Oral presentations
Penny J. Beuning “Moving in the Right Circles: Dynamics of processivity clamp proteins influence myriad DNA transactions” Chemistry, University of Utah, March 5, 2020

Penny J. Beuning “Roles of distal residues and conformation in DNA damage-bypass DNA polymerase activity” Chemistry and Biochemistry, University of Texas, Dallas, February 14, 2020

Penny J. Beuning “Moving in the Right Circles: Dynamics of processivity clamp proteins influence myriad DNA transactions” Chemistry, University of North Texas, February 13, 2020

Lydia Ruffner, Penny Beuning, Mary Jo Ondrechen “Computational Modeling of Remote Residue Dynamics in Human Phosphoglucose Isomerase (hPGI)” 2019 NOBCChE Meeting, November 18-21, 2019, St. Louis, MO

Penny J. Beuning “Roles of active site and distal residues in DNA damage-bypass DNA polymerase activity and dynamics” Chalmers University, Gothenburg, Sweden, November 11, 2019

Penny J. Beuning “Moving in the Right Circles: Dynamics of processivity clamp proteins influence myriad DNA transactions” Institute of Biotechnology, Vilnius University, Vilnius, Lithuania, November 4, 2019

Penny J. Beuning “Moving in Circles: Dynamics of processivity clamp proteins” iNANO, Aarhus University, Aarhus, Denmark, October 31, 2019

Penny J. Beuning “Strengthening a Neural Network: Pathways for Institutional Change Regarding Diversity and Inclusion” NINDS-NIH Workshop on Pathways for Institutional Change Regarding Diversity and Inclusion, Washington, D.C., April 29-30, 2019

Penny J. Beuning “On the Move: Protein dynamics in DNA damage responses and mutagenesis” Distinguished Women in Science Speaker, University of Texas at Arlington College of Science, March 18, 2019

Penny J. Beuning “Perspectives on Mentoring in Academia” University of Texas at Arlington, Women’s Faculty and Staff Network, March 18, 2019

Penny J. Beuning “Roles of active site and distal residues in Y-family polymerase activity and dynamics” seminar, Department of Chemistry, University of Connecticut-Storrs, March 13, 2019

Penny J. Beuning “Processivity clamp dynamics influence DNA replication activities” Mesilla Chemistry Workshop on Protein-Nucleic Acid Interactions, Mesilla, NM, February 9-12, 2019

Penny J. Beuning Hannah Stern, Nicole Antczak, Caitlyn Mills, Mary Jo Ondrechen “Roles of active site and distal residues in Y-family polymerase activity” 5th DNA Polymerases Meeting, Leiden, the Netherlands, September 23-27, 2018

Penny J. Beuning “Processivity clamp dynamics influence DNA replication activities” seminar, Department of Health Sciences and Technology, ETH Zurich, Switzerland, September 20, 2018

Penny J. Beuning “Correlation of activity with conformation of DNA damage-bypass DNA polymerases” Telluride Workshop on Nucleic Acid Chemistry, Telluride, CO, July 22-27, 2018

Penny J. Beuning “Research in Biochemistry: DNA damage, repair, and mutation” Roxbury Community College, May 3, 2018

Penny J. Beuning “Specificity of DNA damage-bypass DNA polymerases” seminar, Biochemistry, Ohio State University, March 8, 2018

Bilyana Koleva (graduate student) “Engineering stability in the E. coli beta clamp” DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), December 7, 2017

Penny J. Beuning “Specificity of potentially mutagenic damage-bypass DNA polymerases for personalized medicine” seminar, PerkinElmer, November 15, 2017

Penny J. Beuning “Specificity of DNA damage-bypass DNA polymerases” seminar, Institute of Biochemistry, Molecular Biology and Biotechnology, University of Colombo, Sri Lanka, October 25, 2017

Penny J. Beuning “Harnessing DNA damage processing enzymes for biotechnology and human health” 2nd International Symposium on Physics, Engineering, and Technologies for Biomedicine” Moscow, Russia, October 10-14, 2017

Caitlyn Mills (graduate student) “Characterizing the functions of structural genomics proteins through computed chemical properties and biochemical validation” American Chemical Society national meeting, Washington, D.C., August 20-24, 2017

Timothy Coulther (graduate student) “Engineering a replicative DNA polymerase for specific damage bypass capability” American Chemical Society national meeting, Washington, D.C., August 20-24, 2017

Caitlyn Mills (graduate student), Penny J. Beuning, Mary Ondrechen “Characterizing the Functions of Structural Genomics Proteins Through Computed Chemical Properties and Experimental Chemistry” American Society for Biochemistry and Molecular Biology (Experimental Biology 2017), Chicago, IL, April 22-26, 2017

