected from abstracts, American Society for Biochemistry and Molecular Biology (Experimental Biology 2008), San Diego, CA, April 5-9, 2008
Penny J. Beuning "Regulation of the DNA damage response by a DNA polymerase manager protein" seminar, Carleton College (Northfield, MN), February 20, 2009
Penny J. Beuning, Jing Fang, Jana Sefcikova, Jaylene N. Ollivierre, Stefano V. Gulla, David E. Budil, and John R. Engen "Regulation of the DNA damage response by the E. coli DNA polymerase manager protein UmuD" ASM Conference on DNA Repair and Mutagenesis, Whistler, BC, Canada, May 30-June 5, 2009
Penny J. Beuning, "Communication in Science" MIT Summer Research Program, June 23, 2009
Penny J. Beuning, "The Art of Collaboration: Issues for assistant professors and women" American Chemical Society 2009 Fall Meeting, Washington, DC, August 16-20, 2009
Penny J. Beuning, "UmuD: A Molecular Gymnast that Regulates Mutagenesis" seminar, Department of Chemistry, Merrimack College (North Andover, MA), March 15, 2010
Jaylene N. Ollivierre (graduate student) "The dimeric SOS mutagenesis protein UmuD is active as a monomer" DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), May 19, 2010
Penny J. Beuning, "UmuD: A Molecular Gymnast that Regulates Mutagenesis" Departments of Chemistry and Biology, Macalester College (St. Paul, MN), October 8, 2010; special guest for student research day/parents weekend
Penny J. Beuning, "UmuD: A Molecular Gymnast that Regulates Mutagenesis" seminar presented to MARC and RISE programs, University of Puerto Rico-Rio Piedras, November 24, 2010
Jason Walsh (graduate student) "Discrimination against the Cytosine Analog tC by Escherichia coli DNA Polymerase IV DinB" DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), February 15, 2011
Penny J. Beuning "Multiple regulatory modes that control translesion DNA synthesis" seminar, Department of Chemistry, University of Minnesota, February 17, 2011
Penny J. Beuning "Multiple regulatory modes that control replication of damaged DNA" seminar, Department of Chemistry, Ripon College, February 18, 2011
Penny J. Beuning "Multiple regulatory modes that control translesion DNA synthesis" seminar, Departments of Chemistry and Cancer Biology, University of Toledo, March 3, 2011
Penny J. Beuning "Multiple regulatory modes that control translesion DNA synthesis" seminar, Department of Chemistry Biochemistry seminar, Wayne State University, March 4, 2011
Lisa A. Hawver (graduate student) "Probing the role of active site loops in E. coli Y family DNA damage bypass polymerase V" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Penny J. Beuning "Multiple regulatory modes that control replication of damaged DNA" seminar, Department of Biochemistry seminar, University at Buffalo, SUNY, May 3, 2011
Penny J. Beuning "Multiple regulatory modes that control replication of damaged DNA" seminar, Radiobiology and Radiotherapy Research Program, Yale University School of Medicine, May 18, 2011
Penny J. Beuning "New forms of the SOS mutagenesis protein UmuD" Telluride Science Research Center Workshop on DNA Replication, Repair, and Recombination, Telluride, CO, June 27-July 1, 2011
Penny J. Beuning, Jason M. Walsh, Imenne Bouamaied, Tom Brown, L. Marcus Wilhelmsson “Substrate specificity of Escherichia coli damage bypass DNA polymerase IV DinB” American Chemical Society 2011 Fall Meeting, Denver, CO, August 28-September 1, 2011
Penny J. Beuning, Jaylene N. Ollivierre, Jacquelyn Sikora “E. coli UmuD conformational dynamics in response to DNA damage” American Chemical Society 2011 Fall Meeting, Denver, CO, August 28-September 1, 2011 in Breakthroughs in Biological Chemistry session
