ADP-ribosylation and NAD+ Utilizing Enzymes: Methods and Protocols

Front Matter ....Pages i-xiv
Front Matter ....Pages 1-1
 Vitamin B3 in Health and Disease: Toward the Second Century of Discovery  (Myron K. Jacobson, Elaine L. Jacobson)....Pages 3-8
Front Matter ....Pages 9-9
 Monitoring Poly(ADP-Ribosyl)ation in Response to DNA Damage in Live Cells Using Fluorescently Tagged Macrodomains  (Rebecca Smith, Gyula Timinszky)....Pages 11-24
 In Vitro Techniques for ADP-Ribosylated Substrate Identification  (Giovanna Grimaldi, Giuliana Catara, Carmen Valente, Daniela Corda)....Pages 25-40
 Assessment of Intracellular Auto-Modification Levels of ARTD10 Using Mono-ADP-Ribose-Specific Macrodomains 2 and 3 of Murine Artd8  (Mareike Bütepage, Sarah Krieg, Laura Eckei, Jinyu Li, Giulia Rossetti, Patricia Verheugd et al.)....Pages 41-63
 Biochemical and Biophysical Assays of PAR-WWE Domain Interactions and Production of iso-ADPr for PAR-Binding Analysis  (Zhizhi Wang, Wenqing Xu)....Pages 65-73
Front Matter ....Pages 75-75
 Assays for NAD+-Dependent Reactions and NAD+ Metabolites  (Michael B. Schultz, Yuancheng Lu, Nady Braidy, David A. Sinclair)....Pages 77-90
 Generating Protein-Linked and Protein-Free Mono-, Oligo-, and Poly(ADP-Ribose) In Vitro  (Ken Y. Lin, Dan Huang, W. Lee Kraus)....Pages 91-108
 Methods to Study TCDD-Inducible Poly-ADP-Ribose Polymerase (TIPARP) Mono-ADP-Ribosyltransferase Activity  (David Hutin, Giulia Grimaldi, Jason Matthews)....Pages 109-124
 Dictyostelium as a Model to Assess Site-Specific ADP-Ribosylation Events  (Anna-Lena Kolb, Duen-Wei Hsu, Ana B. A. Wallis, Seiji Ura, Alina Rakhimova, Catherine J. Pears et al.)....Pages 125-148
 Mono-ADP-Ribosylation Catalyzed by Arginine-Specific ADP-Ribosyltransferases  (Linda A. Stevens, Joel Moss)....Pages 149-165
 Monitoring Expression and Enzyme Activity of Ecto-ARTCs  (Stephan Menzel, Sahil Adriouch, Peter Bannas, Friedrich Haag, Friedrich Koch-Nolte)....Pages 167-186
 ADP-Ribosyl-Acceptor Hydrolase Activities Catalyzed by the ARH Family of Proteins  (Masato Mashimo, Joel Moss)....Pages 187-204
 Mono-ADP-Ribosylhydrolase Assays  (Jeannette Abplanalp, Ann-Katrin Hopp, Michael O. Hottiger)....Pages 205-213
 Hydrolysis of ADP-Ribosylation by Macrodomains  (Melanija Posavec Marjanovic´, Gytis Jankevicius, Ivan Ahel)....Pages 215-223
 HPLC-Based Enzyme Assays for Sirtuins  (Jun Young Hong, Xiaoyu Zhang, Hening Lin)....Pages 225-234
Front Matter ....Pages 235-235
 Small-Molecule Screening Assay for Mono-ADP-Ribosyltransferases  (Teemu Haikarainen, Sudarshan Murthy, Mirko M. Maksimainen, Lari Lehtiö)....Pages 237-244
 A Simple, Sensitive, and Generalizable Plate Assay for Screening PARP Inhibitors  (Ilsa T. Kirby, Rory K. Morgan, Michael S. Cohen)....Pages 245-252
Front Matter ....Pages 253-253
 Nonlocalized Searching of HCD Data for Fast and Sensitive Identification of ADP-Ribosylated Peptides  (Thomas Colby, Juan José Bonfiglio, Ivan Matic)....Pages 255-269
 Quantitative Determination of MAR Hydrolase Residue Specificity In Vitro by Tandem Mass Spectrometry  (Robert Lyle McPherson, Shao-En Ong, Anthony K. L. Leung)....Pages 271-283
Front Matter ....Pages 285-285
 Detection of ADP-Ribosylating Bacterial Toxins  (Chen Chen, Joseph T. Barbieri)....Pages 287-295
 Preparation of Recombinant Alphaviruses for Functional Studies of ADP-Ribosylation  (Rachy Abraham, Robert Lyle McPherson, Easwaran Sreekumar, Anthony K. L. Leung, Diane E. Griffin)....Pages 297-316
 Monitoring the Sensitivity of T Cell Populations Towards NAD+ Released During Cell Preparation  (Björn Rissiek, Marco Lukowiak, Friedrich Haag, Tim Magnus, Friedrich Koch-Nolte)....Pages 317-326
 Identifying Target RNAs of PARPs  (Florian J. Bock, Paul Chang)....Pages 327-341
Front Matter ....Pages 343-343
 ADPr-Peptide Synthesis  (Hans A. V. Kistemaker, Jim Voorneveld, Dmitri V. Filippov)....Pages 345-369
 Identifying Genomic Sites of ADP-Ribosylation Mediated by Specific Nuclear PARP Enzymes Using Click-ChIP  (Ryan A. Rogge, Bryan A. Gibson, W. Lee Kraus)....Pages 371-387
Front Matter ....Pages 389-389
 Methods for Using a Genetically Encoded Fluorescent Biosensor to Monitor Nuclear NAD+  (Michael S. Cohen, Melissa L. Stewart, Richard H. Goodman, Xiaolu A. Cambronne)....Pages 391-414
 Correction to: ADP-ribosylation and NAD+ Utilizing Enzymes  (Paul Chang)....Pages E1-E1
Back Matter ....Pages 415-417