1 Detection of DNA Double Strand Breaks by γ-H2AX Immunodetection Sonia I. Barroso and Andrés Aguilera
2 END-seq: An Unbiased, High-Resolution and Genome-Wide Approach to Map DNA Double Strand Breaks and Resection in Human Cells Nancy Wong, Sam John, André Nussenzweig, and Andres Canela
3 Resection of a DNA Double-Strand Break by Alkaline Gel Electrophoresis and Southern Blotting Erika Casari, Elisa Gobbini, Michela Clerici, and Maria Pia Longhese
4 Analysis of DNA Double-Strand Break Ends Resection and Single-Strand Annealing in S. pombe Zhenxin Yan, Sandeep Kumar, and Grzegorz Ira
5 Quantifying DNA End Resection in Human Cells Yi Zhou and Tanya T. Paull
6 Genetic and Molecular approaches to Study Chromosomal Breakage at Secondary Structure-Forming Repeats Anissia Ait Saada, Alex Costa, and Kirill S. Lobachev
7 Biochemical analysis of D-Loop Extension and DNA Strand Displacement Synthesis Youngho Kwon and Patrick Sung
8 DNA Strand Exchange to Monitor Human RAD51-Mediated Strand Invasion and Pairing Sudipta Lahiri and Ryan B. Jensen
9 Monitoring Homologous Recombination Activity in Human Cells Domagoj Vugic, Åsa Ehlén, and Aura Carreira
10 Inter-Homolog Homologous Recombination in Mouse Embryonic Stem Cells Fabio Vanoli, Rohit Prakash, Travis White, and Maria Jasin
11 Branch Migration Activity of Rad54 Protein Olga M. Mazina and Alexander V. Mazin
12 Holliday Junction Resolution Raquel Carreira, F. Javier Aguado, Tomas Lama-Diaz, and Miguel G. Blanco
13 Identification and Analysis of Different Types of UFBs Simon Gemble and Mounira Amor-Guéret
14 Intrachromosomal Recombination in Yeast Anastasiya Epshtein, Lorraine S. Symington, and Hannah L. Klein
15 Genome-Wide Analysis of Mitotic Recombination in Budding Yeast Lydia R. Heasley, Nadia M. V. Sampaio, and Juan Lucas Argüeso
16 Monitoring Gene Conversion in Budding Yeast by Southern Blot Analysis Miyuki Yamaguchi and James E. Haber
17 DNA Double-Strand Break Induced Gene Amplification in Yeast Tomas Strucko, Michael Lisby, and Uffe Hasbro Mortensen
18 Measuring Chromosome Pairing during Homologous Recombination in Yeast Fraulin Joseph, So Jung Lee, Eric Bryant, and Rodney Rothstein
19 Cytological Monitoring of Meiotic Crossovers in Spermatocytes and Oocytes Yan Yun, Masaru Ito, Sumit Sandhu, and Neil Hunter
20 Detection of DSBs in C. elegans Meiosis Tatiana García-Muse
21 Methods to Map Meiotic Recombination Proteins in Saccharomyces cerevisiae Aurore Sanchez and Valérie Borde
22 Investigation of Break-Induced Replication in Yeast Beth Osia, Rajula Elango, Juraj Kramara, Steven A. Roberts, and Anna Malkova
23 Measurement of Homologous Recombination at Stalled Mammalian Replication Forks Nicholas A. Willis and Ralph Scully
24 Super Resolution Imaging of Homologous Recombination Repair at Collapsed Replication Forks Donna R. Whelan and Eli Rothenberg
25 The Analysis of Recombination-Dependent Processing of Blocked Replication Forks by Bi-Dimensional Gel Electrophoresis Karol Kramarz, Anissia Ait Saada and Sarah A.E. Lambert
26 The Sister Chromatid Exchange Assay in Human Cells Emanuela Tumini and Andrés Aguilera
27 Analysis of Recombination at Yeast Telomeres Marie-Noelle Simon, Dmitri Churikov and Vincent Géli
28 Gel Electrophoresis Analysis of rDNA Instability in Saccharomyces cerevisiae Mariko Sasaki and Takehiko Kobayashi
29 Analyzing Homologous Recombination at a Genome Wide Level Coline Arnould, Vincent Rocher, and Gaëlle Legube
30 CRISPR/Cas9 Induced Breaks in Heterochromatin, Visualized by Immunofluorescence Mitrentsi Ioanna and Evi Soutoglou
31 In Vivo Binding of Recombination Proteins of Non-DSB DNA Lesions to Replication Forks Román González-Prieto, María J. Cabello-Lobato and Félix Prado
32 Live Cell Imaging of Nuclear Actin Filaments and Heterochromatic Repair foci in Drosophila and Mouse Cells Colby See, Deepak Arya, Emily Lin, and Irene Chiolo
33 In Vitro Characterization of Sumoylation of HR Proteins Veronika Altmannova and Lumir Krejci
34 High-Throughput Analysis of Heteroduplex DNA in Mitotic Recombination Products Dionna Gamble, Yee Fang Hum, and Sue Jinks-Robertson
35 Fluorescence Microscopy for Analysis of Relocalization of Structure-Specific Endonucleases Carl P. Lehmann, Irene Saugar, and José Antonio Tercero
36 Physical and Genetic Assays for the Study of DNA Joint Molecules Metabolism and Multi-Invasion-Induced Rearrangements in S. cerevisiae Aurèle Piazza, Pallavi Rajput, and Wolf-Dietrich Heyer
This volume explores homologous recombination’s (HR) essential role in meiotic and somatic cells. It discusses the analysis of different steps of the HR process from the genetic, molecular biology, and cell biology perspectives. Using a variety of model systems, chapters in this book cover topics such as the genome-wide mapping of DNA double-strand breaks (DSB); analysis of DNA-end resection and recombination intermediates by gel electrophoresis and southern blotting; cell-based monitoring of HR activity in meiotic and mitotic cells; in vitro analysis of branch migration, DNA strand exchange and Holliday junction resolution; or super resolution imaging of HR repair at collapsed replication forks. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and thorough, Homologous Recombination: Methods and Protocols is a valuable resource that uses both classical and more recent approaches to answer questions on the HR mechanism. It is a useful tool for scientists working on the field of genome integrity, as well as those working in cancer biology and DNA repair.