Root Development, 1st ed. 2018
Methods and Protocols
Methods in Molecular Biology Series, Vol. 1761

Language: English

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Root Development
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324 p. · 17.8x25.4 cm · Paperback

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Root Development
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This detailed volume provides diverse elegant methods, complemented with existing protocols, which are optimized for the current needs in plant root biology as well as for use in plant species other than Arabidopsis thaliana. The collection covers methods ranging from genetic screens, phenotypic analysis, and cell biology methods to systems biology tools and genome-wide approaches. The collection contains a range of complexity from fundamental methods for quantification of different root developmental processes to complex methods that require sophisticated equipment. Written for the highly successful Methods in Molecular Biology series, 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. 

Authoritative and practical, Root Development: Methods and Protocols serves as a valuable tool for plant biologists specialized in root development, from beginners to experienced researchers in the field.

Part I: Genetic and Phenotypic Analyses

 

1. Measuring Plant Root Traits Under Controlled and Field Conditions: Step-By-Step Procedures

            Benjamin M. Delory, Emanuela W.A. Weidlich, Richard van Duijnen, Loïc Pagès, and Vicky M. Temperton

 

2. Phenotyping Crop Root Crowns: General Guidance and Specific Protocols for Maize, Wheat, and Soybean

            Larry M. York

 

3. Developmental Analysis of Arabidopsis Root Meristem

            Riccardo Di Mambro and Sabrina Sabatini

 

4. Genetic and Phenotypic Analysis of Lateral Root Development in Arabidopsis thaliana

            Selene Napsucialy-Mendivil and Joseph G. Dubrovsky

 

5. Adapting the Lateral Root Inducible System to Medicago truncatula

            Violaine Herrbach, Fabienne Maillet, and Sandra Bensmihen

 

6. Characterization of Root Epidermal Cell Patterning and differentiation in Arabidopsis

            Jorge E. Salazar-Henao, Girish Mokkapati, Eunice Han Xian Khor, Yi-Chia Chou, Wann-Neng Jane, and Wolfgang Schmidt

 

7. In Vitro Assay for Induction of Adventitious Rooting on Intact ArabidopsisHypocotyls

            Hoang Khai Trinh, Inge Verstraeten, and Danny Geelen

 

8. Root Gravitropism: Quantification, Challenges, and Solutions

            Lukas Muller, Malcolm J. Bennett, Andy French, Darren M. Wells, and Ranjan Swarup

 

Part II: Microscopy and Cell Biology

 

9. Calcium Ion Dynamics in Roots: Imaging and Analysis

            Ellie Himschoot, Melanie Krebs, Alex Costa, Tom Beeckman, and Steffen Vanneste

 

10. Optimized Whole-Mount In Situ Immunolocalization for Arabidopsis thaliana Root Meristems and Lateral Root Primordia

            Michael Karampelias, Ricardo Tejos, Jiří Friml, and Steffen Vanneste

 

11. ­­Light Sheet Fluorescence Microscopy Optimized for Long-Term Imaging of Arabidopsis Root Development

            Paolo Baesso, Ricardo S. Randall, and Giovanni Sena

 

12. Histological Profiling Over Time to Optimize Root Cell Type-Specific Reporter Lines for Cell Sorting

            Beatriz Lagunas, Liam Walker, Rana Muhammad Fraz Hussain, Ian Hands-Portman, Kate Woolley-Allen, and Miriam L. Gifford

 

13. Long-TermIn Vivo Imaging of Luciferase-Based Reporter Gene Expression in Arabidopsis Roots

            Wei Xuan, Davy Opdenacker, Steffen Vanneste, and Tom Beeckman

 

14. Cortical Cell Length Analysis During Gravitropic Root Growth

            Maria Schöller, Jürgen Kleine-Vehn, and Elena Feraru

 

15. Growth Rate Normalization Method to Assess Gravitropic Root Growth

            Maria Schöller, Elizabeth Sarkel, Jürgen Kleine-Vehn, and Elena Feraru

 

16. Immunoprecipitation of Membrane Proteins from Arabidopsis thaliana Root Tissue

            Sascha Waidmann, Lucinda De-Araujo, Jürgen Kleine-Vehn, and Barbara Korbei

 

Part III: Genome-Wide Methods and Systems Biology

 

17. Monitoring Transcriptomic Changes in Soil-Grown Roots and Shoots of Arabidopsis thaliana Subjected to a Progressive Drought Stress

            Khurram Bashir, Sultana Rasheed, Akihiro Matsui, Kei Iida, Maho Tanaka, and Motoaki Seki

 

18. Chromatin Immunoprecipitation Sequencing (ChIP-Seq) for Transcription Factors and Chromatin Factors in Arabidopsis thaliana Roots: From Material Collection to Data Analysis

            Sandra Cortijo, Varodom Charoensawan, François Roudier,  and Philip A. Wigge

 

19. μChIP-Seq for Genome-Wide Mapping of In Vivo TF-DNA Interactions in Arabidopsis Root Protoplasts

            Alessia Para, Ying Li, and Gloria M. Coruzzi

 

20. Proteome Analysis of Arabidopsis Roots

            Natalia Nikonorova, Lam Dai Vu, Elisabeth Stes, Kris Gevaert, and Ive De Smet

 

21. Step-By-Step Construction of Gene Co-Expression Networks from High-Throughput Arabidopsis RNA Sequencing Data

            Orlando Contreras-López, Tomás C. Moyano, Daniela C. Soto, and Rodrigo A. Gutiérrez

 

22. GWA-Portal: Genome-Wide Association Studies Made Easy

            Ümit Seren

Includes cutting-edge techniques for the study of plant root biology and development

Provides step-by-step detail essential for reproducible results

Contains key implementation advice from the experts