Penny J. Beuning “Regulation of bacterial mutagenesis by the dynamic DNA polymerases manager protein UmuD” seminar, Department of Chemistry, University of Rhode Island, October 31, 2011
Penny J. Beuning, Miriam Gulotta, and Karin Musier-Forsyth "The Role of the tRNAAla Terminal Base Pair in Recognition by Alanyl-tRNA Synthetase" RNA '96: The First Annual Meeting of The RNA Society, Madison, Wisconsin, May 28-June 2, 1996
Penny J. Beuning, Michael Tessmer, Deborah Kallick, and Karin Musier-Forsyth "Biochemical and Biophysical Characterization of the Effect of a Single Base Pair Transversion on the Structure and Function of a Transfer RNA Acceptor Stem" 17th International tRNA Workshop, Chiba, Japan, May 10-15, 1997
Penny J. Beuning, Deborah A. Kallick, Stephanie S. Kerimo, Christopher J. Cramer, and Karin Musier-Forsyth "Conformational Analysis of tRNAAla Acceptor Stem Variants and Correlation with Aminoacylation Activity" RNA '98: The Third Annual Meeting of The RNA Society, Madison, Wisconsin, May 26-31, 1998
Penny J. Beuning, Deborah A. Kallick, Stephanie S. Kerimo, Christopher J. Cramer, and Karin Musier-Forsyth "Conformational Analysis of tRNAAla Acceptor Stem Variants and Correlation with Aminoacylation Activity" The 216th American Chemical Society Meeting, Boston, MA, August 23-27, 1998, and featured poster at University of Minnesota breakfast
Penny J. Beuning and Karin Musier-Forsyth "Functional Analysis of the E. coli ProRS Insertion Domain: Exploring Possible Roles in Editing and tRNA Recognition" EMBO Workshop on Aminoacyl-tRNA Synthetases, Mittelwihr, France, October 10-15, 1998
Penny J. Beuning, Laurie Waters, Mark D. Sutton and Graham Walker "Molecular Interactions that Govern the Cellular Response to DNA Damage in E. coli" Mutagenesis Gordon Conference, Lewiston, ME, July 2002
Penny J. Beuning, Sarah Chan, and Graham Walker "Protein-Protein Interactions of UmuD and UmuC that Govern the Cellular Response to DNA Damage" The Biology of DNA: 50th Anniversary of the DNA Double Helix, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, February 26-March 2, 2003
Penny J. Beuning, Sarah Chan, and Graham Walker "The Cellular Response to DNA Damage in E. coli: Regulation of a Y-Family Polymerase" Nucleic Acids Gordon Conference, Newport, RI, June 2003
Penny Beuning, Dirk Holste, Marcia Haigis, Janet Fischer, and Marilyn Smith "Building Community and Improving the Quality of Life for Postdoctoral Scholars at MIT" 2nd Convocation on Enhancing the Postdoctoral Experience for Scientists and Engineers" Washington, D.C., April 15, 2004
Penny J. Beuning, Dorota Sawicka, Daniel Barsky, and Graham C. Walker "Regulation of the E. coli Y-Family Polymerase UmuC" ASM Conference on DNA Repair and Mutagenesis, Bermuda, November 2004
Penny J. Beuning and Graham C. Walker "Mutations Near the Active Site of UmuC that cause E. coli hypersensitivity to UV light" Mutagenesis Gordon Conference, Newport, RI, August 6-10, 2006
Penny J. Beuning, Brenna Shurtleff, Jana Sefickova, and Haripriya Addepalli "Steric Gate Variants in a Y family DNA Polymerase Confer UV-Hypersensitivity" Nucleic Acids Gordon Conference, Newport, RI, June 3-7, 2007
Bilyana Koleva, Michael J. Ordazzo, Amy Fung, Jana Sefcikova, Thomas E. Wales, John R. Engen, and Penny J. Beuning "Dynamics of the polymerase manager protein UmuD: DNA damage tolerance in E. coli" American Society for Biochemistry and Molecular Biology (Experimental Biology 2008), San Diego, CA, April 5-9, 2008
Annalise Onnis-Hayden, G. Casadei, Penny J. Beuning, Kim Lewis, and April Gu "Toxicity Assessment of Contaminants via Gene Expression Profiling in E. coli" American Society for Microbiology 108th General Meeting, Boston, MA June 1-5, 2008
