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With the completion of a finished rice genome sequence, increasing efforts have focused on functional characterization of rice genes, elucidation of the underlying mechanisms involved in major agronomic traits (e.g., high yield, grain quality, abiotic stress tolerance, and disease resistance), and the subsequent translation of genomic knowledge into agricultural productivity via molecular breeding and improved cultural practice. To meet increasing interest in this field, Rice Protocols has been compiled to provide a series of core techniques and approaches commonly used in studying rice molecular biology and functional genomics.
These approaches include genetic and molecular techniques such as artificial hybridization, fluorescence in situ hybridization, generation and characterization of chemical and T-DNA insertional mutants, quantitative trait loci (QTLs) analysis and map-based cloning, site-specific transgene integration, and artificial microRNA-mediated gene silencing, along with a variety of "omics" techniques. Written in the highly 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 laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Authoritative and easy to use, Rice Protocols will prove useful for both beginners and experienced researchers whether they are molecular biologists who want to study rice plants or rice researchers who are interested in learning molecular techniques.
1. Rice Artificial Hybridization for Genetic Analysis Xueyan Sha
2. Fluorescence In Situ Hybridization Techniques for Cytogenetic and Genomic Analyses Jason G. Walling, Wenli Zhang, and Jiming Jiang
3. Generation of Rice Mutants by Chemical Mutagenesis Thomas H. Tai
4. TILLING and Ecotilling for Rice Jennifer L. Cooper, Steven Henikoff, Luca Comai, and Bradley J. Till
5. Functional Characterization of Rice Genes Using a Gene-Indexed T-DNA Insertional Mutant Population Ki-Hong Jung and Gynheung An
6. QTL Analysis and Map-Based Cloning of Salt Tolerance Gene in Rice Ji-Ping Gao and Hong-Xuan Lin
7. Site-Specific Gene Integration in Rice Vibha Srivastava
8. Transcriptome Profiling Analysis Using Rice Oligonucleotide Microarrays Ki-Hong Jung and Pamela C. Ronald
9. Cloning of Small RNAs for the Discovery of Novel MicroRNAs in Rice Guru Jagadeeswaran and Ramanjulu Sunkar
10. Global Identification of Small RNA Targets in Rice by Sequencing Sliced Ends of Messenger RNAs Yong-Fang Li and Ramanjulu Sunkar
11. Artificial MicroRNAs for Specific Gene Silencing in Rice Norman Warthmann, Stephan Ossowski, Rebecca Schwab, and Detlef Weigel
12. Rice Proteomic Analysis: Sample Preparation to Protein Identification Ganesh Kumar Agrawal, Nam-Soo Jwa, Young-Ho Jung, Sun Tae Kim, Dea-Wook Kim, Kyoungwon Cho, Junko Shibato, and Randeep Rakwal
13. Quantification of Jasmonic and Salicylic Acids in Rice Seedling Leaves Kyoungwon Cho, Oksoo Han, Shigeru Tamogami, Junko Shibato, Akihiro Kubo, Ganesh Kumar Agrawal, and Randeep Rakwal
14. Analysis of Insect-Induced Volatiles from Rice Nan Zhao, Xiaofeng Zhuang, Gitika Shrivastava, and Feng Chen
15. Phenotypic and Physiological Evaluation for Drought and Salinity Stress Responses in Rice Utlwang Batlang, Niranjan Baisakh, Madana M.R. Ambavaram, and Andy Pereira
16. Phenotypic, Physiological, and Molecular Evaluation of Rice Chilling Stress Response at the Vegetative Stage Benildo G. de los Reyes, Song Joong Yun, Venura Herath, Fuyu Xu, Myoung Ryoul Park, Jeong Il Lee, and Ki Young Kim
17. Analysis of Rice Root Hair Morphology Using Cryo-Scanning Electron Microscopy Zhiming Yu, Hanmin Chen, Yanli Tong, and Ping Wu
18. Inoculation and Virulence Assay for Bacterial Blight and Bacterial Leaf Streak of Rice Bing Yang and Adam Bogdanove
19. Inoculation and Scoring Methods for Rice Sheath Blight Disease Yulin Jia, Guangjie Liu, Dong-Soo Park, and Yinong Yang
20. Molecular Approaches to Improve Rice Abiotic Stress Tolerance Junya Mizoi and Kazuko Yamaguchi-Shinozaki
21. Molecular Strategies to Improve Rice Disease Resistance Emily E. Helliwell and Yinong Yang
22. Molecular Strategies to Engineer Transgenic Rice Seed Compartments for Large-Scale Production of Plant-Made Pharmaceuticals Trevor Greenham and Illimar Altosaar
Appendix: Genomic and Bioinformatic Resources for Rice Research Wenhua Liu, Kabin Xie, and Yinong Yang Vibha Srivastava
