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Plant Reverse Genetics
Methods and Protocols
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Main description:

After the generation of genome sequence data from a wide variety of plants, databases are filled with sequence information of genes with no known biological function, and while bioinformatics tools can help analyze genome sequences and predict gene structures, experimental approaches to discover gene functions need to be widely implemented. In Plant Reverse Genetics: Methods and Protocols, leading researchers in the field describe cutting-edge methods, both high-throughput and genome-wide, involving the models Arabidopsis and rice as well as several other plants to provide comparative functional genomics information. With chapters on the analysis of high-throughput genome sequence data, the identification of non-coding RNA from sequence information, the comprehensive analysis of gene expression by microarrays, and metabolomic analysis, the thorough methods of the book are fully supported by scripts to aid their computational use. Written in the highly successful Methods in Molecular Biology™ series format, the chapters contain introductions to their respective topics, lists of the necessary materials, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls.

Authoritative and essential, Plant Reverse Genetics: Methods and Protocols is an ideal guide for researchers seeking an understanding of how the complex web of plant genes work together in a systems biology view.


Feature:

Presents an experimental framework to ascribe functions to plant genes in model and crop plants


Describes methods for generating mutants in model and specific target plants


Includes detailed protocols for the analysis of transcriptome, metabolome, and ultra high-throughput sequencing data


Examines high-throughput analysis supported by simple computer scripts to automate the process


Back cover:

After the generation of genome sequence data from a wide variety of plants, databases are filled with sequence information of genes with no known biological function, and while bioinformatics tools can help analyze genome sequences and predict gene structures, experimental approaches to discover gene functions need to be widely implemented. In Plant Reverse Genetics: Methods and Protocols, leading researchers in the field describe cutting-edge methods, both high-throughput and genome-wide, involving the models Arabidopsis and rice as well as several other plants to provide comparative functional genomics information. With chapters on the analysis of high-throughput genome sequence data, the identification of non-coding RNA from sequence information, the comprehensive analysis of gene expression by microarrays, and metabolomic analysis, the thorough methods of the book are fully supported by scripts to aid their computational use. Written in the highly successful Methods in Molecular Biology™ series format, the chapters contain introductions to their respective topics, lists of the necessary materials, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls.

Authoritative and essential, Plant Reverse Genetics: Methods and Protocols is an ideal guide for researchers seeking an understanding of how the complex web of plant genes work together in a systems biology view.


Contents:

1. Analysis of High-Throughput Sequencing Data


Shrinivasrao P. Mane, Thero Modise, and Bruno W. Sobral



2. Identification of Plant MicroRNAs Using Expressed Sequence Tag Analysis


Taylor P. Frazier and Baohong Zhang



3. Microarray Data Analysis


Saroj K. Mohapatra and Arjun Krishnan



4. Setting Up Reverse Transcription Quantitative-PCR Experiments


Madana M.R. Ambavaram and Andy Pereira



5. Virus-Induced Gene Silencing in Nicotiana benthamiana and Other Plant Species


Andrew Hayward, Meenu Padmanabhan, and S. P. Dinesh-Kumar



6. Agroinoculation and Agroinfiltration: Simple Tools for Complex Gene Function Analyses


Zarir Vaghchhipawala, Clemencia M. Rojas, Muthappa Senthil-Kumar, and Kirankumar S. Mysore



7. Full-Length cDNA Overexpressor Gene Hunting System (FOX Hunting System)


Mieko Higuchi, Youichi Kondou, Takanari Ichikawa, and Minami Matsui



8. Activation Tagging with En/Spm-I/dSpm Transposons in Arabidopsis


Nayelli Marsch-Martínez and Andy Pereira



9. Activation Tagging and Insertional Mutagenesis in Barley


Michael A. Ayliffe and Anthony J. Pryor



10. Methods for Rice Phenomics Studies


Chyr-Guan Chern, Ming-Jen Fan, Sheng-Chung Huang, Su-May Yu, Fu-Jin Wei,


Cheng-Chieh Wu, Arunee Trisiriroj, Ming-Hsing Lai, Shu Chen, and Yue-Ie C. Hsing



11. Development of an Efficient Inverse PCR Method for Isolating Gene Tags from T-DNA Insertional Mutants in Rice


Sung-Ryul Kim, Jong-Seong Jeon, and Gynheung An



12. Transposon Insertional Mutagenesis in Rice


Narayana M. Upadhyaya, Qian-Hao Zhu, and Ramesh S. Bhat



13. Reverse Genetics in Medicago truncatula Using Tnt1 Insertion Mutants


Xiaofei Cheng, Jiangqi Wen, Million Tadege, Pascal Ratet, and Kirankumar S. Mysore



14. Screening Arabidopsis Genotypes for Drought Stress Resistance


Amal Harb and Andy Pereira



15. Protein Tagging for Chromatin Immunoprecipitation (ChIP) from Arabidopsis


Stefan de Folter



16. Yeast One-Hybrid Screens for Detection of Transcription Factor DNA Interactions


Pieter B.F. Ouwerkerk and Annemarie H. Meijer



17. Plant Metabolomics by GC-MS and Differential Analysis


Joel L. Shuman, Diego F. Cortes, Jenny M. Armenta, Revonda M. Pokrzywa, Pedro Mendes, and Vladimir Shulaev



18. Gramene Database: A Hub for Comparative Plant Genomics


Pankaj Jaiswal


PRODUCT DETAILS

ISBN-13: 9781607616818
Publisher: Springer (Humana Press)
Publication date: October, 2010
Pages: 290
Weight: 743g
Availability: POD
Subcategories: Genetics
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