Penny J. Beuning, Brenna W. Shurtleff, Graham C. Walker, and Mohammad Tehrani "Steric Gate Variants in a Y Family DNA Polymerase Confer UV-Hypersensitivity" Mutagenesis Gordon Conference, Oxford, UK, July 20-25, 2008
Jana Sefcikova, Kelly Foley, Jade Malcho, Michelle Silva, Rajal Sharma, and Penny J. Beuning "Quantitative characterization of interactions of the Escherichia coli SOS DNA damage response proteins UmuD and UmuD' with the replicative DNA polymerase" Biophysical Society Annual Meeting, Boston, MA, February 28-March 4, 2009
Penny J. Beuning, Jing Fang, Jana Sefcikova, and John R. Engen "Regulation of the DNA damage response by the DNA polymerase manager protein UmuD" Biophysical Society Annual Meeting, Boston, MA, February 28-March 4, 2009
Penny J. Beuning, Jana Sefcikova, Jing Fang, John R. Engen "Regulation of DNA damage responses by the polymerase manager proteins UmuD and UmuD" American Society for Biochemistry and Molecular Biology (Experimental Biology 2009), New Orleans, LA, April 18-22, 2009
Penny J. Beuning, Jing Fang, Jana Sefcikova, Jaylene N. Ollivierre, Stefano V. Gulla, David E. Budil, and John R. Engen "Regulation of the DNA Damage Response by the E. coli DNA Polymerase Manager Protein UmuD" ASM Conference on DNA Repair and Mutagenesis, Whistler, BC, Canada, May 30-June 5, 2009
Jing Fang, Penny J. Beuning, and John R. Engen "Structural and dynamic investigation of umuD gene products by hydrogen exchange mass spectrometry" 57th ASMS Conference on Mass Spectrometry, Philadelphia, PA, May 31-June 4, 2009
Rajal Sharma and Penny J. Beuning "Engineering E. coli DNA polymerase III alpha for translesion synthesis" 23rd Symposium of the Protein Society, Boston, MA, July 25-29, 2009
Penny J. Beuning, Jing Fang, Jana Sefcikova, Jaylene N. Ollivierre, Stefano V. Gulla, David E. Budil, and John R. Engen "Regulation of DNA Damage Responses by a Dynamic DNA Polymerase Manager Protein" American Chemical Society 2009 Fall Meeting, Washington, DC, August 16-20, 2009
Penny J. Beuning, Jing Fang, Jana Sefcikova, Michelle C. Silva, and John R. Engen "The dynamic DNA damage inducible protein UmuD inhibits replication" Biophysical Society Annual Meeting, San Francisco, CA, February 21-24, 2010
Penny J. Beuning, Jaylene N. Ollivierre, Jing Fang, John R. Engen, and Michelle C. Silva "Multiple active forms of the DNA damage response protein UmuD" DNA Damage, Mutation, and Cancer Gordon Conference, Ventura, CA, March 21-26, 2010
Erin Ronayne, Michelle C. Silva, and Penny J. Beuning "Interactions between the DNA damage inducible protein UmuD and DNA polymerase III in E. coli" American Chemical Society 2010 Spring Meeting, San Francisco, CA, March 21-15, 2010
Alexandra Wallace, Jaylene Ollivierre, Jacquelyn Sikora, David E. Budil, Penny J. Beuning "Evidence for Multiple active forms of the DNA damage response protein UmuD" American Chemical Society 2010 Spring Meeting, San Francisco, CA, March 21-15, 2010
Nicholas A. DeLateur, Srinivas Somarowthu, Heather R. Brodkin, Penny J. Beuning, and Mary Jo Ondrechen "Contributions of Second Shell Residues to the Activity of Alkaline Phosphatase" Northeastern University Research and Scholarship EXPO, March 24, 2010
Lisa A. Hawver, Caitlin Gillooly, and Penny J. Beuning "Probing the Role of Active Site Loops in E. coli Y Family DNA Damage Bypass Polymerase V" Northeastern University Research and Scholarship EXPO, March 24, 2010 (selected for display in Dean's office and for presentation at the Annual Meeting of the Northeastern Corporation on June 2, 2010)