Bilyana Koleva (graduate student) Joseph Baez, Jamie Conway, Amy Wu, Penny Beuning, “Dynamics of the E. coli Beta Clamp and Its Influence on DNA Loading” American Society for Biochemistry and Molecular Biology (Experimental Biology 2017), Chicago, IL, April 22-26, 2017

Nicole Antczak (graduate student), Carl Palad, Penny Beuning “Biochemical characterization of single nucleotide polymorphisms of Y-family DNA polymerase kappa” 19th Annual Northeast Student Chemistry Research Conference, Harvard University, April 8th, 2017

Penny Beuning “CURE in Chemical Biology” American Chemical Society national meeting, San Francisco, CA, April 2-6, 2017

Penny Beuning “DNA polymerase dynamics regulate DNA damage responses” seminar, Department of Biochemistry, University at Buffalo, SUNY, March 7, 2017

Nicole Antczak (graduate student) “Characterization of single-nucleotide polymorphisms in Y-family DNA polymerase kappa” DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), February 16, 2017

Penny Beuning “Specificity of specialized damage-bypass DNA polymerases for different types of DNA damage” seminar, Biomolecular Sciences Institute, Florida International University, October 24, 2016

Penny Beuning “Protein Dynamics Regulate DNA Replication and Mutagenesis” seminar, Cancer Research Center of Marseille, Inserm CNRS, Marseille, France, September 16, 2016

Caitlyn Mills (graduate student) “Utilizing computational and experimental chemistry to characterize the functions of Structural Genomics proteins” Young Chemists Crossing Borders (YCCB), Spain, Sept 10-16, 2016

Caitlyn Mills (graduate student) “Utilizing computed chemical properties to characterize the functions of Structural Genomics proteins” Intelligent Systems for Molecular Biology Function SIG, Orlando, FL, July 9, 2016

Caitlyn Mills (graduate student) “Utilizing computed chemical properties to characterize the functions of Structural Genomics proteins” International Society for Computational Biology Student Council Symposium, Orlando, FL, July 8, 2016

Nicole Antczak (graduate student), Paul Ippoliti, Morgan Packer, Jason Walsh, Penny Beuning “Active site loops of Y-family DNA polymerases human pol kappa and E. coli DinB contribute to their specificity and activity” Mutagenesis Gordon Research Seminar, Girona, Spain, June 4-5, 2016

Nicole Antczak (graduate student) “Human Y-family DNA polymerase kappa is more tolerant of amino acid substitutions in the active site loop than E. coli DinB” DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), April 14, 2016

Mary Ondrechen, Caitlyn Mills, Penny Beuning “Physicochemical properties for functional genomics: Predicting enzyme function for structural genomics proteins” American Chemical Society national meeting, San Diego, CA, March 13-17, 2016

Penny J. Beuning “Integrating research and education in chemical biology” American Chemical Society national meeting, San Diego, CA, March 13-17, 2016

Penny J. Beuning “Specific recognition of DNA damage by specialized Y-family DNA polymerases” seminar, Department of Biochemistry and Molecular Biology, Pennsylvania State Hershey College of Medicine, March 7, 2016

Penny J. Beuning “Specificity of potentially mutagenic DNA polymerases for different types of DNA damage” Boston Area Group for Informatics and Modeling, at Vertex, Boston, MA, February 1, 2016

Penny J. Beuning “Specificity of translesion DNA polymerases for DNA damage” seminar, Department of Molecular Biology and Biochemistry, University of Connecticut Health Center, January 21, 2016

Penny J. Beuning “Recognition of DNA damage by specialized DNA polymerases” seminar, Department of Chemistry, Brown University, September 18, 2015

Penny J. Beuning “Recognition of DNA damage by specialized DNA polymerases” American Chemical Society 2015 Fall Meeting, Boston, MA, August 16-20, 2015, award symposium address for Chemical Research in Toxicology Young Investigator Award

Caitlyn L. Mills (graduate student), Pengcheng Yin, Penny J. Beuning and Mary Jo Ondrechen “Functional Characterization of Structural Genomics Proteins in the Crotonase Superfamily” American Society for Biochemistry and Molecular Biology (Experimental Biology 2015), Boston, MA, March 28-April 1, 2015

Philip Nevin (graduate student), Xueguang Lu, Ke Zhang, John R. Engen and Penny J. Beuning “Non-cognate DNA damage prevents formation of active conformation of Y-family DNA polymerases DinB and pol kappa” American Society for Biochemistry and Molecular Biology (Experimental Biology 2015), Boston, MA, March 28-April 1, 2015

Penny J. Beuning “Mutagenesis by specialized DNA polymerases” seminar, Bridgewater State University, Bridgewater, MA March 20, 2015

