Circadian Regulation: Methods and Protocols

ISBN-13: 9781071622483 / Angielski / Twarda / 2022

Solanas, Guiomar

Opis

This 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 successful Methods in Molecular Biology series, 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 a useful 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.

Spis treści

1. 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