Jaylene N. Ollivierre, Alexandra Wallace, Jacquelyn Sikora, and Penny J. Beuning "Evidence for Multiple active forms of the DNA damage response protein UmuD" Northeastern University Research and Scholarship EXPO, March 24, 2010
Michelle C. Silva, Erin Ronayne, and Penny J. Beuning "Investigating the interaction between the alpha subunit of DNA polymerase III and UmuD" Northeastern University Research and Scholarship EXPO, March 24, 2010
Jason Walsh, Imenne Bouamaied, L. Marcus Wilhelmsson, and Penny J. Beuning "Discrimination against the fluorescent cytosine analog tC by DNA polymerase DinB" Northeastern University Research and Scholarship EXPO, March 24, 2010
Penny J. Beuning, Jana Sefcikova, Jing Fang, John R. Engen, and Michelle C. Silva "The DNA damage inducible protein UmuD inhibits replication" American Society for Biochemistry and Molecular Biology (Experimental Biology 2010), Anaheim, CA, April 24-28, 2010
Jaylene N. Ollivierre, Alexandra Wallace, and Penny J. Beuning "Evidence for multiple active forms of the DNA damage response protein UmuD" American Society for Biochemistry and Molecular Biology (Experimental Biology 2010), Anaheim, CA, April 24-28, 2010
Jacquelyn L. Sikora, Jaylene N. Ollivierre, David E. Budil, and Penny J. Beuning "DNA damage response protein UmuD displays conformational dynamics" American Society for Biochemistry and Molecular Biology (Experimental Biology 2010), Anaheim, CA, April 24-28, 2010
Penny J. Beuning, Jason M. Walsh, Imenne Bouamaied, Tom Brown, and L. Marcus Wilhelmsson, "Discrimination against the Fluorescent Cytosine Analog tC by Escherichia coli DNA Polymerase IV DinB" Bioorganic Chemistry Gordon Conference, Andover, NH, June 13-18, 2010
Penny J. Beuning, Jaylene N. Ollivierre, and Jacquelyn L. Sikora, "The dimeric SOS mutagenesis protein UmuD is active as a monomer" Mutagenesis Gordon Conference, Waterville, ME, August 1-6, 2010
Nicholas A. DeLateur, Srinivas Somarowthu, Heather R. Brodkin, Penny J. Beuning, Mary Jo Ondrechen, "Contributions of second and third shell residues to the activity of alkaline phosphatase" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Jing Fang, John R. Engen, Penny J. Beuning, "Conformational characterization of the Escherichia coli DNA polymerase partner proteins UmuD and beta sliding clamp" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Lisa A. Hawver, Caitlin Gillooly, Penny J. Beuning, "Probing the role of active site loops in E. coli Y family DNA damage bypass Polymerase V" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Jaylene N. Ollivierre, Jacquelyn Sikora, Alexandra Wallace, Penny J. Beuning, "E. coli UmuD conformational dynamics in response to DNA damage" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Ramya Parasuram, Rajal Sharma, Penny J. Beuning, and Mary Jo Ondrechen, "Understanding the substrate specificity of DNA Pol III alpha through protein engineering" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Michelle C. Silva, Erin Ronayne, and Penny J. Beuning, "Investigating the interaction between the α subunit of DNA polymerase III and UmuD" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Jason M. Walsh, Imenne Bouamaied, L. Marcus Wilhelmsson, Penny J Beuning, "Discrimination against the fluorescent cytosine analog tC by E. coli polymerase IV DinB" American Chemical Society 2010 Fall Meeting, Boston, MA, August 22-26, 2010
Penny J. Beuning, Jaylene N. Ollivierre, Jacquelyn Sikora, "Multiple active forms of UmuD protein that regulate bacterial mutagenesis" Biophysical Society Annual Meeting Baltimore, MD, March 5-9, 2011
Jacquelyn Sikora, Jaylene Ollivierre, Sarah Jensen, Tyler Cipriani, Penny J. Beuning, "Heterodimer formation in the DNA damage response protein UmuD" Northeastern University Research and Scholarship EXPO, April 6, 2011, 2011 Outstanding Undergraduate Student Research Award Winner
