Plant Signalling Networks: Methods and Protocols

ISBN-13: 9781493961696 / Angielski / Miękka / 2016 / 230 str.

Zhiyong Wang; Zhenbiao Yang; Zhi-Yong Wang

Opis

This Methods in Molecular Biology (TM) book covers proteomics and mass spectrometry for studying protein modification, biochemical and cell biological tools for studying protein-protein interactions, genomic methods for dissecting protein-DNA interaction and more.

Recenzje

From the reviews:

"This protocol book is a good overview across various research approaches such as genomics, proteomics, metabolomics, and bioinformatics. Its methods are elaborate and clear, and most of the chapters provide specific hints and notes to increase the success of the experiments. This book will long stand as a guide to plant signaling networks, and it can be taken as a useful vademecum to the lab for the more experienced user." (Peter Schröder, Plant Science Bulletin, Vol. 59 (1), 2013)

Spis treści

1. Experimental Analysis of Receptor Kinase Phosphorylation 

            Srijeet K. Mitra, Michael B. Goshe, and Steven D. Clouse

 

2. Quantitative Measurement of Phosphopeptides and Proteins via Stable Isotope Labeling in Arabidopsis (SILIA) and Functional Phosphoproteomic Strategies

            Ning Li

 

3. Identification of O-GlcNAc Modified Proteins from Arabidopsis

            Shou-Ling Xu, Robert J. Chalkley, Zhi-Yong Wang, and Alma L. Burlingame

 

4. Quantitative Analysis of Protein Phosphorylation Using Two-Dimensional Difference Gel Electrophoresis (2-D DIGE)

            Zhiping Deng, Shuolei Bu, and Zhi-Yong Wang

 

5. Quantitative Analysis of Plasma Proteome Using Two-Dimensional Difference Gel Electrophoresis (2-D DIGE)

            Wenqiang Tang

 

6. Identification and Verification of Redox-Sensitive Proteins in Arabidopsis thaliana

            Hai Wang, Shengbing Wang, and Yiji Xia

 

7. Small-Molecule Dissection of Brassinosteroid (BR) Signaling

            Mirela-Corina Codreanu, Dominique Audenaert, Long Nguyen, Tom Beeckman, and Eugenia Russinova

 

8. A Chemical Genetics Method to Uncover Small Molecules for Dissecting the Mechanism of ABA Responses in Arabidopsis Seed Germination

            Yang Zhao

 

9. Activation Tagging

            Xiaoping Gou and Jia Li

 

10. Rho GTPase Activity Analysis in Plant Cells

            Tongda Xu

 

11. Analysis of In Vivo ROP GTPase Activity at the Subcellular Level by Fluorescence Resonance Energy Transfer Microscopy

            Lei Zhu and Ying Fu

 

12. In vivo Ubiquitination Assay by Agroinfiltration

            Lijing Liu, Qingzhen Zhao, and Qi Xie

 

13. In Vitro Protein Ubiquitination Assay

            Qingzhen Zhao, Lijing Liu, and Qi Xie

 

14. Genome-Wide Identification of Transcription Factor Binding Sites in Plants Using Chromatin Immunoprecipitation Followed by Microarray (ChIP-chip) or Sequencing (ChIP-seq)

            Jia-Ying Zhu, Yu Sun, and Zhi-Yong Wang

 

15. Smart Pooling of mRNA Samples for Efficient Transcript Profiling

            Raghunandan M. Kainkaryam, Angela Bruex, Peter J. Woolf, and John Schiefelbein

 

16. Transient Expression Assays for Quantifying Signaling Output

            Yajie Niu and Jen Sheen

 

17. Genome-Wide Profiling of Uncapped mRNA

            Yuling Jiao and José Luis Riechmann

 

18. Computational Tools for Quantitative Analysis of Cell Growth Patterns and Morphogenesis in Actively Developing Plant Stem Cell Niches

            Anirban Chakraborty, Ram Kishor Yadav, Min Liu, Moses Tataw, Katya Mkrtchyan, Amit Roy Chowdhury, and G. Venugopala Reddy

Blurb

Signal transduction is the fundamental mechanism for regulation of cellular activities by environmental cues and regulatory signals, and is particularly important for plants, whose survival requires proper physiological and developmental responses to the environmental changes. Much progress has been made recently in the plant signal transduction research field thanks to the development of diverse techniques which are covered in Plant Signalling Networks: Methods and Protocols. These include advanced research methods such as proteomics and mass spectrometry methods for studying protein modification, biochemical and cell biological tools for studying protein-protein interactions, genomic techniques for dissecting protein-DNA interaction and transcription networks, and computation methods that integrate molecular network into plant developmental processes. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls.

 

Plant Signalling Networks: Methods and Protocols presents well-honed methodologies for a wide range of research approaches including genetics, proteomics, biochemical, cell biological, and computational approaches, and seeks to serve both professionals and novices with a comprehensive understanding of complex signaling networks in plants.