Description
Book SynopsisThis volume details methods on several aspects of circadian research. Chapters guide readers through the latest techniques and a wide variety of daily rhythmic processes, model organisms, circadian rhythms in the SCN and in peripheral organs, and describing in vitro systems and in silico methods. Written in the format of the highly successfulMethods in Molecular Biologyseries, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge,Circadian Regulation: Methods and Protocols aims to be auseful practical guide to researches to help further their study in this field.Chapters 3, 4, 8, and 17 are available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.
Table of Contents1. Sleep under Preindustrial Conditions: What We Can Learn from It
Leandro Casiraghi and Horacio O. de la Iglesia
2. The structure-based molecular-docking screen against core clock proteins to identify small molecules to modulate the circadian clock
Seref Gul and Ibrahim Halil Kavakli
3. Analysis of complex circadian time series data using wavelets
Christoph Schmal, Gregor Mönke, and Adrián E. Granada
4. Mathematical Modeling in Circadian Rhythmicity
Marta del Olmo, Saskia Grabe, and Hanspeter Herzel
5. Bioinformatics and Systems Biology of Circadian Rhythms: BIO CYCLE and CircadiOmics
Muntaha Samad, Forest Agostinelli, and Pierre Baldi
6. Cell-based Phenotypic Screens to Discover Circadian Clock Modulating Compounds
Megumi Hatori and Tsuyoshi Hirota
7. Methods for Assessing Circadian Rhythms and Cell Cycle in Intestinal Enteroids
Miri Park, Yuhui Cao, and Christian I. Hong
8. Using ALLIGATORs to capture circadian bioluminescence
Aiwei Zeng and John O’Neill
9. Studying circadian clock entrainment by hormonal signals
Violetta Pilorz, Iwona Olejniczak, and Henrik Oster
10. In vitro assays for measuring intercellular coupling among peripheral circadian oscillators
Anna-Marie Finger
11. Circadian control of transcriptional and metabolic rhythms in primary hepatocytes
Sung Kook Chun and Selma Masri
12. Electrophysiology of the Suprachiasmatic Nucleus: Single-Unit Recording
Martha U. Gillette and Jennifer W. Mitchell
13. Anatomical Methods to Study the Suprachiasmatic Nucleus
Eric L. Bittman
14. Circadian analysis of rodent locomotor activity in home cages
Paul Petrus
15. Recording of diurnal gene expression in peripheral organs of mice using the RT-Biolumicorder
Georgia Katsioudi, Alejandro Osorio-Forero, Flore Sinturel, Claudia Hagedorn, Florian Kreppel, Ueli Schibler, and David Gatfield
16. Isolation and sorting of epidermal interfollicular stem cells for the study of circadian rhythms
Paloma Solá and Valentina M. Zinna
17. Detecting circadian rhythms in human red blood cells by dielectrophoresis
Andrew D. Beale, Fatima H. Labeed, Stephen J. Kitcatt, and John S. O’Neill
18. Measuring circadian neutrophil infiltration in tissues by paired whole-mount tissue-clearing and flow cytometry
Tommaso Vicanolo, Andres Hidalgo, and Jose M. Adrover
19. In vivo imaging of circadian NET formation during lung injury by 4-dimensional intravital microscopy
Alejandra Aroca-Crevillén, Andres Hidalgo, and Jose M. Adrover
20. Real-time measurement of energy metabolism over circadian time using indirect calorimetry-enabled metabolic cages.
Kevin B. Koronowski
21. Untargeted and Targeted Circadian Metabolomics Using Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) and Flow Injection-Electrospray Ionization-Tandem Mass Spectrometry (FIA-ESI-MS/MS)
Anna Artati, Cornelia Prehn, Dominik Lutter, and Kenneth Allen Dyar
22. Time Restricted Feeding and Caloric Restriction - two feeding regimen at the crossroad of metabolic and circadian regulation.
Amandine Chaix
23. Chromatin Immunoprecipitation and Circadian Rhythms
Kenichiro Kinouchi, Kazutoshi Miyashita, and Hiroshi Itoh
24. Fluorescent reporters for studying circadian rhythms in Drosophila melanogaster
Kathyani Parasram, Daniela Bachetti, Vania Carmona-Alcocer, and Phillip Karpowicz
25. Visualization of mutant aggregates from clock neurons by agarose gel electrophoresis (AGERA) in Drosophila melanogaster
Laura Delfino, Susanna Campesan, Giorgio Fedele, Edward W Green, Flaviano Giorgini, Charalambos P. Kyriacou, and Ezio Rosato
26. Methods for delivery of dsRNAi against canonical clock genes and immunocytodetection of clock proteins in crustacea.
David C. Wilcockson, Lin Zhang, and Charalambos P Kyriacou
27. In vivo bioluminescence analyses of circadian rhythms in Arabidopsis thaliana using a microplate luminometer
Masaaki Okada and Paloma Mas