Jaylene Ollivierre, Qiuying Huang, David Budil, Penny J. Beuning, "E. coli UmuD conformational dynamics in response to DNA damage" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011, ASBMB 2011 Graduate Student Travel Award
Jacquelyn Sikora, Jaylene Ollivierre, Sarah M. Jensen, Tyler J. Cipriani, Penny J. Beuning "Heterodimer formation in the DNA damage response protein UmuD" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Jing S. Fang, John R. Engen, Penny J. Beuning "Conformational and dynamic characterization of the Escherichia coli DNA polymerase III beta processivity clamp" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Lisa A. Hawver, Caitlin Gillooly, Penny J. Beuning "Probing the role of active site loops in E. coli Y family DNA damage bypass polymerase V" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Ramya Parasuram, Rajal Sharma, Jana Sefcikova, Penny J. Beuning, Mary Jo Ondrechen "Identification of critical residues in DNA polymerase III alpha through protein engineering" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Michelle C. Silva, Erin Ronayne, Penny J. Beuning "Investigating the interaction between the alpha subunit of DNA polymerase III and UmuD" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Jason M. Walsh, Imenne Bouamaied, L. Marcus Wilhelmsson, Penny J. Beuning, "Discrimination against the Fluorescent Cytosine Analog tC by Escherichia coli DNA polymerase IV" American Society for Biochemistry and Molecular Biology (Experimental Biology 2011), Washington, D.C., April 9-13, 2011
Penny J. Beuning, Jaylene N. Ollivierre, Jacquelyn Sikora “E. coli UmuD conformational dynamics in response to DNA damage” American Chemical Society 2011 Fall Meeting, Denver, CO, August 28-September 1, 2011
Sigma Delta Epsilon, Graduate Women in Science, Alpha Omega (Boston) Chapter, founding member of re-established chapter, January 2002
Panelist on Considering Graduate School for Augsburg College McNair Scholars Program, December 2000
Science Fair Judge, American Junior Academy of Science Finalists, November 1, 2003; October 9, 2004; and October 22, 2005
Judge, Northeast Student Chemistry Research Conference, Northeastern Section American Chemical Society, April 23, 2005
Panelist, "Mentoring: Defining It, Acquiring It, and Assuring Equal Opportunities for Women in All Fields" Harvard University, November 3, 2005
Panelist, "Preparing for Academic Job Interviews" MIT, February 17, 2006
Keynote speaker and session speaker, Career Mentoring Day, St. John's Preparatory School, Collegeville, MN, March 17, 2006
Panelist, "Negotiating Academic Job Offers" MIT, January 19, 2007
Judge, ASBMB Undergraduate Poster Competition, Washington, D.C., April 28, 2007
Session chair, "Getting the Position You Want," and speaker, "The Interview" and "Considering the Offer(s)", Path to Professorship Workshop, MIT, October 21, 2006, and October 27, 2007
Speaker, "The Interview" and "Considering the Offer(s)" and Panelist, "Negotiating Offers" Path to Professorship Workshop, MIT, October 18, 2008
Speaker, "The Interview" and "Considering the Offer(s)" Path to Professorship Workshop, MIT, October 24, 2009
Judge, Northeast Student Chemistry Research Conference, Northeastern Section American Chemical Society, April 10, 2010
Technology Table demonstrator at "Inspiring Minds: Meet Women in Science" Museum of Science, Boston, MA, May 1, 2010
Discussion Leader, Bioorganic Chemistry Gordon Research Conference, Andover, NH, June 13-18, 2010
Mentor, American Chemical Society Women Chemists Committee Women in Industry Breakfast, ACS National Meeting, Boston, MA, August 23, 2010
