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Contents (NOTE: Chapters not in MiMB/MiMM format are highlighted) Preface Contributors A. Nucleic Acid Extractions 1. Genomic DNA Isolation from Different Biological Materials Duckchul Park 2 Extraction of Plant RNA Elspeth MacRae B. Indirect Detection 3 Overview on Hybridization and Detection Techniques Elena Hilario 4 Checkerboard DNA:DNA Hybridization Technology using DIG Detection Glenn Wall-Manning, Lisa S. Gellen, and Chris H. Sissons 5 Non-radioactive Northern and Southern analyses from Plant Samples Christoph Peterhaensel, Dagmar Weier, and Thomas Lahaye 6 Screening a BAC library with Non-Radioactive Overlapping Oligonucleotide (Overgo) Probes Elena Hilario, Tiffany Bennell, and Erik Rikkerink 7 Direct In-gel Hybridization of DNA with Digoxigenin-Labeled Probes Saeed A. Khan and Mohamed S. Nawaz 8 In situ Hybridization of Termite Microbes Shigeharu Moriya , Satoko Noda, Moriya Ohkuma and Toshiaki Kudo C. Fluorescent Labeling and Detection 9 RNA Electrophoretic Mobility Shift Assay using a Fluorescent DNA Sequencer Yukinori Eguchi 10 Comparative Quantitation of mRNA Expression in the Central Nervous System using Fluorescence In situ Hybridization Darren Day, Eli M. Mrkusich, and John H. Miller 11 Visualization of Gene Expression by Fluorescent Multiplex RT-PCR Amplification Maria Rosa Ponce, Victor Quesada, Andrea Hricova, and Jose Luis Micol 12 Fluorescence In situ Hybridization for the Identification of Environmental Microbes Annelie Pernthaler and Jakob Pernthaler D. Kinetic ('Real-Time') PCR 13 Introduction to Kinetic (Real-Time) PCR John Mackay 14 Validation of siRNA Knockdowns by Quantitative Real-Time PCR Sukru Tuzmen 15 Real-Time Quantitative PCR as an Alternative to Southern Blot or FISH for Detection of Gene-Copy NumberChanges Jasmien Hoebeeck, Frank Speleman, and Jo Vandesompele 16 Design and Working up a New Molecular Diagnostic Assay Based on Real-Time PCR Harald Kessler 17 Real-Time PCR Fluorescent Chemistries John Mackay and Olfert Landt E. Microarrays 18 Microarrays: An Overview Norman H. Lee and Alexander I. Saeed 19 Oligonucleotide Microarrays for the Study of Coastal Microbial Communities Gaspar Taroncher-Oldenburg and Bess B. Ward

Protocols for Nucleic Acid Analysis by Nonradioactive Probes