Penny J. Beuning “Mutagenesis by specialized DNA polymerases” seminar, Emmanuel College, Boston, MA October 27, 2014

Penny J. Beuning, Philip Nevin, Jason Walsh, Xueguang Lu, Ke Zhang, and John R. Engen “Conformational changes of Y family DNA polymerases upon interaction with different types of DNA damage” DNA Polymerases: Biology, Diseases, and Biomedical Applications, Robinson College, Cambridge, UK, August 31- September 4, 2014

Penny J. Beuning, Philip Nevin, Xueguang Lu, Ke Zhang, and John R. Engen “Conformational changes of Y family DNA polymerases upon interaction with substrates” American Chemical Society 2014 Fall Meeting, San Francisco, CA, August 10-14, 2014

Caitlyn Mills (graduate student), Pengcheng Yin, Penny J. Beuning, Mary Jo Ondrechen “Functional Characterization of Structural Genomics Proteins in the Crotonase Superfamily” Automated Function Prediction Special Interest Group satellite meeting of the 22nd Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Boston, MA, July 11-12, 2014

Penny J. Beuning “The SOS mutagenesis protein UmuD regulates DNA replication in response to DNA damage” seminar, Carlos Chagas Filho Biophysics Institute, Federal University of Rio de Janeiro, Brazil, May 22, 2014

MarkVic Naniong (undergraduate student), Michelle C. Silva, Arianna DiBenedetto, Celeste Dang, Christine Alves, Monyrath Chan, Penny J. Beuning “The E. coli single stranded DNA binding protein SSB interacts with the UmuD polymerase manager protein” American Society for Biochemistry and Molecular Biology (Experimental Biology 2014), San Diego, CA, April 26-30, 2014 NSF Student Research Travel Award Winner

Philip Nevin (graduate student) “Conformational dynamics of Y-family DNA polymerases DinB and Pol κ related to nucleotide selection” DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), April 14, 2014

Penny J. Beuning “Substrate specificity of Y-family DNA polymerases” seminar, Molecular Biology and Biochemistry, Wesleyan University, April 3, 2014

Karolin Frykholm, Mohammadreza Alizadehheidari, Joachim Fritzsche, Jens Wigenius, Philip Nevin, Joshua Araya, Penny Beuning, Mauro Modesti, Fredrik Persson, Fredrik Westerlund “Probing physical properties of a DNA-protein complex using nanofluidic channels” Biophysical Society Annual Meeting, San Francisco, CA, February 15-19, 2014

Penny Beuning, Michelle C. Silva, Philip Nevin, Kathy R. Chaurasiya, Clarissa Ruslie, Lukas Voortman, Samer Lone, Erin A. Ronayne, Mark C. Williams “Interactions between the E. coli SOS response protein UmuD and DNA polymerase III alpha subunit have implications for regulating replication in response to DNA damage” Biophysical Society Annual Meeting, San Francisco, CA, February 15-19, 2014

Penny J. Beuning “Dynamic Protein Interactions Regulate the Cellular Response to DNA Damage” seminar, Chemistry, Chalmers University, Sweden, December 2, 2013

Penny J. Beuning “Specificity of potentially mutagenic DNA polymerases for different types of DNA damage” Zing Conference on Enzymes, Coenzymes, and Metabolic Pathways, Playa del Carmen, Mexico, November 17-21, 2013

Penny J. Beuning “Dynamic Protein Interactions Regulate the Cellular Response to DNA Damage” seminar, Chemistry and Biochemistry, Arizona State University, October 11, 2013

Penny J. Beuning “Specificity of Y-family DNA polymerases for different types of DNA damage” Telluride Science Research Center Workshop on DNA Replication, Repair, and Recombination, Telluride, CO, June 24-29, 2013

Pei Shi (graduate student) “Structure activity relationship study of the cleistriosides and cleistetrosides for antibacterial/anticancer activity” American Society for Biochemistry and Molecular Biology (Experimental Biology 2013), Boston, MA, April 20-24, 2013

Michelle C. Silva (graduate student) “The DNA damage response protein UmuD disrupts interactions of DNA polymerase III alpha subunit that are required for DNA replication” DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), April 16, 2013

Penny J. Beuning “Effective practices in teaching and mentoring: How to teach better, save time, and have more fun” American Chemical Society 2013 Spring Meeting, New Orleans, LA, April 7-11, 2013

Penny J. Beuning “Specificity of potentially mutagenic DNA polymerases for different types of DNA damage” seminar, Department of Chemistry, Trinity University, San Antonio, TX, March 21, 2013

Penny J. Beuning “Dynamic Protein Interactions Regulate the Cellular Response to DNA Damage” seminar, Molecular and Cellular Biology, UMass-Amherst, February 26, 2013