Careers panel, Macalester College (St. Paul, MN), October 8, 2010; special guest for student research day/parents weekend
Speaker, "The Interview Process" (Interviewing and Considering Offers), Path of Professorship Workshop, MIT, October 23, 2010
Contributed Quarterly Chemical Report on 4NQO with undergraduate student Danielle Kania to ACS TOXI division newsletter, Dec 2010
Speaker "Celebrating Women Chemists" University of Minnesota, Department of Chemistry WISE program, February 17, 2011
Technology Table demonstrator at "Inspiring Minds: Meet Women in Science" Museum of Science, Boston, MA, April 29, 2011
Awards Committee and Judge, Northeast Student Chemistry Research Conference, Northeastern Section American Chemical Society, April 30, 2011
Judge for Chemical Toxicology division poster session, American Chemical Society national meeting, Denver, CO, August 30, 2011
Proposal reviewer for National Science Foundation, National Institutes of Health, Wellcome Trust, Research Corporation for Science Advancement
Anonymous referee for manuscripts submitted to (since 2006): University of Chicago Press, Radiation Research, BMC Microbiology, Biochimica et Biophysica Acta, Bentham Science Publishers, Journal of Molecular Biology, International Journal of Radiation Biology, Journal of Nucleic Acids, Journal of Biophysics, Molecular Microbiology, Biochemistry, Nature Methods
Biology Department Postdoc Association, 2003-2005
Travel Award to serve as Representative to National Postdoctoral Association inaugural meeting, March 2003, Berkeley, CA, and annual meeting, April 2004, Washington, D.C. Postdoctoral Scholars at MIT, advisory council, 2003-2006
MIT Research Practice workshop series, Facilitator, 2002-2005
Post-doc representative to the Corporation Visiting Committee for the Vice President for Research at MIT, October 2003
Post-doc representative to Corporation Visiting Committee for the Department of Biology, MIT, March 2005
Chemistry WISE Team, University of Minnesota, 1995-2000
Participated in grant-writing, member of planning committee for Chemistry Department Workshops that focus on issues of professional development for graduate students and community building for both graduate and undergraduate students
Summer Research Camp for Girls, participating host, 1995-1999
Chemistry Student-Run Seminar Series, 1996-1998
Council of Graduate Students, University of Minnesota, 1996-1999
Physical Sciences Policy and Review Council, 1996-1999
Chemistry Dept. Student Representative, 1996-1998; Alt. 1998-1999
Student Chair, 1997-1998
Ethics Training subcommittee, 1998
Chemistry Department Representative, 1996-1998
Executive Committee, 1997-1999
Vice President for External Relations, 1998-1999
Professional Development Committee, Chair, 1999-2000
Graduate School as an Option, I.T. Program for Women, 1997; traveled to local and regional undergraduate institutions to discuss graduate school in the sciences
Women in Science and Engineering (WISE) student group
Committee on Institutional Cooperation (consortium of 15 campuses, including Big 10 schools)-Women in Science and Engineering Student Leadership Conference, November 1997, 1998; October 1999
Women in Science and Engineering (WISE) Steering Committee, 1998-2001
Encouraging Girls in Science conference planning committee 1998-2001
WISE House Residential Program, advisor 1999-2001
University of Minnesota graduate student representative at the Science Coalition
Signature Event (Lobby Day), Washington, D.C., September 21-22, 1999
Office for University Women, University of Minnesota
search committee for Director, 1999-2000
Advisory Committee, 2000-2001