Fluorescence In Situ Hybridization (FISH)

Methods and Protocols

Buch | Hardcover

302 Seiten

2024
Springer-Verlag New York Inc.
978-1-0716-3765-4 (ISBN)

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This volume explores the latest techniques and protocols used by researchers to address unique biological questions, model organisms not typically studied by Fluorescent In Situ Hybridization (FISH), protocols combining FISH with immunofluorescence (FISH-IF), and high-throughput experiments. The chapters in this book are divided into two parts: RNA FISH protocols and DNA FISH protocols. Part One covers methods for designing OligoPaint probes and studying distinct aspects of RNA biology such as transcription and splicing dynamics, and mRNA and small RNA expression and localization. Part Two discusses DNA repair dynamics, gene compaction, and chromatin conformation and gene rearrangements in plants, insects, and mammalian cells. 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, Fluorescence In Situ Hybridization (FISH): Methods and Protocols is a valuable resource that will benefit the broader scientific community in their studies and understanding of this important field.

Preface...

Table of Contents...

Contributing Authors...

Part I RNA FISH

1. Single-Molecule Fluorescent In Situ Hybridization (smFISH) for RNA Detection in Bacteria
Camilla Ciolli Mattioli and Roi Avraham

2. Single-Molecule Fluorescent In Situ Hybridization (smFISH) for RNA Detection in the Fungal Pathogen Candida albicans
Sander van Otterdijk, Maryam Motealleh, Zixu Wang, Thomas D. Visser, Philipp Savakis, and Evelina Tutucci

3. RNA and Protein Detection by Single-Molecule Fluorescent In Situ Hybridization (smFISH) Combined with Immunofluorescence in the Budding Yeast S. cerevisiae
Anna Maekiniemi and Robert H. Singer

4. Fluorescence In Situ Hybridization as a Tool for Studying the Specification and Differentiation of Cell Types in Nematostella vectensis
Océane Tournière, Henriette Busengdal, James M. Gahan, and Fabian Rentzsch

5. SABER-FISH in Hydractinia
Miguel Salinas-Saavedra

6. smFISH for Plants
Sahar Hani, Caroline Mercier, Pascale David, Thierry Desnos, Jean-Marc Escudier, Edouard Bertrand, and Laurent Nussaume

7. Fluorescent In Situ Detection of Small RNAs in Plants using sRNA-FISH
Kun Huang, Blake C. Meyers, and Jeffrey L. Caplan

8. hcHCR: High-Throughput Single-Cell Imaging of RNA in Human Primary Immune Cells
Manasi Gadkari, Jing Sun, Adrian Carcamo, Iain Fraser, Luis M. Franco, Gianluca Pegoraro

9. High-Throughput RNA-HCR-FISH Detection of Endogenous Pre-mRNA Splice Variants
Asaf Shilo, Gianluca Pegoraro, and Tom Misteli

10. Simultaneous In Situ Detection of m6A-Modified and Unmodified RNAs using DART-FISH
Charles J. Sheehan and Kate D. Meyer

11. Multiplexed Immunofluorescence and Single Molecule RNA Fluorescence In Situ Hybridization in Mouse Skeletal Myofibers
Lance T. Denes, Chase P. Kelley, and Eric T. Wang

12. Designing Oligonucleotide-Based FISH Probe Sets with PaintSHOP
Monika W. Perez, Conor K. Camplisson, and Brian J. Bolivau

13. Efficient Prediction Model of mRNA End-to-End Distance and Conformation: Three-Dimensional RNA Illustration Program (TRIP)
Jiayun Ma and Tatsuhisa Tsuboi

Part II DNA FISH

14. Combined 3D DNA FISH, Single Molecule RNA FISH, and Immunofluorescence
Souvik Sen, Shivnarayan Dhuppar, and Aprotim Mazumder

15. Determining the Compaction State of Genes using DNA FISH
Masako Narita, Ioana Olan, and Masashi Narita

16. Hi-M: A Multiplex Oligopaint FISH Method to Capture Chromatin Conformations In Situ and Accompanying Open-Source Acquisition Software
Jean-Bernard Fiche, Marie Schaeffer, Christophe Houbron, Christel Elkhoury Youhanna, Olivier Messina, Franziska Barho, and Marcelo Nollmann

17. Rapid DNA-FISH in Arabidopsis thaliana Somatic Cells
Olga Raskina and Ofir Hakim

18. DBD-FISH Using Specific Chromosomal Region Probes for the Study of Cervical Carcinoma Progression
Catalina García-Vielma, Elva I. Cortés-Gutiérrez, José L. Fernández, Martha I. Dávila-Rodríguez, and Jaime Gosálvez

19. CRISPR-Based Split Luciferase as a Biosensor for Unique DNA Sequences In Situ
Nicholas G. Heath and David J. Segal

Subject Index List...

Erscheinungsdatum	23.03.2024
Reihe/Serie	Methods in Molecular Biology
Zusatzinfo	67 Illustrations, color; 1 Illustrations, black and white; XII, 302 p. 68 illus., 67 illus. in color. With online files/update.
Verlagsort	New York, NY
Sprache	englisch
Maße	178 x 254 mm
Themenwelt	Naturwissenschaften ► Biologie ► Biochemie
Themenwelt	Naturwissenschaften ► Biologie ► Genetik / Molekularbiologie
Schlagworte	CRISPR • DNA FISH • immunofluorescence • mRNA • single-nucleotide polymorphisms (SNPs)
ISBN-10	1-0716-3765-7 / 1071637657
ISBN-13	978-1-0716-3765-4 / 9781071637654
Zustand	Neuware