Penny J. Beuning “Conformational Analysis of Processivity Clamps Demonstrates that Protein Tertiary Structure does not correlate with Dynamics” Biophysical Society Annual Meeting, Philadelphia, PA, February 2-6, 2013

Penny J. Beuning “Function and regulation of specialized, potentially mutagenic DNA polymerases” seminar, Department of Chemistry and Biochemistry, University of Maryland Baltimore County, December 5, 2012

Penny J. Beuning “Dynamic Protein Interactions Regulate the Cellular Response to DNA Damage” seminar, Institute for Biotechnology, Vilnius University, Vilnius, Lithuania, October 16, 2012

Penny J. Beuning “Function and regulation of specialized, potentially mutagenic DNA polymerases” seminar, Bates College, Lewiston, ME, September 20, 2012

Penny J. Beuning, Lisa A. Hawver, Mohammad Tehrani, Danielle Kania, Stephanie Muser “Point mutations in Escherichia coli DNA pol V that confer resistance to non-cognate DNA damage” American Chemical Society 2012 Fall Meeting, Philadelphia, PA, August 19-23, 2012

Philip Nevin (graduate student) “Selective disruption of replication complexes by the umuD gene products” Northeast Student Chemistry Research Conference, Boston, MA, April 28, 2012

Nicholas DeLateur (undergraduate student) “Investigating single layer versus multi-layer active sites with alkaline phosphatase” Northeast Student Chemistry Research Conference, Boston, MA, April 28, 2012 NSCRC Outstanding Oral Presentation Award

Jaylene Olliviere (graduate student) “Multiple forms of the E. coli SOS response protein UmuD” American Society for Biochemistry and Molecular Biology (Experimental Biology 2012), San Diego, CA, April 21-25, 2012

Jing Fang (graduate student) “Species-specific differences in processivity clamp dynamics” DNA Repair and Mutagenesis meeting (DRAM), MIT (Cambridge, MA), December 13, 2011

Penny J. Beuning “Regulation of bacterial mutagenesis by the dynamic DNA polymerase manager protein UmuD” seminar, Department of Chemistry, University of Rhode Island, October 31, 2011

Penny J. Beuning “Substrate specificity of Escherichia coli damage bypass DNA polymerase IV DinB” organic chemistry division seminar, Chalmers University of Technology, Gothenburg, Sweden, September 19, 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, 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 “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 “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 “Multiple regulatory modes that control replication of damaged DNA” seminar, Department of Biochemistry, University at Buffalo, SUNY, May 3, 2011

Lisa A. Hawver (graduate student) “Probing the role of active site loops in E. coli Y family DNA damage bypass polymerase V” selected from abstracts, 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 translesion DNA synthesis” seminar, Department of Chemistry Biochemistry Seminar, Wayne State University, March 4, 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 “DNA damage responses” guest speaker in Molecular Biology and Biochemistry classes, Departments of Biology and Chemistry, Ripon College (Ripon, WI), February 18, 2011

Penny J. Beuning “Multiple regulatory modes that control replication of damaged DNA” seminar, Department of Chemistry, Ripon College (Ripon, WI), February 18, 2011

Penny J. Beuning “Multiple regulatory modes that control translesion DNA synthesis” seminar, Department of Chemistry, University of Minnesota, February 17, 2011

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 “UmuD: A Molecular Gymnast that Regulates Mutagenesis” seminar presented to MARC and RISE programs, University of Puerto Rico-Rio Piedras, November 24, 2010

Penny J. Beuning “UmuD: A Molecular Gymnast that Regulates Mutagenesis” Departments of Chemistry and Biology, Macalester College (St. Paul, MN), October 8, 2010; guest for student research day/parents weekend

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” seminar, Department of Chemistry, Merrimack College (North Andover, MA), March 15, 2010

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 “Communication in Science” MIT Summer Research Program, June 23, 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” selected from abstracts, ASM Conference on DNA Repair and Mutagenesis, Whistler, BC, Canada, May 30-June 5, 2009

Penny J. Beuning “Regulation of DNA damage responses by a DNA polymerase manager protein” seminar, Department of Chemistry, Carleton College (Northfield, MN), February 20, 2009

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 “Dreyfus Foundation: Promoting New Faculty and Academic Careers” American Chemical Society 2008 Spring Meeting, New Orleans, LA, April 6, 2008

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 “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 “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 “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 “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 “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 “Critical Role of Processivity Clamps in Regulating Mutagenic DNA Polymerases” seminar, Department of Chemistry and Chemical Biology, Northeastern University, September 21, 2005

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, 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 “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, 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 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 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, 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