Seed Dormancy: Methods and Protocols

I. Introduction

1. Challenges Facing the Forest Industry in Relation to Seed Dormancy and Seed Quality

Michael U. Stoehr and Yousry A. El-Kassaby

2. Challenges Facing Seed Banks and Agriculture in Relation to Seed Quality

M. Verónica Rodríguez, Peter E. Toorop, and Roberto L. Benech-Arnold

II. Breaking Seed Dormancy and Standardizing Seed Dormancy Research

3. Standardizing Seed Dormancy Research

Henk WM Hilhorst

4. Eyeing Emergence: Modified Treatments for Terminating Dormancy of Conifer Seeds

J. Allan Feurtado and Allison R. Kermode

5. Production of Seed Samples for the Effective Molecular Analysis of Dormancy Cycling in Arabidopsis

Steven Footitt and William E. Finch-Savage

III. Hormone Analyses

6. Approaches to the Identification of ABAR as an Abscisic Acid Receptor

Xiao-Fang Wang, Qi Xin, Yuan-Yue Shen, and Da-Peng Zhang

7. Profiling of Hormones and Related Metabolites in Seed Dormancy and Germination Studies

Mitsunori Seo, Yusuke Jikumaru, and Yuji Kamiya

8. In Vitro Assay for ABA 8'-Hydroxylase: Implications for Improved Assays for Cytochrome P450 Enzymes

Joan E. Krochko and Adrian J. Cutler

9. Functional Analysis of Abscisic Acid 8'-Hydroxylase

Akira Endo, Mitsuhiro Kimura, Naoto Kawakami, and Eiji Nambara

IV. Gene, RNA, and Protein Analyses

10. Isolation of Genetic Material from Arabidopsis Seeds

Urszula Piskurewicz and Luis Lopez-Molina

11. Identification and Characterization of Quantitative Trait Loci (QTL) that Control Dormancy in Arabidopsis

Leonie Bentsink and Maarten Koornneef

12. Identification of Seed Dormancy Mutants by Activation Tagging

Tiehan Zhao, Ying Zeng, and Allison R. Kermode

13. Isolation of MicroRNAs that Regulate Seed Dormancy and Germination

Arun Kumar M.B., Ruth C. Martin, and Hiro Nonogaki

14. Proteomics and Post-Translational Proteomics of Seed Dormancy and Germination

Loïc Rajjou, Maya Belghazi, Julie Catusse, Laurent Ogé, Erwann Arc, Béatrice Godin, Kamel Chibani, Sonia Ali-Rachidi, Boris Collet, Philippe Grappin, Marc Jullien, Karine Gallardo, Claudette Job, and Dominique Job

V. Epigenetic Changes Associated with Seed Dormancy

15. Chromatin Dynamics during Seed Dormancy

Yongxiu Liu, Regina Geyer, Vittoria Brambilla, Kazumi Nakabayashi, and Wim J.J. Soppe

16. Emerging Mass Spectrometry-Based Technologies for Analyses of Chromatin Changes: Analysis of Histones and Histone Modifications

Brinda Shah, Rachel L. Kozlowski, and Christoph H. Borchers

VI. Spectroscopic and Whole Tissue Analyses

17. In Vivo Nuclear Magnetic Resonance (NMR) Metabolite Profiling in Plant Seeds

Victor Terskikh and Allison R. Kermode

18. In Vivo 1H NMR Microimaging during Seed Imbibition, Germination, and Early Growth

Victor Terskikh, Kerstin Müller, Allison Kermode, and Gerhard Leubner-Metzger

19. Tissue Printing Methods for Localization of RNA and Proteins that Control Seed Dormancy and Germination

Wioletta E. Pluskota, Kent J. Bradford, and Hiro Nonogaki

VII. Analyses of Reactive Oxygen Species, Protein Damage and Repair

20. Analyses of Reactive Oxygen Species and Antioxidants in Relation to Seed Longevity and Germination

Christophe Bailly and Ilse Kranner

21. Protein Damage and Repair Controlling Seed Vigor and Longevity

Laurent Ogé, Caroline Broyart, Boris Collet, Béatrice Godin, Denis Jallet, Gildas Bourdais, Dominique Job, and Philippe Grappin

22. Nitric Oxide Methods in Seed Biology

Paul C. Bethke, Igor Libourel, Jan Vitecek, and Russell L. Jones

VIII. Bioinformatic Resources

23. Seed Bioinformatics

George W. Bassel, Michael J. Holdsworth, and Nicholas J. Provart